Contacts of the helix formed by residues 78 - 108 (chain H) in PDB entry 7C17
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 ALA 78 (chain H).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110G ASN 4.8 6.7 - - - +
111G ALA 4.2 4.7 - - - +
112G CYS 3.3 15.3 + - - +
113G PRO* 3.7 19.1 - - + +
77H SER* 1.3 78.8 - - - +
79H ASP* 1.3 60.5 + - - +
80H VAL 3.3 0.9 - - - -
81H LYS* 3.3 10.1 - - + +
82H ARG* 2.9 29.8 + - - +
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Residues in contact with ASP 79 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113G PRO 5.6 1.0 - - - -
69H LEU* 4.9 10.7 - - + +
76H HIS* 4.0 30.8 + - + +
78H ALA* 1.3 75.0 - - - +
80H VAL* 1.3 60.9 + - + +
82H ARG* 2.9 36.9 + - - +
83H ARG* 2.9 27.9 + - - +
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Residues in contact with VAL 80 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109G ALA* 4.4 3.8 - - + -
122G ILE* 4.3 16.6 - - + -
123G ILE* 6.2 3.4 - - + -
58H PHE* 5.7 0.5 - - - -
66H LEU* 3.7 28.0 - - + -
69H LEU* 3.8 23.3 - - + -
76H HIS 3.4 22.9 - - - +
77H SER* 3.8 15.7 - - - +
79H ASP* 1.3 76.1 - - + +
81H LYS* 1.3 59.2 + - - +
83H ARG* 3.6 7.8 - - - +
84H THR* 2.9 31.5 + - - +
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Residues in contact with LYS 81 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109G ALA* 3.4 32.8 - - + +
77H SER 3.7 1.3 - - - +
78H ALA* 3.1 18.6 + - + +
80H VAL* 1.3 78.8 - - - +
82H ARG* 1.3 59.5 - - - +
84H THR* 3.2 11.5 - - - +
85H LEU* 2.9 38.1 + - + +
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Residues in contact with ARG 82 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78H ALA 2.9 17.0 + - - +
79H ASP* 2.9 40.4 + - - +
81H LYS* 1.3 72.4 - - - +
83H ARG* 1.3 64.5 + - - +
85H LEU* 3.7 15.2 - - + +
86H GLU* 3.0 45.5 + - + +
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Residues in contact with ARG 83 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62H GLU* 3.4 33.9 - - - +
79H ASP* 2.9 19.9 + - - +
80H VAL* 3.6 10.1 - - - +
81H LYS 3.2 0.2 - - - -
82H ARG* 1.3 81.8 - - - +
84H THR* 1.3 57.3 + - - +
86H GLU* 3.3 7.7 + - - +
87H LYS* 2.9 26.2 + - - +
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Residues in contact with THR 84 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105G LEU* 3.4 24.2 - - + +
106G LEU* 3.4 32.1 - - + +
109G ALA* 5.6 4.7 - - + -
58H PHE* 4.2 12.8 - - - -
80H VAL 2.9 19.2 + - - +
81H LYS* 3.2 18.8 - - - +
83H ARG* 1.3 73.3 - - - +
85H LEU* 1.3 61.8 + - + +
87H LYS* 3.6 8.2 - - - +
88H VAL* 2.8 31.8 + - - +
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Residues in contact with LEU 85 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106G LEU* 5.4 8.1 - - + -
81H LYS* 2.9 27.4 + - + +
82H ARG* 3.7 15.3 - - + +
83H ARG 3.3 0.2 - - - -
84H THR* 1.3 76.1 - - + +
86H GLU* 1.3 61.3 + - - +
88H VAL* 3.3 15.3 - - + +
89H ALA* 2.9 28.6 + - - +
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Residues in contact with GLU 86 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82H ARG* 3.0 33.9 + - + +
83H ARG* 3.7 6.5 - - - +
85H LEU* 1.3 77.1 - - + +
87H LYS* 1.3 58.4 + - - +
89H ALA* 3.4 9.7 + - - +
90H GLU* 3.0 28.6 + - - +
93H ARG* 5.3 0.5 + - - -
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Residues in contact with LYS 87 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101G MET* 6.2 1.6 - - - +
58H PHE* 4.0 30.1 - - + +
59H ASN* 2.6 43.0 + - - +
62H GLU* 4.6 11.1 - - + +
83H ARG 2.9 16.3 + - - +
84H THR* 3.6 11.2 - - - +
85H LEU 3.2 0.2 - - - -
86H GLU* 1.3 78.1 - - - +
88H VAL* 1.3 58.9 + - + +
90H GLU* 3.3 22.3 + - - +
91H ILE* 2.9 52.4 + - + +
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Residues in contact with VAL 88 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102G ARG* 3.4 32.6 + - + +
106G LEU* 3.8 35.2 - - + -
84H THR* 2.8 23.3 + - - +
85H LEU* 3.3 25.4 - - + +
87H LYS* 1.3 74.9 - - + +
89H ALA* 1.3 60.9 + - - +
91H ILE* 3.5 13.8 - - + +
92H GLU* 2.9 32.0 + - - +
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Residues in contact with ALA 89 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85H LEU 2.9 17.6 + - - +
86H GLU* 3.6 13.7 - - - +
87H LYS 3.3 0.2 - - - -
88H VAL* 1.3 77.8 - - - +
90H GLU* 1.3 61.8 + - - +
92H GLU* 3.2 13.9 - - + +
93H ARG* 3.0 37.5 + - - +
----------------------------------------------------------
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Residues in contact with GLU 90 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86H GLU 3.0 16.7 + - - +
87H LYS* 3.3 25.1 + - - +
89H ALA* 1.3 77.0 - - - +
91H ILE* 1.3 58.5 + - + +
93H ARG* 3.4 31.1 + - - +
94H HIS* 2.9 54.6 + - + +
----------------------------------------------------------
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Residues in contact with ILE 91 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98G LEU* 3.8 36.8 - - + +
101G MET* 6.4 1.3 - - + -
102G ARG* 4.4 21.3 - - + +
87H LYS* 2.9 38.7 + - + +
88H VAL* 3.5 30.5 - - + +
90H GLU* 1.3 75.1 - - + +
92H GLU* 1.3 63.8 + - - +
94H HIS* 3.4 17.1 - - + +
95H ILE* 2.9 33.3 + - + +
----------------------------------------------------------
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Residues in contact with GLU 92 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102G ARG* 4.7 9.9 - - - +
88H VAL 2.9 18.0 + - - +
89H ALA* 3.2 21.4 - - - +
91H ILE* 1.3 74.7 - - - +
93H ARG* 1.3 71.4 + - - +
95H ILE* 3.4 17.6 - - + +
96H GLU* 2.9 40.9 + - - +
----------------------------------------------------------
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Residues in contact with ARG 93 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86H GLU 5.3 0.4 + - - -
89H ALA* 3.0 31.9 + - - +
90H GLU* 3.6 38.6 - - - +
92H GLU* 1.3 88.0 - - - +
94H HIS* 1.3 61.2 + - - +
96H GLU* 3.2 16.5 - - + +
97H GLU* 3.0 36.5 + - - +
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Residues in contact with HIS 94 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98G LEU* 5.8 3.4 - - + -
90H GLU* 2.9 47.0 + - + +
91H ILE* 3.4 23.3 - - + +
93H ARG* 1.3 83.0 - - + +
95H ILE* 1.3 59.7 + - + +
97H GLU* 3.2 18.3 + - - +
98H LEU* 2.9 36.0 + - + +
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Residues in contact with ILE 95 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95G ILE* 4.1 32.4 - - + +
98G LEU* 3.7 30.3 - - + -
99G GLN* 6.0 5.6 - - + +
102G ARG* 6.1 5.6 - - - +
91H ILE* 2.9 23.7 + - + +
92H GLU* 3.4 20.9 - - + +
94H HIS* 1.3 73.4 - - + +
96H GLU* 1.3 63.7 + - + +
98H LEU* 3.8 7.2 - - + +
99H GLN* 2.9 30.5 + - - +
----------------------------------------------------------
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Residues in contact with GLU 96 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92H GLU* 2.9 27.4 + - - +
93H ARG* 3.2 27.6 - - - +
95H ILE* 1.3 75.8 - - + +
97H GLU* 1.3 63.3 + - + +
99H GLN* 3.4 15.4 + - + +
100H SER* 3.0 29.5 + - - -
----------------------------------------------------------
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Residues in contact with GLU 97 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56G VAL 4.2 5.8 - - - +
93H ARG* 3.0 22.5 + - - +
94H HIS* 3.2 21.6 + - - +
96H GLU* 1.3 81.1 - - + +
98H LEU* 1.3 62.5 + - + +
100H SER* 2.5 23.6 + - - +
101H MET* 2.9 15.1 + - - +
----------------------------------------------------------
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Residues in contact with LEU 98 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56G VAL 5.1 1.1 - - - +
57G GLY* 4.8 14.8 - - - +
91G ILE* 3.8 16.1 - - + +
92G GLU* 5.9 0.4 - - - -
94G HIS* 6.0 3.1 - - + -
95G ILE* 3.8 37.2 - - + -
98G LEU* 5.6 4.0 - - + -
94H HIS* 2.9 24.8 + - + +
95H ILE* 4.0 5.4 - - + +
96H GLU 3.4 0.2 - - - -
97H GLU* 1.3 79.7 - - + +
99H GLN* 1.3 59.0 + - - +
101H MET* 3.3 28.8 + - + +
102H ARG* 2.9 26.9 + - - +
----------------------------------------------------------
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Residues in contact with GLN 99 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92G GLU* 5.7 4.9 - - - +
95G ILE* 5.3 2.2 - - + +
95H ILE 2.9 19.0 + - - +
96H GLU* 3.4 20.9 + - + +
98H LEU* 1.3 72.9 - - - +
100H SER* 1.3 78.4 + - - +
102H ARG* 3.8 7.4 - - - +
103H ASP* 2.9 32.8 + - - +
----------------------------------------------------------
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Residues in contact with SER 100 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96H GLU 3.0 15.8 + - - -
97H GLU* 2.5 26.7 + - - -
99H GLN* 1.3 85.5 - - - +
101H MET* 1.3 55.2 + - - +
103H ASP* 3.4 5.8 + - - +
104H GLN* 2.9 41.5 + - - +
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Residues in contact with MET 101 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56G VAL* 3.3 32.8 - - + +
57G GLY 4.3 4.7 - - - +
58G PHE* 3.5 36.7 - - + -
88G VAL* 4.1 17.7 - - + -
91G ILE* 3.8 27.1 - - + -
97H GLU 2.9 12.0 + - - +
98H LEU* 3.5 37.2 - - + +
100H SER* 1.3 78.1 + - - +
102H ARG* 1.3 57.6 + - + +
104H GLN* 3.4 10.9 + - - +
105H LEU* 2.9 28.1 + - - +
----------------------------------------------------------
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Residues in contact with ARG 102 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85G LEU* 4.5 11.5 - - - +
88G VAL* 3.6 43.8 + - - +
89G ALA* 5.2 1.2 - - - +
92G GLU* 3.4 37.8 - - - +
98H LEU 2.9 16.5 + - - +
99H GLN* 3.8 8.1 - - - +
100H SER 3.3 0.2 - - - -
101H MET* 1.3 80.5 - - + +
103H ASP* 1.3 58.5 + - - +
105H LEU* 3.3 4.1 + - - +
106H LEU* 2.9 52.7 + - + +
----------------------------------------------------------
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Residues in contact with ASP 103 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99H GLN* 2.9 22.5 + - - +
100H SER* 3.8 6.7 - - - +
102H ARG* 1.3 75.8 - - - +
104H GLN* 1.3 58.0 + - + +
106H LEU* 3.4 5.7 + - - +
107H ALA* 2.9 32.2 + - - +
----------------------------------------------------------
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Residues in contact with GLN 104 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52G GLN* 5.5 0.2 - - - +
56G VAL* 3.4 30.2 - - - +
100H SER* 2.9 26.8 + - - +
101H MET* 3.7 6.1 - - - +
102H ARG 3.3 0.2 - - - -
103H ASP* 1.3 77.4 - - + +
105H LEU* 1.3 57.6 + - - +
107H ALA* 3.8 5.2 - - - +
108H LEU* 2.9 36.3 + - + +
126H LEU* 5.0 5.0 - - + +
----------------------------------------------------------
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Residues in contact with LEU 105 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58G PHE* 3.7 23.5 - - + -
81G LYS* 6.1 2.2 - - - +
84G THR* 4.3 22.7 - - + +
85G LEU* 5.6 4.9 - - + +
87G LYS* 3.5 27.8 - - - +
88G VAL* 3.9 19.3 - - + -
101H MET 2.9 17.0 + - - +
102H ARG* 3.7 6.1 - - - +
103H ASP 3.3 0.2 - - - -
104H GLN* 1.3 76.9 - - - +
106H LEU* 1.3 72.7 + - + +
108H LEU 5.0 0.7 - - - -
109H ALA* 2.6 51.5 + - + +
126H LEU* 5.9 4.9 - - + -
----------------------------------------------------------
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Residues in contact with LEU 106 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81G LYS* 5.8 2.5 - - - +
85G LEU* 5.7 5.8 - - + -
102H ARG* 2.9 52.6 + - + +
103H ASP* 4.0 5.4 - - - +
105H LEU* 1.3 89.1 - - + +
107H ALA* 1.3 58.2 + - - +
110H ASN* 2.8 42.3 + - - +
----------------------------------------------------------
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Residues in contact with ALA 107 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103H ASP* 2.9 24.1 + - - +
104H GLN* 3.3 6.9 + - - +
105H LEU 3.2 0.2 - - - -
106H LEU* 1.3 80.6 - - - +
108H LEU* 1.3 74.4 + - + +
109H ALA 3.6 1.0 + - - -
110H ASN* 4.5 7.4 + - - +
----------------------------------------------------------
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Residues in contact with LEU 108 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104H GLN* 2.9 18.5 + - + +
105H LEU 3.7 0.9 - - - -
107H ALA* 1.3 94.6 - - + +
109H ALA* 1.3 58.2 + - - +
110H ASN 3.9 0.7 - - - -
122H ILE* 3.4 17.5 - - - +
125H ASN* 3.9 30.5 - - + +
126H LEU* 3.4 32.6 - - + +
----------------------------------------------------------
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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
------------------------------------------------------------
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) + - + + + + + -
------------------------------------------------------------
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