Contacts of the strand formed by residues 71 - 83 (chain C) in PDB entry 6I53
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 GLU 71 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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49B MET* 5.6 3.3 - - - +
65C VAL* 3.4 10.9 - - - +
66C ASN* 3.0 35.8 + - + +
69C ASN* 3.6 34.0 + - + +
70C MET* 1.3 76.9 - - - +
72C TYR* 1.3 70.8 + - - +
117C LYS* 3.3 35.5 + - + +
118C LYS* 6.2 0.2 - - - +
148C ASP* 4.3 19.1 - - + +
149C ALA 3.3 9.9 - - - +
151C CYS* 4.6 1.1 - - - +
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Residues in contact with TYR 72 (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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62C ILE* 4.3 12.3 - - + -
64C PRO 3.8 7.9 - - - -
65C VAL* 3.8 24.5 - - + +
71C GLU* 1.3 78.9 - - - +
73C THR* 1.3 70.8 + - - +
74C ILE* 4.0 26.5 - - + -
147C ILE 3.4 1.0 - - - +
148C ASP* 3.6 2.3 - - - -
149C ALA* 3.0 48.9 + - + +
150C GLU 4.3 2.0 - - - -
151C CYS* 3.7 22.7 - - + -
165C CYS* 3.6 27.0 + - + -
166C PRO 2.4 31.6 + - - -
167C LEU* 3.4 13.0 - - - +
227C PHE* 4.2 8.8 - + + -
229C LEU* 5.7 2.0 - - + -
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Residues in contact with THR 73 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62C ILE* 3.3 6.6 - - - +
63C GLY* 2.4 45.2 + - - +
64C PRO* 3.9 15.4 + - + +
72C TYR* 1.3 73.3 - - - +
74C ILE* 1.3 65.6 + - - +
75C ASP* 6.1 0.7 - - + -
146C THR* 5.0 11.2 - - + -
147C ILE 3.4 5.4 - - - +
148C ASP* 2.8 24.1 + - - +
197C ARG* 5.6 5.4 - - - +
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Residues in contact with ILE 74 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59C VAL* 4.2 6.1 - - + -
61C SER 3.5 11.2 - - - +
62C ILE* 4.2 8.7 - - + -
72C TYR* 4.0 19.5 - - + -
73C THR* 1.3 78.5 - - - +
75C ASP* 1.3 62.9 + - - +
76C ILE* 3.7 23.8 - - + -
145C LEU 3.8 0.9 - - - +
146C THR* 3.3 3.6 - - - -
147C ILE* 2.8 61.9 + - + +
167C LEU* 3.9 15.9 - - + -
227C PHE* 3.6 38.6 - - + -
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Residues in contact with ASP 75 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59C VAL* 3.8 0.2 - - - -
60C ASN* 2.7 41.6 + - + +
61C SER* 2.9 31.0 + - - +
73C THR* 6.1 0.9 - - + -
74C ILE* 1.3 72.1 - - - +
76C ILE* 1.3 59.9 + - - +
122C HIS* 4.5 0.2 + - - -
144C ARG* 3.0 42.6 + - - +
145C LEU 2.9 17.2 - - - +
146C THR* 3.6 19.9 - - + +
104D GLY 4.3 4.3 - - - +
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Residues in contact with ILE 76 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57C MET* 3.8 37.5 - - + -
58C TYR 3.3 5.2 - - - +
59C VAL* 3.9 9.0 - - - -
60C ASN 4.2 0.2 - - - +
74C ILE* 3.7 26.7 - - + -
75C ASP* 1.3 81.5 + - - +
77C PHE* 1.3 63.3 + - - +
78C PHE* 4.1 13.0 - - + -
113C PHE* 3.8 20.4 - - + -
143C LEU 4.1 0.2 - - - +
144C ARG* 3.5 5.9 - - - +
145C LEU* 2.9 44.4 + - + +
147C ILE* 3.8 24.0 - - + -
167C LEU* 4.7 2.2 - - + -
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Residues in contact with PHE 77 (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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56C ASP 3.8 1.0 - - - +
57C MET* 3.5 3.8 - - - +
58C TYR* 2.8 69.6 + + + +
60C ASN* 3.8 26.7 - - + -
76C ILE* 1.3 72.5 - - - +
78C PHE* 1.3 59.7 + - - +
79C ALA* 4.0 1.0 + - - +
142C THR* 4.5 9.9 - - + -
143C LEU 3.8 1.8 - - - -
144C ARG* 3.7 32.5 - - + -
100D PHE* 4.1 17.9 - + - -
102D HIS* 5.4 2.7 - - - -
160D TYR* 3.5 39.5 - + - -
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Residues in contact with PHE 78 (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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110B THR* 4.6 3.4 - - + -
55C THR* 4.3 12.6 - - + -
56C ASP 3.7 6.1 - - - -
57C MET* 3.9 25.1 - - + -
76C ILE* 4.1 15.5 - - + -
77C PHE* 1.3 71.4 - - - +
79C ALA* 1.3 61.0 + - - +
80C GLN* 3.2 33.6 - - + +
111C THR* 4.1 8.7 - - + -
113C PHE* 4.3 12.8 - + - -
141C TYR 3.7 1.9 - - - +
142C THR* 3.3 5.1 - - - +
143C LEU* 3.0 50.5 + - + +
145C LEU* 4.3 9.4 - - + -
169C PHE* 3.5 46.2 - + - -
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Residues in contact with ALA 79 (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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54C HIS 4.6 0.7 - - - -
55C THR* 3.3 5.2 - - - -
56C ASP* 2.7 53.3 + - + +
77C PHE 5.4 0.7 - - - +
78C PHE* 1.3 76.2 - - - +
80C GLN* 1.3 66.2 + - - +
81C THR* 5.8 0.7 - - + -
140C LEU* 4.2 11.4 - - + -
141C TYR 3.3 4.3 - - - -
142C THR* 3.4 21.1 - - + +
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Residues in contact with GLN 80 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110B THR* 5.4 2.0 + - - +
53C ILE* 4.0 17.3 - - + -
54C HIS 3.8 5.2 - - - -
55C THR* 4.3 4.7 - - + -
78C PHE* 3.2 30.2 - - + -
79C ALA* 1.3 80.6 - - - +
81C THR* 1.3 62.5 + - - +
82C TRP* 3.7 14.4 - - + -
108C ILE* 5.3 0.2 - - - +
109C PRO* 3.6 29.0 - - - +
111C THR* 2.8 31.7 + - - +
139C VAL 3.3 3.3 - - - +
140C LEU* 3.6 0.9 - - - -
141C TYR* 2.8 45.3 + - + +
143C LEU* 6.2 0.4 - - - -
181C TYR* 4.3 4.9 - - - -
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Residues in contact with THR 81 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52C LEU 3.7 1.6 - - - +
53C ILE* 3.4 4.4 - - - -
54C HIS* 3.0 55.6 + - - +
56C ASP* 6.5 0.7 - - + -
79C ALA* 5.7 0.9 - - + -
80C GLN* 1.3 77.9 - - - +
82C TRP* 1.3 60.7 + - - +
83C TYR* 6.3 0.4 - - - -
138C ARG* 4.1 29.9 - - - +
139C VAL 3.3 5.8 - - - -
140C LEU* 3.7 25.1 - - + -
184C LYS* 4.7 13.2 + - + +
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Residues in contact with TRP 82 (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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44C PRO* 4.8 2.5 - - + -
51C THR* 5.4 5.8 - - - -
52C LEU 3.9 8.1 - - - +
53C ILE* 3.9 19.1 - - + -
54C HIS* 6.0 0.2 - - - -
80C GLN* 3.7 33.4 - - + -
81C THR* 1.3 77.3 - - - +
83C TYR* 1.3 78.2 + - - +
84C ASP* 4.2 14.4 + - + +
106C ILE* 4.8 3.3 - - + +
107C TRP* 3.4 45.7 + + + -
108C ILE* 3.8 11.7 - - + -
109C PRO* 3.6 29.6 - - + -
137C GLY 3.8 0.7 - - - +
138C ARG* 3.5 2.4 - - - -
139C VAL* 2.9 53.6 + - + +
141C TYR* 3.6 24.7 - + + -
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Residues in contact with TYR 83 (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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44C PRO* 4.0 13.5 - - - +
45C ASP* 5.1 4.2 - - - +
51C THR* 5.4 4.5 - - - +
52C LEU* 4.6 11.0 + - + -
54C HIS* 5.1 17.0 - + - -
81C THR 6.3 0.4 - - - -
82C TRP* 1.3 80.7 - - - +
84C ASP* 1.3 60.1 + - - +
85C ARG* 4.0 6.6 + - + +
136C ASP* 4.4 19.2 + - + +
137C GLY 3.7 2.9 - - - -
138C ARG* 3.7 47.6 - - + -
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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