Contacts of the helix formed by residues 73 - 93 (chain A) in PDB entry 1CEZ
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 73 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72A PRO* 1.3 70.3 - - - +
74A ILE* 1.3 57.9 + - - +
75A THR 3.0 0.7 - - - -
76A THR* 3.0 26.6 + - - +
77A LEU* 3.0 27.6 + - + +
123A LEU* 6.4 1.3 - - + -
250A TYR* 3.9 32.3 - - + -
253A ALA* 4.4 9.2 - - + -
254A ILE* 3.6 32.8 - - + -
257A ARG* 4.2 21.7 - - - +
260A ALA* 3.1 29.3 + - + +
261A LEU* 4.4 4.3 - - + -
264A ILE* 4.9 3.4 - - + -
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Residues in contact with ILE 74 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A MET* 4.1 21.3 - - - -
51A PHE* 3.1 13.4 - - + -
54A MET* 4.1 26.2 - - - -
72A PRO* 4.6 4.3 - - + +
73A LEU* 1.3 77.4 - - - +
75A THR* 1.3 63.5 + - + +
76A THR 3.2 0.4 - - - -
77A LEU* 4.1 4.3 - - + -
78A LEU* 3.3 29.5 + - + +
116A TYR* 4.0 18.4 - - + -
119A ILE* 4.0 21.1 - - + -
260A ALA 4.5 0.8 + - - +
261A LEU 6.1 0.2 - - - -
263A GLY* 4.3 16.2 - - - +
264A ILE* 3.6 33.1 - - + +
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Residues in contact with THR 75 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A PHE* 3.8 10.1 - - + -
54A MET* 3.9 33.9 - - + +
55A PHE* 3.7 44.5 - - + -
72A PRO* 2.4 36.9 + - + +
74A ILE* 1.3 78.8 - - - +
76A THR* 1.3 66.2 + - - +
79A PRO* 3.2 16.9 - - - +
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Residues in contact with THR 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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72A PRO 5.4 0.7 - - - +
73A LEU* 3.0 15.0 + - - +
75A THR* 1.3 86.4 - - - +
77A LEU* 1.3 82.2 + - - +
78A LEU 3.3 0.9 - - - -
79A PRO* 3.0 16.6 - - - +
80A LYS* 3.0 42.2 + - - +
250A TYR* 5.2 1.9 + - - -
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Residues in contact with LEU 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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73A LEU* 3.0 32.9 + - + +
74A ILE* 4.2 5.6 - - + +
76A THR* 1.3 85.4 + - - +
78A LEU* 1.3 64.0 + - - +
80A LYS* 3.4 2.4 + - - +
81A MET* 3.0 24.8 + - - +
119A ILE* 4.2 24.7 - - + -
123A LEU* 5.3 1.3 - - + -
224A THR* 3.9 21.0 - - + +
226A MET* 3.7 28.0 - - - -
250A TYR* 3.3 38.8 - - + +
264A ILE* 4.5 5.6 - - + -
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Residues in contact with LEU 78 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A MET* 4.4 23.1 - - + +
51A PHE* 3.8 28.5 - - + -
74A ILE* 3.3 23.6 + - + +
77A LEU* 1.3 78.2 - - - +
79A PRO* 1.3 74.0 - - + +
81A MET* 2.9 6.4 + - - +
82A ILE* 2.8 48.9 + - + +
112A GLU* 4.4 4.5 - - + +
115A ALA* 3.7 22.4 - - + -
116A TYR* 4.0 17.7 - - + +
119A ILE* 5.1 1.6 - - + -
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Residues in contact with PRO 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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51A PHE* 3.7 15.3 - - + -
55A PHE* 5.9 0.4 - - + -
75A THR 3.2 23.6 - - - +
76A THR* 3.0 20.6 - - - +
78A LEU* 1.3 89.3 - - + +
80A LYS* 1.3 64.9 + - + +
82A ILE* 3.9 9.9 - - + +
83A ALA* 3.0 27.8 + - - +
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Residues in contact with LYS 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 THR* 3.0 56.9 + - - +
77A LEU* 5.0 0.2 - - - -
79A PRO* 1.3 81.8 - - + +
81A MET* 1.3 59.2 + - - +
83A ALA* 4.1 5.2 - - - +
84A ARG* 3.4 11.4 + - - +
223A SER* 2.9 40.5 - - - +
224A THR* 3.8 12.6 - - + -
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Residues in contact with MET 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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77A LEU 3.0 18.3 + - - +
78A LEU* 2.9 5.2 + - - +
80A LYS* 1.3 77.3 - - - +
82A ILE* 1.3 64.8 + - - +
83A ALA 3.2 0.2 - - - -
84A ARG* 3.2 2.9 + - - +
85A ILE* 3.1 31.4 + - + +
114A VAL* 5.3 0.4 - - + -
115A ALA* 3.3 28.7 - - + +
118A THR* 3.4 42.2 - - + +
119A ILE* 4.5 8.3 - - + -
216A CYS* 3.7 14.6 - - - +
219A MET* 4.0 11.0 - - + -
220A LEU* 3.8 18.4 - - + +
223A SER* 3.5 17.7 - - - +
224A THR* 4.9 1.1 - - + -
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Residues in contact with ILE 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 LEU* 2.8 47.7 + - + +
79A PRO* 3.9 7.4 - - + +
81A MET* 1.3 71.3 - - - +
83A ALA* 1.3 66.4 + - - +
85A ILE* 3.1 18.1 + - - +
86A ASN* 3.1 25.7 + - - +
111A PRO* 4.2 3.8 - - + +
112A GLU* 3.7 44.0 - - + +
115A ALA* 3.7 19.1 - - + -
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Residues in contact with ALA 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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79A PRO 3.0 18.0 + - - +
80A LYS* 4.1 5.4 - - - +
82A ILE* 1.3 81.1 - - - +
84A ARG* 1.3 55.6 + - - +
86A ASN* 3.5 7.9 + - - +
87A ASP* 2.7 39.8 + - - +
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Residues in contact with ARG 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 LYS 3.4 3.3 + - - +
81A MET* 3.2 5.7 + - - +
82A ILE 3.2 0.6 - - - -
83A ALA* 1.3 75.9 - - - +
85A ILE* 1.3 60.0 + - - +
87A ASP* 3.4 14.2 + - - +
88A TRP* 3.0 43.7 + - - +
91A GLU* 3.0 36.8 + - - -
218A GLU* 5.8 1.2 + - - -
219A MET* 3.9 34.3 - - + +
222A GLU* 2.7 36.8 + - - -
223A SER* 3.5 27.4 - - - +
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Residues in contact with ILE 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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81A MET* 3.1 23.7 + - + +
82A ILE* 3.1 7.1 + - - +
84A ARG* 1.3 77.3 - - - +
86A ASN* 1.3 61.5 + - - +
88A TRP* 3.3 1.4 + - - +
89A PHE* 3.2 50.4 + - + -
111A PRO* 3.6 27.6 - - + +
114A VAL* 3.7 17.5 - - + -
115A ALA* 3.6 34.1 - - + +
219A MET* 3.9 27.4 - - + -
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Residues in contact with ASN 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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82A ILE* 3.1 28.0 + - - +
83A ALA* 3.8 10.9 - - - +
84A ARG 3.3 0.2 - - - -
85A ILE* 1.3 78.2 - - - +
87A ASP* 1.3 63.5 + - - +
89A PHE* 3.6 15.0 + - - +
90A GLU* 3.5 22.6 + - - +
111A PRO* 3.6 28.2 - - - +
112A GLU* 4.8 1.4 - - - +
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Residues in contact with ASP 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 ALA* 2.7 24.7 + - - +
84A ARG* 3.9 19.0 - - - +
86A ASN* 1.3 78.0 - - - +
88A TRP* 1.3 66.4 + - - +
89A PHE 3.2 0.4 - - - -
90A GLU* 3.2 18.5 + - - +
91A GLU* 3.1 30.6 + - - +
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Residues in contact with TRP 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 ARG* 3.0 40.4 + - - +
85A ILE 3.3 3.1 + - - +
87A ASP* 1.3 75.4 - - - +
89A PHE* 1.3 95.4 + + - +
91A GLU* 3.2 11.3 + - + +
92A VAL* 3.0 36.6 + - + +
100A PRO* 4.0 22.2 - - + +
102A ALA* 4.0 10.1 - - + -
103A PHE* 3.5 29.4 - + + -
106A LEU* 3.9 17.7 - - + -
215A ARG* 3.8 19.9 - - + +
218A GLU* 5.4 5.9 + - - -
219A MET* 3.8 28.9 - - + -
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Residues in contact with PHE 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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85A ILE* 3.2 33.8 + - + -
86A ASN* 3.6 18.4 - - - +
87A ASP 3.2 0.4 - - - -
88A TRP* 1.3 109.5 - + - +
90A GLU* 1.3 62.4 + - + +
92A VAL* 3.2 2.6 + - - +
93A LYS* 3.1 45.4 + - - +
103A PHE* 3.7 25.1 - + + -
106A LEU* 3.7 26.7 - - + -
107A GLN* 4.0 19.5 - - + -
109A ILE 4.9 6.7 - - - -
111A PRO* 5.3 5.4 - - + -
114A VAL* 6.0 0.9 - - + -
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Residues in contact with GLU 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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86A ASN 3.5 10.0 + - - +
87A ASP* 3.2 24.1 + - - +
89A PHE* 1.3 79.3 - - + +
91A GLU* 1.3 63.4 + - + +
93A LYS* 3.3 6.9 + - + +
94A ALA* 3.0 27.4 + - - +
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Residues in contact with GLU 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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84A ARG* 3.0 38.1 + - - -
87A ASP* 3.1 19.6 + - - +
88A TRP* 3.2 13.8 + - + +
90A GLU* 1.3 77.2 - - + +
92A VAL* 1.3 61.7 + - + +
94A ALA* 3.7 9.6 + - - +
95A LYS* 3.8 34.5 - - - +
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Residues in contact with VAL 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 TRP* 3.0 44.1 + - + +
89A PHE 3.6 7.9 - - - +
90A GLU 3.2 0.4 - - - -
91A GLU* 1.3 77.2 - - + +
93A LYS* 1.3 61.0 + - - +
95A LYS* 3.8 5.8 + - - +
99A ARG* 2.9 31.4 + - + -
100A PRO* 4.0 20.6 - - + -
103A PHE* 3.7 42.8 - - + -
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Residues in contact with LYS 93 (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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89A PHE* 3.1 30.7 + - - +
90A GLU* 4.0 6.5 - - + +
92A VAL* 1.3 75.7 - - - +
94A ALA* 1.3 57.2 + - - +
95A LYS 3.2 4.4 + - - -
99A ARG* 3.0 24.7 + - - +
103A PHE* 3.8 29.4 - - + -
107A GLN* 4.8 10.9 - - - +
17T A 3.5 13.0 + - - +
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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
------------------------------------------------------------
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