Contacts of the helix formed by residues 77 - 99 (chain C) in PDB entry 4ZCU
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 PHE 77 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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24C TYR* 3.9 5.2 - - + -
25C GLU* 3.5 52.9 - - + -
28C PHE* 3.5 33.3 - + + -
76C ASP* 1.3 74.4 - - - +
78C GLU* 1.3 61.6 + - + +
80C PHE* 3.7 0.3 - - - +
81C MET* 2.9 60.7 + - + +
1007C GOL 3.3 25.9 + - - +
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Residues in contact with GLU 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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76C ASP* 3.2 18.4 + - - +
77C PHE* 1.3 84.7 - - + +
79C GLU* 1.3 70.7 + - - +
81C MET* 4.1 4.3 - - - +
82C LYS* 2.9 53.9 + - + +
1007C GOL 4.8 2.3 - - - -
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Residues in contact with GLU 79 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67C GLY 3.7 20.5 - - - +
68C ASP* 3.2 5.6 - - - +
69C VAL* 3.9 6.6 + - + +
70C ASN* 2.6 25.6 + - - +
74C LYS 2.9 12.1 - - - +
75C LEU* 3.4 8.3 - - + +
76C ASP* 2.8 36.5 + - - +
78C GLU* 1.3 85.3 - - - +
80C PHE* 1.3 61.7 + - - +
82C LYS* 3.4 3.4 + - - +
83C TYR* 2.9 31.7 + - - +
1002C CA 2.3 30.3 - - - -
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Residues in contact with PHE 80 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C TYR* 3.6 23.1 - - + -
27C LEU* 3.6 16.2 - - + -
28C PHE* 3.6 36.1 - + + -
31C LEU* 3.5 33.2 - - + -
39C VAL* 5.8 1.8 - - + -
44C LEU* 5.2 4.9 - - + -
63C ILE* 6.4 1.8 - - + -
75C LEU* 4.4 24.1 - - + +
76C ASP 3.1 16.5 + - - +
77C PHE* 3.7 3.8 - + - +
79C GLU* 1.3 78.4 - - - +
81C MET* 1.3 64.7 + - - +
83C TYR* 3.6 7.3 - + - +
84C LEU* 3.0 53.4 + - + +
153C PHE* 4.9 5.6 - + - -
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Residues in contact with MET 81 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23C ARG* 5.2 5.4 - - - +
24C TYR* 3.9 43.9 - - + -
77C PHE* 2.9 49.3 + - + +
78C GLU* 4.1 3.8 - - - +
80C PHE* 1.3 77.3 - - - +
82C LYS* 1.3 58.4 + - - +
85C LYS* 2.9 43.4 + - + +
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Residues in contact with LYS 82 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69C VAL* 6.4 1.3 - - - -
78C GLU* 2.9 40.6 + - + +
79C GLU* 3.8 4.9 - - - +
81C MET* 1.3 76.8 - - - +
83C TYR* 1.3 62.3 + - - +
85C LYS* 3.3 10.6 + - + +
86C ASP* 3.0 43.8 + - - +
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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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63C ILE* 3.6 45.3 - - + +
66C THR* 3.5 37.4 - - + -
67C GLY* 3.8 20.9 - - - -
75C LEU* 6.6 0.2 - - + -
79C GLU 2.9 18.5 + - - +
80C PHE* 3.6 7.6 - + - +
82C LYS* 1.3 76.3 - - - +
84C LEU* 1.3 85.7 + - + +
86C ASP* 3.2 9.8 + - + +
87C HIS* 2.9 43.4 + + + +
152C LEU 5.4 1.0 + - - -
153C PHE* 5.9 0.6 - - - -
155C PRO* 3.7 20.4 + - - +
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Residues in contact with LEU 84 (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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24C TYR* 3.3 23.6 - - + -
27C LEU* 3.9 20.6 - - + -
63C ILE* 5.9 0.4 - - + -
80C PHE* 3.0 52.5 + - + +
83C TYR* 1.3 100.3 - - + +
85C LYS* 1.3 57.7 + - - +
87C HIS* 3.6 4.2 - - + +
88C GLU* 2.9 34.0 + - - +
152C LEU* 3.9 30.7 - - + +
153C PHE* 4.5 13.0 - - + -
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Residues in contact with LYS 85 (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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23C ARG* 5.0 6.1 - - - +
24C TYR* 3.4 24.5 - - + +
81C MET* 2.9 32.5 + - + +
82C LYS* 3.4 12.1 - - + +
84C LEU* 1.3 74.6 - - - +
86C ASP* 1.3 71.8 + - - +
88C GLU* 3.2 5.0 + - - +
89C LYS* 3.0 45.3 + - + +
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Residues in contact with ASP 86 (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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82C LYS* 3.0 29.5 + - - +
83C TYR* 3.6 10.8 - - + +
85C LYS* 1.3 81.7 + - - +
87C HIS* 1.3 57.3 + - - +
89C LYS* 3.1 34.0 + - - +
90C LYS* 2.9 43.7 + - - +
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Residues in contact with HIS 87 (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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83C TYR* 2.9 36.3 + - + +
84C LEU* 3.6 9.2 - - + +
85C LYS 3.2 0.2 - - - -
86C ASP* 1.3 77.1 - - - +
88C GLU* 1.3 61.2 + - - +
90C LYS* 3.2 12.4 + - - +
91C MET* 2.9 50.0 + - + +
151C PHE 2.4 26.1 + - - -
152C LEU* 3.0 26.8 + - + -
154C ASN 2.9 21.8 + - - -
155C PRO* 4.1 4.6 + - + -
156C VAL 3.0 23.7 + - - -
157C THR* 5.2 1.0 - - - +
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Residues in contact with GLU 88 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23C ARG* 5.7 2.0 - - - +
24C TYR* 4.1 16.2 - - + +
84C LEU 2.9 21.6 + - - +
85C LYS 3.6 4.3 - - - +
87C HIS* 1.3 79.9 - - - +
89C LYS* 1.3 62.4 + - + +
91C MET* 3.4 6.8 + - - +
92C LYS* 2.9 27.9 + - - +
144C TRP* 4.2 14.5 - - + -
148C ARG* 3.2 34.3 + - - +
152C LEU* 2.9 41.0 - - + +
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Residues in contact with LYS 89 (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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85C LYS* 3.0 36.1 + - + +
86C ASP* 3.1 37.1 + - - +
88C GLU* 1.3 77.8 - - - +
90C LYS* 1.3 65.5 + - + +
92C LYS* 3.3 5.7 + - - +
93C LEU* 3.0 30.5 + - + +
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Residues in contact with LYS 90 (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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119A GLY* 6.1 2.6 - - - -
86C ASP* 2.9 28.7 + - - +
87C HIS* 3.5 14.4 - - - +
89C LYS* 1.3 78.0 - - + +
91C MET* 1.3 65.7 + - + +
93C LEU* 3.1 16.9 + - + +
94C ALA* 2.9 26.7 + - - +
157C THR* 3.3 45.0 + - + +
158C ASP* 5.6 1.0 - - - -
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Residues in contact with MET 91 (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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87C HIS* 2.9 41.0 + - + +
88C GLU* 3.9 9.2 - - - +
90C LYS* 1.3 81.7 - - + +
92C LYS* 1.3 61.1 + - - +
94C ALA* 3.4 2.6 + - + +
95C PHE* 2.9 23.2 + - - +
144C TRP* 4.0 6.5 - - + -
147C TRP* 2.9 24.1 + - + +
148C ARG* 5.6 2.0 - - - -
151C PHE* 3.5 30.7 - - + +
156C VAL* 3.1 39.7 - - + +
157C THR 4.0 12.3 - - - -
158C ASP* 4.2 2.7 - - - +
162C ILE* 4.2 13.5 - - + -
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Residues in contact with LYS 92 (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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88C GLU* 2.9 18.7 + - - +
89C LYS* 3.7 5.2 - - - +
91C MET* 1.3 73.9 - - - +
93C LEU* 1.3 65.9 + - - +
95C PHE* 3.2 2.7 + - + +
96C LYS* 3.0 51.6 + - + +
144C TRP* 3.5 46.4 - - + +
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Residues in contact with LEU 93 (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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113A GLN 5.8 0.2 - - - +
116A GLN* 3.9 45.1 - - + +
117A THR* 4.5 19.8 - - + +
89C LYS* 3.0 19.7 + - + +
90C LYS* 3.1 17.9 + - + +
92C LYS* 1.3 77.9 - - - +
94C ALA* 1.3 62.4 + - - +
96C LYS* 3.9 21.6 - - + +
97C SER* 3.0 27.1 + - - -
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Residues in contact with ALA 94 (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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117A THR 5.3 4.0 + - - +
90C LYS 2.9 13.1 + - - +
91C MET* 3.6 10.5 - - + +
92C LYS 3.3 0.2 - - - -
93C LEU* 1.3 75.9 - - - +
95C PHE* 1.3 62.6 + - - +
97C SER* 2.8 23.3 + - - -
98C LEU* 2.9 13.7 + - - +
147C TRP* 3.9 18.2 - - + -
158C ASP* 5.0 1.3 - - - -
159C ILE* 4.6 18.4 - - + +
162C ILE* 3.9 16.2 - - + -
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Residues in contact with PHE 95 (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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91C MET 2.9 14.9 + - - +
92C LYS* 3.2 9.8 + - + +
94C ALA* 1.3 75.0 - - - +
96C LYS* 1.3 65.2 + - + +
98C LEU* 2.9 8.0 + - - +
99C ASP* 2.9 37.7 + - + +
104C GLY* 4.0 14.1 - - - -
105C LYS 4.5 0.2 - - - -
106C ILE* 3.5 32.0 - - + +
142C VAL 4.0 1.3 - - - -
143C ASP* 3.4 27.6 - - - -
144C TRP* 3.3 42.6 - + + -
147C TRP* 3.4 34.4 - + + +
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Residues in contact with LYS 96 (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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92C LYS* 3.0 52.4 + - + +
93C LEU* 3.9 21.8 - - + +
95C PHE* 1.3 83.2 - - + +
97C SER* 1.3 61.8 + - - +
99C ASP* 3.2 25.2 - - + +
102C ASN* 4.7 7.5 - - - +
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Residues in contact with SER 97 (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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117A THR* 3.8 32.2 + - - -
93C LEU 3.0 18.4 + - - -
94C ALA* 2.8 17.4 + - - -
95C PHE 3.1 0.2 - - - -
96C LYS* 1.3 78.8 - - - +
98C LEU* 1.3 63.5 + - - +
100C LYS* 3.0 24.6 + - - +
114C SER* 4.1 0.3 + - - -
159C ILE* 5.0 7.3 - - - +
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Residues in contact with LEU 98 (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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94C ALA 2.9 14.5 + - - +
95C PHE 2.9 8.3 + - - +
97C SER* 1.3 82.1 + - - +
99C ASP* 1.3 58.3 + - - +
100C LYS* 3.0 18.2 + - - -
106C ILE* 4.0 16.4 - - + -
110C GLU* 3.5 20.2 - - + +
111C ILE* 4.7 13.2 - - + -
114C SER* 3.6 27.9 + - - -
115C LEU* 5.3 4.3 - - + -
147C TRP* 3.5 37.7 - - + -
159C ILE* 3.7 24.5 - - + -
166C TRP* 4.0 14.4 - - + -
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Residues in contact with ASP 99 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95C PHE* 2.9 23.4 + - + +
96C LYS* 3.2 22.3 + - + +
97C SER 3.4 0.6 - - - -
98C LEU* 1.3 72.7 - - - +
100C LYS* 1.3 61.6 + - - +
101C ASN* 2.9 10.0 - - - +
102C ASN* 3.3 23.7 - - - +
103C ASP* 3.3 3.2 + - - -
104C GLY* 3.0 28.1 + - - -
105C LYS 3.0 15.1 + - - +
106C ILE* 4.6 2.9 - - + +
110C GLU* 3.9 4.7 - - - -
1003C CA 2.4 28.4 - - - -
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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