Contacts of the helix formed by residues 75 - 92 (chain A) in PDB entry 2W3C
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 ASP 75 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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72A ASP* 3.0 22.3 + - - +
73A ARG 4.5 0.2 - - - -
74A SER* 1.3 80.1 + - - +
76A SER* 1.3 62.1 + - - +
77A GLU* 3.4 20.3 + - - +
78A ILE* 3.1 39.2 + - + +
79A ILE* 3.2 6.4 + - - +
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Residues in contact with SER 76 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73A ARG 5.0 3.6 - - - -
74A SER 3.8 3.8 + - - -
75A ASP* 1.3 71.2 + - - +
77A GLU* 1.3 66.0 + - - +
79A ILE* 3.8 9.5 - - - +
80A GLY* 2.9 24.4 + - - -
135A ASP* 3.4 21.8 + - - -
137A HIS* 2.7 36.4 + - - -
138A VAL* 3.9 8.6 - - - +
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Residues in contact with GLU 77 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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75A ASP* 3.3 10.5 - - - +
76A SER* 1.3 81.3 + - - +
78A ILE* 1.3 59.2 + - - +
80A GLY* 3.6 1.2 + - - -
81A TYR* 3.3 21.7 + - - +
137A HIS* 3.5 28.3 + - - -
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Residues in contact with ILE 78 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68A VAL* 3.7 27.8 - - + -
72A ASP* 3.8 18.2 - - + +
75A ASP* 3.1 39.6 + - + +
77A GLU* 1.3 75.6 - - - +
79A ILE* 1.3 70.5 + - - +
80A GLY 3.2 0.2 - - - -
81A TYR* 3.4 24.8 + - + +
82A ALA* 3.1 23.0 + - - +
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Residues in contact with ILE 79 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68A VAL* 3.6 23.8 - - + +
69A LEU* 3.6 18.4 - - + -
72A ASP 4.1 3.1 - - - +
73A ARG* 3.6 41.7 - - + +
75A ASP 3.2 13.1 + - - +
76A SER* 3.4 10.1 + - - +
78A ILE* 1.3 79.9 - - - +
80A GLY* 1.3 63.7 + - - +
81A TYR 3.2 0.3 + - - -
82A ALA* 3.2 2.4 + - - +
83A LEU* 2.9 42.1 + - + +
130A LEU* 3.8 19.7 - - + -
138A VAL* 4.0 9.9 - - + -
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Residues in contact with GLY 80 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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76A SER 2.9 15.2 + - - -
77A GLU 3.6 2.4 + - - -
78A ILE 3.2 0.2 - - - -
79A ILE* 1.3 77.4 - - - +
81A TYR* 1.3 55.5 - - - +
83A LEU* 3.8 2.2 + - - -
84A ASP* 3.0 28.8 + - - +
137A HIS* 3.1 28.9 - - - +
138A VAL* 4.5 3.6 - - - +
141A PRO* 3.9 6.8 - - - +
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Residues in contact with TYR 81 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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65A LEU* 4.0 17.6 - - + +
77A GLU 3.3 17.5 + - - +
78A ILE* 3.6 26.5 - - + +
79A ILE 3.1 0.6 - - - -
80A GLY* 1.3 76.0 - - - +
82A ALA* 1.3 59.1 + - + +
84A ASP* 3.4 6.3 + - + +
85A THR* 2.8 62.3 + - - +
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Residues in contact with ALA 82 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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65A LEU* 3.9 31.8 - - + +
68A VAL* 4.3 9.2 - - + -
69A LEU* 3.8 16.4 - - + -
78A ILE 3.1 14.1 + - - +
79A ILE 3.8 2.7 - - - +
81A TYR* 1.3 85.2 - - + +
83A LEU* 1.3 60.3 + - - +
85A THR* 3.7 1.1 - - - -
86A LEU* 2.8 36.9 + - - +
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Residues in contact with LEU 83 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69A LEU* 3.7 24.9 - - + -
79A ILE* 2.9 36.0 + - + +
80A GLY 4.1 0.7 - - - +
82A ALA* 1.3 75.4 - - - +
84A ASP* 1.3 59.6 + - - +
86A LEU* 3.3 5.5 + - - +
87A TYR* 2.8 30.5 + - - +
127A LEU* 3.5 32.1 - - + -
130A LEU* 4.2 7.9 - - + -
138A VAL* 3.2 36.3 - - + +
141A PRO* 3.8 18.0 - - + +
142A GLY* 4.2 5.2 - - - +
145A LEU* 4.2 10.7 - - + +
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Residues in contact with ASP 84 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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80A GLY 3.0 20.9 + - - +
81A TYR* 3.6 7.4 - - + +
82A ALA 3.3 0.2 - - - -
83A LEU* 1.3 78.4 - - - +
85A THR* 1.3 56.4 + - - +
87A TYR* 3.5 9.9 - - - +
88A ASN* 3.1 41.7 + - - +
141A PRO* 3.8 17.4 - - + +
144A LYS* 4.5 12.3 + - - -
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Residues in contact with THR 85 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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65A LEU* 3.4 26.5 - - + -
81A TYR* 2.8 47.7 + - - +
82A ALA* 3.9 4.3 - - - -
83A LEU 3.3 0.2 - - - -
84A ASP* 1.3 74.4 - - - +
86A LEU* 1.3 65.7 + - - +
88A ASN* 3.3 13.5 + - + +
89A ILE* 3.1 28.2 + - + +
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Residues in contact with LEU 86 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62A MET* 3.7 35.7 - - + +
65A LEU* 3.9 27.1 - - + -
66A ILE* 4.5 8.3 - - + -
69A LEU* 3.7 28.5 - - + -
82A ALA 2.8 24.3 + - - +
83A LEU* 3.7 4.5 - - - +
85A THR* 1.3 75.4 - - - +
87A TYR* 1.3 59.6 + - - +
89A ILE* 3.2 6.8 + - + +
90A ILE* 2.9 34.7 + - + +
117A PHE* 4.2 21.8 - - + -
145A LEU* 3.9 16.4 - - + -
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Residues in contact with TYR 87 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83A LEU 2.8 16.5 + - - +
84A ASP* 3.5 14.8 - - - +
86A LEU* 1.3 71.8 - - - +
88A ASN* 1.3 74.4 + - - +
91A SER* 2.9 54.7 + - - +
141A PRO* 4.7 2.9 - - + +
144A LYS* 3.4 67.8 - - + +
145A LEU* 3.8 19.8 - - + +
148A SER* 4.3 8.3 - - - -
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Residues in contact with ASN 88 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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84A ASP* 3.1 27.5 + - - +
85A THR* 3.3 18.0 + - + +
86A LEU 3.2 0.2 - - - -
87A TYR* 1.3 86.5 - - - +
89A ILE* 1.3 64.1 + - + +
91A SER* 4.3 1.7 - - - -
92A ASN* 3.5 21.1 + - - -
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Residues in contact with ILE 89 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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58A GLY 4.6 8.3 - - - +
61A ALA 4.0 12.1 - - - +
62A MET* 4.3 20.4 - - + -
65A LEU* 3.8 24.0 - - + -
85A THR* 3.1 21.9 + - + +
86A LEU* 3.2 8.5 + - + +
88A ASN* 1.3 79.0 - - + +
90A ILE* 1.3 61.5 + - + +
92A ASN* 4.0 10.9 + - - -
113A PHE* 3.6 41.6 - - + -
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Residues in contact with ILE 90 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62A MET* 4.5 10.3 - - + -
86A LEU* 2.9 23.8 + - + +
87A TYR 4.4 0.4 - - - +
89A ILE* 1.3 75.9 - - - +
91A SER* 1.3 60.9 + - - +
92A ASN* 3.5 6.7 + - - -
111A SER* 4.1 3.6 + - - -
113A PHE* 4.3 19.7 - - + -
114A THR* 3.6 21.4 + - + +
117A PHE* 4.1 34.5 - - + -
145A LEU* 3.8 20.0 - - + -
148A SER* 4.0 17.0 - - - +
149A LEU* 4.3 13.9 - - + -
152A GLN* 2.8 31.5 + - - +
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Residues in contact with SER 91 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87A TYR* 2.9 51.4 + - - -
88A ASN* 4.3 2.0 - - - -
90A ILE* 1.3 76.9 - - - +
92A ASN* 1.3 73.9 + - - +
148A SER* 3.7 11.2 - - - -
152A GLN* 4.7 1.3 + - - +
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Residues in contact with ASN 92 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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88A ASN 3.5 13.9 + - - -
89A ILE 4.0 8.7 + - - -
90A ILE 3.5 4.5 + - - +
91A SER* 1.3 87.5 - - - +
111A SER* 3.2 26.5 + - - -
113A PHE* 6.0 1.6 - - - -
152A GLN* 5.0 4.3 + - - +
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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