Contacts of the helix formed by residues 66 - 83 (chain A) in PDB entry 1IEQ
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 THR 66 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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62A ARG* 5.3 1.8 - - - +
64A GLY 4.4 5.2 - - - +
65A ALA* 1.3 73.9 - - - +
67A ALA* 1.3 66.3 + - - +
68A LYS* 3.4 9.7 + - - +
69A GLU* 2.8 47.0 + - - +
70A TRP* 3.2 18.5 + - - -
372A LEU* 5.1 2.0 - - - -
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Residues in contact with ALA 67 (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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66A THR* 1.3 74.6 - - - +
68A LYS* 1.3 57.6 + - - +
70A TRP* 3.2 5.4 + - - +
71A GLN* 2.9 30.7 + - - +
137A ALA 3.4 22.0 - - - +
138A THR* 4.5 7.2 - - + -
369A ALA* 3.7 28.5 - - + +
372A LEU* 4.0 23.2 - - + +
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Residues in contact with LYS 68 (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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66A THR* 3.2 9.0 + - - +
67A ALA* 1.3 72.9 - - - +
69A GLU* 1.3 56.2 + - + +
71A GLN* 3.5 12.0 - - + +
72A ASP* 2.7 50.9 + - - +
366A PRO* 3.5 41.6 + - + +
369A ALA* 3.6 18.0 - - + +
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Residues in contact with GLU 69 (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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61A PRO* 4.8 9.2 - - + +
62A ARG* 2.9 49.4 + - - +
65A ALA* 3.1 13.9 - - + +
66A THR* 2.8 42.9 + - - +
68A LYS* 1.3 77.1 - - + +
70A TRP* 1.3 57.6 + - - +
72A ASP* 3.2 9.9 + - - +
73A MET* 2.9 28.6 + - - +
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Residues in contact with TRP 70 (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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55A SER* 4.0 14.4 - - - -
59A SER 3.8 9.0 - - - -
60A VAL* 3.4 33.6 - - + +
61A PRO* 3.5 18.2 - - + +
65A ALA* 4.1 15.1 + - + +
66A THR 3.2 25.9 + - - -
67A ALA 3.2 7.0 + - - +
69A GLU* 1.3 76.4 - - - +
71A GLN* 1.3 67.3 + - - +
73A MET* 2.9 26.9 + - + +
74A VAL* 2.9 26.7 + - + +
94A ILE* 4.2 14.4 - - + -
102A ASN* 4.5 4.3 - - + -
103A VAL* 3.6 38.0 - - + +
104A TYR 5.2 0.6 - - - +
138A THR* 3.3 22.0 - - + +
140A ILE* 3.9 29.8 - - + -
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Residues in contact with GLN 71 (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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67A ALA 2.9 14.0 + - - +
68A LYS* 3.5 17.5 - - + +
70A TRP* 1.3 76.5 - - - +
72A ASP* 1.3 61.0 + - - +
74A VAL* 3.4 1.5 + - - +
75A ASP* 2.9 38.4 + - - +
136A ARG 4.1 2.2 + - - -
137A ALA 2.7 24.0 + - - -
138A THR 3.3 17.0 + - - -
139A GLY* 3.7 0.9 - - - +
364A ALA* 3.4 27.3 - - + +
365A ASP 3.2 17.7 + - - -
366A PRO* 3.3 27.8 - - - +
369A ALA* 3.7 16.4 - - - +
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Residues in contact with ASP 72 (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 LYS* 2.7 37.9 + - - +
69A GLU* 3.5 8.3 - - - +
71A GLN* 1.3 76.3 - - - +
73A MET* 1.3 58.2 + - - +
75A ASP* 4.0 7.3 - - - +
76A GLY* 3.0 24.9 + - - -
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Residues in contact with MET 73 (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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37A ARG* 3.3 30.1 - - - -
61A PRO* 3.5 22.4 - - + -
69A GLU 2.9 13.8 + - - +
70A TRP* 2.9 29.8 + - + +
72A ASP* 1.3 77.9 - - - +
74A VAL* 1.3 69.4 + - + +
76A GLY* 3.2 3.2 + - - -
77A PHE* 3.2 42.2 + - + -
92A TYR* 3.0 39.7 - - + +
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Residues in contact with VAL 74 (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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70A TRP* 2.9 15.1 + - - +
71A GLN 3.9 3.4 - - - +
73A MET* 1.3 88.9 - - + +
75A ASP* 1.3 71.0 + - - +
77A PHE* 3.1 11.1 + - - +
78A GLN* 2.9 21.0 + - + +
90A MET* 3.7 24.1 - - + +
92A TYR* 4.2 11.9 - - + -
138A THR 3.9 12.6 - - - +
139A GLY* 3.4 21.3 - - - +
140A ILE* 4.1 17.5 - - + -
141A GLN* 4.5 3.4 - - - +
364A ALA* 5.9 0.7 - - + -
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Residues in contact with ASP 75 (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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71A GLN* 2.9 26.2 + - - +
72A ASP* 4.1 7.5 - - - +
74A VAL* 1.3 77.8 - - - +
76A GLY* 1.3 57.3 - - - +
78A GLN* 3.5 6.2 - - - +
79A LYS* 2.8 42.6 + - - +
362A PRO 4.5 1.2 - - - +
363A TYR* 3.3 23.2 - - + +
364A ALA* 2.9 40.5 + - - +
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Residues in contact with GLY 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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42A PRO* 5.2 5.9 - - - +
72A ASP 3.0 16.5 + - - -
73A MET 3.6 4.7 - - - -
74A VAL 3.1 0.6 - - - -
75A ASP* 1.3 79.5 - - - +
77A PHE* 1.3 63.6 + - - +
79A LYS* 3.6 10.7 + - - +
80A ALA* 3.6 15.6 + - - +
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Residues in contact with PHE 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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37A ARG* 3.8 36.6 - - + -
40A ALA* 3.9 22.4 - - + -
41A THR* 5.2 4.0 - - - -
42A PRO* 5.6 4.7 - - + -
45A LEU* 3.5 30.2 - - + +
53A LEU* 3.3 22.7 - - + -
73A MET* 3.2 40.3 + - + -
74A VAL* 3.1 6.3 + - - +
76A GLY* 1.3 75.3 - - - +
78A GLN* 1.3 65.4 + - - +
80A ALA* 3.2 15.4 + - - +
81A CYS* 3.2 12.2 + - - -
90A MET* 4.8 3.6 - - - -
92A TYR* 4.0 12.1 - + - -
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Residues in contact with GLN 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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74A VAL* 2.9 16.8 + - + +
75A ASP* 3.5 7.4 - - - +
77A PHE* 1.3 74.3 - - - +
79A LYS* 1.3 56.2 + - - +
81A CYS* 3.0 5.1 + - - +
82A MET* 2.7 40.0 + - + +
89A PRO* 3.3 13.1 - - - +
90A MET* 2.8 60.0 + - + +
141A GLN* 3.9 4.0 - - - +
358A LEU* 4.3 0.4 - - - +
362A PRO* 2.9 44.3 + - + +
363A TYR* 3.8 15.7 - - + -
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Residues in contact with LYS 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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75A ASP* 2.8 29.7 + - - +
76A GLY* 3.8 8.7 - - - +
78A GLN* 1.3 73.0 - - - +
80A ALA* 1.3 62.0 + - - +
82A MET* 3.4 2.6 + - - +
83A SER* 3.2 22.7 + - - -
363A TYR* 3.6 28.5 - - + +
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Residues in contact with ALA 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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42A PRO* 3.6 42.6 - - + +
45A LEU* 4.1 9.4 - - + -
46A ARG* 4.0 18.6 - - - +
76A GLY 3.6 7.4 + - - +
77A PHE 3.2 10.9 + - - +
78A GLN 3.1 0.4 - - - -
79A LYS* 1.3 80.2 - - - +
81A CYS* 1.3 61.1 + - - +
83A SER* 2.6 24.9 + - - -
84A THR 3.9 1.9 + - - -
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Residues in contact with CYS 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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45A LEU* 4.0 25.4 - - - -
50A ILE 3.8 15.0 - - - +
77A PHE 3.2 11.4 + - - -
78A GLN* 3.0 15.1 + - - +
80A ALA* 1.3 79.6 - - - +
82A MET* 1.3 58.9 + - - +
83A SER 3.1 0.5 + - - -
84A THR* 2.9 33.9 + - + +
87A GLY* 3.9 0.7 - - - -
88A ILE 3.7 21.7 - - - +
90A MET* 3.6 28.3 - - - +
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Residues in contact with MET 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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78A GLN* 2.7 27.7 + - + +
79A LYS* 3.8 4.5 - - - +
80A ALA 3.3 0.2 - - - -
81A CYS* 1.3 73.1 - - - +
83A SER* 1.3 58.1 + - - +
84A THR 3.3 2.2 + - - +
87A GLY* 3.4 36.4 - - - +
89A PRO* 3.9 27.1 - - + -
359A PHE 5.4 2.5 - - - +
362A PRO* 4.1 20.0 - - + -
363A TYR* 3.4 30.7 - - + +
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Residues in contact with SER 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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46A ARG* 2.8 31.8 + - - +
79A LYS 3.2 9.6 + - - -
80A ALA 2.6 20.9 + - - -
81A CYS 3.0 0.6 - - - -
82A MET* 1.3 76.9 - - - +
84A THR* 1.3 65.8 + - - +
85A ARG 3.8 0.2 + - - -
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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