Contacts of the strand formed by residues 147 - 157 (chain C) in PDB entry 3IEQ
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 147 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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139A LEU* 4.3 9.8 - - - +
12C HIS 3.1 14.4 - - - -
13C GLN* 4.2 0.4 - - - -
14C LEU* 3.9 9.0 - - - +
101C ILE 4.5 0.9 - - - +
102C ALA* 5.2 1.2 - - - -
103C GLN 5.5 0.3 + - - -
141C TYR* 3.7 5.6 + - - -
142C LEU* 3.6 26.2 - - - +
145C GLY* 3.4 1.3 - - - -
146C GLU* 1.3 81.4 + - - +
148C ILE* 1.3 71.4 + - - +
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Residues in contact with ILE 148 (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 VAL* 3.4 3.7 - - - +
12C HIS* 3.0 28.8 + - - +
14C LEU* 3.8 31.4 - - + -
20C LEU* 4.1 9.0 - - + -
22C ILE* 4.1 19.1 - - + -
33C LEU* 4.0 9.6 - - + -
41C VAL* 3.3 21.5 - - + +
100C ILE* 3.8 24.7 - - + -
101C ILE 3.5 13.0 - - - +
102C ALA* 3.9 20.9 - - + -
103C GLN 5.6 0.2 - - - +
104C ALA 4.2 8.1 - - - +
105C PRO* 5.1 0.4 - - + -
142C LEU* 3.8 0.4 - - - +
147C GLY* 1.3 80.2 - - - +
149C GLU* 1.3 62.9 + - - +
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Residues in contact with GLU 149 (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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9B TYR* 5.4 0.2 - - - -
163B MG 4.2 9.2 - - - -
9C TYR* 3.4 29.7 + - + -
10C ASP 3.3 13.0 - - - +
11C VAL* 4.1 4.9 - - + -
41C VAL* 4.2 1.3 - - - -
100C ILE* 3.6 3.1 - - - +
101C ILE* 2.7 48.9 + - + +
141C TYR* 4.8 4.7 + - - -
142C LEU* 3.6 30.6 - - + +
148C ILE* 1.3 78.7 - - - +
150C ALA* 1.3 67.3 + - - +
151C GLN* 2.8 31.0 + - - +
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Residues in contact with ALA 150 (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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9C TYR* 3.5 3.3 - - - -
10C ASP 2.9 31.6 + - - +
41C VAL* 3.5 31.6 - - + +
42C LEU* 3.6 22.7 - - + +
45C ALA* 3.6 7.0 - - + +
99C THR 3.2 10.3 - - - +
100C ILE* 4.8 1.6 - - - -
149C GLU* 1.3 77.3 - - - +
151C GLN* 1.3 65.5 + - - +
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Residues in contact with GLN 151 (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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7B GLN* 2.9 30.1 + - - +
8B GLY 4.6 0.7 - - - +
9B TYR* 3.4 42.3 - - - +
149B GLU* 5.5 0.6 + - - -
151B GLN* 6.2 0.6 - - - +
8C GLY 3.4 7.9 - - - +
9C TYR* 4.7 4.7 - - + +
45C ALA* 4.3 1.9 - - - +
98C SER* 3.1 7.9 - - - -
99C THR* 2.9 35.6 + - - +
101C ILE* 3.6 8.5 - - + +
149C GLU* 2.8 30.4 + - + +
150C ALA* 1.3 75.4 - - - +
152C ALA* 1.3 61.2 + - - +
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Residues in contact with ALA 152 (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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7B GLN* 4.5 5.1 - - - +
7C GLN* 3.2 6.4 - - - +
8C GLY 2.8 35.1 + - - +
45C ALA* 3.6 23.1 - - + +
46C ILE* 3.6 28.5 - - + +
49C ALA* 4.1 4.0 - - + -
96C VAL* 5.3 0.2 - - + -
97C ASP 3.3 10.3 - - - +
98C SER* 4.2 0.9 - - - +
151C GLN* 1.3 77.8 - - - +
153C ALA* 1.3 61.6 + - - +
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Residues in contact with ALA 153 (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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5B ILE* 3.6 23.5 - - + +
6B GLY 4.8 1.6 - - - +
7B GLN* 3.9 28.2 - - + +
6C GLY 3.4 7.2 - - - +
7C GLN* 5.3 2.2 - - + -
49C ALA* 4.4 1.1 - - - -
96C VAL* 3.4 4.2 - - - +
97C ASP* 2.8 35.2 + - + +
152C ALA* 1.3 76.2 - - - +
154C ALA* 1.3 61.1 + - - +
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Residues in contact with ALA 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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5B ILE* 3.2 9.9 - - - +
4C ARG 4.0 0.3 - - - +
5C ILE* 3.4 2.3 - - - -
6C GLY 2.9 32.1 + - - -
46C ILE 5.2 0.2 - - - +
49C ALA* 4.0 22.2 - - + +
50C LEU* 3.7 31.2 - - + -
53C ALA* 4.0 3.2 - - + +
95C ASN 3.4 8.1 - - - +
96C VAL* 4.1 5.8 - - + -
153C ALA* 1.3 76.2 - - - +
155C LEU* 1.3 59.0 - - - +
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Residues in contact with LEU 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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155A LEU* 5.1 2.7 - - + -
3B PHE* 3.1 49.4 - - + +
4B ARG* 3.8 9.2 - - - +
5B ILE* 3.5 10.2 - - + +
155B LEU* 4.7 3.8 - - + -
3C PHE* 4.0 28.5 - - + -
4C ARG 3.3 17.9 - - - +
5C ILE* 3.6 18.2 - - + -
93C ILE* 4.0 0.9 - - - +
94C ARG* 2.8 27.1 + - + -
95C ASN* 3.0 27.0 + - - +
154C ALA* 1.3 72.3 - - - +
156C VAL* 1.3 65.4 + - - +
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Residues in contact with VAL 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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3C PHE* 3.3 10.6 - - - -
4C ARG* 2.9 40.9 + - + +
50C LEU* 4.3 18.8 - - + +
53C ALA* 3.8 32.8 - - + +
54C ALA 4.5 0.4 - - - +
86C VAL* 4.7 8.3 - - + -
91C PHE* 3.6 28.0 - - + -
92C ALA 3.3 13.9 - - - +
93C ILE* 4.2 11.9 - - + -
94C ARG* 4.1 2.0 - - - +
154C ALA 5.0 0.2 - - - -
155C LEU* 1.3 79.8 - - - +
157C VAL* 1.3 61.9 + - - +
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Residues in contact with VAL 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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1C MET* 3.7 36.6 - - + -
2C ASP 3.4 20.0 - - - +
3C PHE* 4.0 15.0 - - + +
91C PHE* 3.3 5.6 - - - -
92C ALA* 2.8 44.7 + - + +
94C ARG* 3.6 33.4 - - + +
156C VAL* 1.3 74.9 - - - +
158C ARG* 1.3 71.1 + - - +
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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