Contacts of the helix formed by residues 95 - 124 (chain A) in PDB entry 6WYG
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 SER 95 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A TYR* 3.7 2.8 + - - -
41A PHE* 3.4 8.4 - - - -
93A TRP 2.8 7.8 + - - +
94A GLU* 1.3 79.4 - - - +
96A GLY* 1.3 64.0 + - - +
97A LEU* 3.4 6.1 + - - +
98A ASN* 2.8 33.7 + - - +
99A ALA* 3.0 25.3 + - - +
161A PRO* 3.8 26.7 - - - +
167A GLU* 3.9 6.5 - - - -
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Residues in contact with GLY 96 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A PHE* 3.6 14.6 - - - -
48A LEU* 5.2 0.4 - - - +
51A PHE* 3.6 27.3 - - - -
95A SER* 1.3 72.0 - - - +
97A LEU* 1.3 56.4 + - - +
99A ALA* 3.4 2.8 + - - +
100A MET* 2.9 31.5 + - - +
155A LEU* 4.1 2.2 - - - -
167A GLU* 2.9 21.6 + - - -
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Residues in contact with LEU 97 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95A SER* 3.3 3.6 - - - +
96A GLY* 1.3 76.3 - - - +
98A ASN* 1.3 57.6 + - - +
100A MET* 3.2 3.1 + - - +
101A GLU* 2.9 55.5 + - + +
152A VAL* 3.7 33.2 - - + +
155A LEU* 3.8 18.7 - - + +
156A ARG* 4.3 16.4 - - + +
160A ALA* 3.6 31.2 - - + +
161A PRO* 3.9 13.2 - - + -
167A GLU* 3.0 15.9 + - - +
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Residues in contact with ASN 98 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90A GLU* 5.8 2.6 - - - +
92A ASP 5.4 0.6 + - - -
93A TRP* 3.2 34.1 + - - +
94A GLU* 4.3 9.0 - - + +
95A SER* 2.8 23.9 + - - +
97A LEU* 1.3 73.1 - - - +
99A ALA* 1.3 58.6 + - - +
101A GLU* 3.3 18.9 + - - +
102A ALA* 2.9 31.4 + - - +
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Residues in contact with ALA 99 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A MET* 3.0 32.5 - - + +
41A PHE* 3.4 25.1 - - + -
55A PHE* 4.1 2.7 - - + -
93A TRP* 4.0 15.5 + - + -
95A SER 3.0 18.8 + - - +
96A GLY 3.6 1.3 - - - +
98A ASN* 1.3 77.6 - - - +
100A MET* 1.3 63.1 + - - +
102A ALA* 3.3 4.1 + - - +
103A ALA* 2.9 19.6 + - - +
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Residues in contact with MET 100 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A PHE* 4.3 10.1 - - + -
54A TYR* 4.2 8.7 - - + -
55A PHE* 3.6 20.9 - - + -
96A GLY 2.9 18.0 + - - +
97A LEU 3.5 7.9 - - - +
99A ALA* 1.3 75.7 - - - +
101A GLU* 1.3 56.8 + - - +
103A ALA* 3.3 4.3 + - - +
104A LEU* 2.9 28.1 + - - +
148A LEU* 3.2 38.5 - - + +
151A HIS* 3.4 39.9 - - + -
152A VAL* 3.8 16.2 - - + +
155A LEU* 3.7 22.0 - - + -
170A PHE* 5.4 1.8 - - - -
175A LEU* 5.4 0.9 - - - -
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Residues in contact with GLU 101 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A LEU* 2.9 33.5 + - + +
98A ASN* 3.7 25.2 + - - +
100A MET* 1.3 69.6 - - - +
102A ALA* 1.3 67.1 + - - +
104A LEU* 3.1 8.1 + - + +
105A HIS* 2.9 23.9 + - - +
152A VAL* 4.0 20.0 - - + -
156A ARG* 2.2 37.2 + - - -
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Residues in contact with ALA 102 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A MET* 4.9 2.5 - - + -
93A TRP* 3.9 29.8 - - + -
98A ASN* 2.9 23.8 + - - +
99A ALA 3.7 4.7 - - - +
101A GLU* 1.3 72.8 - - - +
103A ALA* 1.3 57.6 + - - +
105A HIS* 3.3 7.5 + - - +
106A LEU* 2.9 29.2 + - - +
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Residues in contact with ALA 103 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A VAL* 6.0 0.2 - - - -
34A TYR* 3.8 24.0 + - + -
37A MET* 4.2 5.3 - - + +
55A PHE* 4.0 9.2 - - + -
99A ALA 2.9 18.7 + - - +
100A MET 3.6 4.7 - - - +
101A GLU 3.1 0.2 - - - -
102A ALA* 1.3 74.9 - - - +
104A LEU* 1.3 59.3 + - - +
106A LEU* 3.3 7.7 + - - +
107A GLU* 2.9 33.8 + - - +
148A LEU* 3.7 20.0 - - + -
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Residues in contact with LEU 104 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A MET 2.9 13.6 + - - +
101A GLU* 3.1 10.5 + - + +
103A ALA* 1.3 76.6 - - - +
105A HIS* 1.3 63.0 + - - +
107A GLU* 3.3 1.2 + - - -
108A LYS* 2.9 44.6 + - + +
145A ILE* 3.6 43.7 - - + +
148A LEU* 3.7 17.8 - - + +
149A GLY* 4.4 10.5 - - - +
152A VAL* 4.5 19.5 - - + -
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Residues in contact with HIS 105 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A GLU 2.9 12.1 + - - +
102A ALA* 3.6 10.5 - - - +
104A LEU* 1.3 77.3 - - - +
106A LEU* 1.3 63.7 + - - +
108A LYS* 3.3 16.5 + - + +
109A ASN* 3.0 41.9 + - - -
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Residues in contact with LEU 106 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A LEU* 5.8 1.6 - - + -
29A TYR* 3.8 32.1 - - + -
30A ALA* 3.8 27.1 - - + -
33A VAL* 4.0 23.8 - - + -
34A TYR* 4.2 22.2 - - + +
102A ALA 2.9 17.4 + - - +
103A ALA* 3.6 5.4 - - - +
104A LEU 3.2 0.2 - - - -
105A HIS* 1.3 77.4 + - - +
107A GLU* 1.3 58.1 + - - +
109A ASN* 3.0 11.6 + - + +
110A VAL* 2.9 42.4 + - + +
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Residues in contact with GLU 107 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34A TYR* 3.1 32.5 + - - +
58A GLN* 4.2 6.2 + - - -
62A GLU* 3.4 11.2 - - - +
103A ALA 2.9 15.2 + - - +
104A LEU 4.0 0.4 - - - +
106A LEU* 1.3 75.1 - - - +
108A LYS* 1.3 61.7 + - - +
110A VAL* 4.1 8.4 - - - +
111A ASN* 2.8 31.4 + - - +
141A GLN* 2.9 21.4 - - - +
144A ALA* 3.7 14.5 - - + +
145A ILE* 3.6 21.1 - - + +
148A LEU* 3.5 12.6 - - + -
202A FE 2.5 27.3 - - - -
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Residues in contact with LYS 108 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104A LEU* 2.9 50.2 + - + +
105A HIS* 3.7 16.3 - - + +
107A GLU* 1.3 78.2 - - - +
109A ASN* 1.3 56.3 + - - +
111A ASN* 3.6 3.4 + - - +
112A GLN* 2.9 28.8 + - - +
145A ILE* 3.8 25.4 - - + -
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Residues in contact with ASN 109 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A LEU* 4.6 5.2 - - + +
105A HIS* 3.0 47.7 + - - +
106A LEU* 3.0 12.7 + - + +
108A LYS* 1.3 74.0 - - - +
110A VAL* 1.3 66.7 + - + +
112A GLN* 3.1 8.1 + - - +
113A SER* 3.0 22.3 + - - -
204A CA 2.5 30.1 - - - -
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Residues in contact with VAL 110 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A GLN* 3.4 10.3 + - - +
26A LEU* 3.9 24.2 - - + -
27A GLU* 3.3 32.8 - - - +
30A ALA* 4.6 9.2 - - + -
106A LEU* 2.9 31.1 + - + +
107A GLU* 3.3 12.8 + - - +
109A ASN* 1.3 75.1 - - + +
111A ASN* 1.3 57.6 + - - +
113A SER* 3.2 4.5 + - - -
114A LEU* 2.9 32.8 + - + +
141A GLN* 4.0 6.3 - - - +
201A FE 4.3 6.5 - - - -
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Residues in contact with ASN 111 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107A GLU 2.8 18.4 + - - +
108A LYS* 3.6 5.4 + - - +
110A VAL* 1.3 76.1 - - - +
112A GLN* 1.3 57.1 + - - +
114A LEU* 2.9 4.9 + - - +
115A LEU* 2.8 50.9 + - - +
138A LEU* 3.9 18.5 - - - +
141A GLN* 3.3 33.0 - - + +
142A VAL* 5.1 10.4 - - - +
145A ILE* 3.8 13.7 - - + +
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Residues in contact with GLN 112 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108A LYS 2.9 14.8 + - - +
109A ASN* 3.1 12.7 + - - +
111A ASN* 1.3 75.8 - - - +
113A SER* 1.3 57.5 + - - +
115A LEU* 3.3 12.5 + - + +
116A GLU* 3.0 52.5 + - + +
204A CA 2.3 30.5 - - - -
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Residues in contact with SER 113 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A ARG* 5.9 1.0 - - - +
23A GLN* 2.5 26.5 + - - -
26A LEU* 3.6 20.6 - - - +
109A ASN 3.0 8.5 + - - -
110A VAL 3.6 6.5 - - - -
112A GLN* 1.3 76.0 - - - +
114A LEU* 1.3 59.5 + - - +
116A GLU* 3.3 16.8 + - - +
117A LEU* 2.9 27.5 + - - +
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Residues in contact with LEU 114 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A GLN* 3.5 32.1 - - + +
27A GLU* 4.3 3.6 - - - +
69A LEU* 5.7 2.5 - - + -
110A VAL* 2.9 20.1 + - + +
111A ASN* 2.9 9.2 + - - +
113A SER* 1.3 76.0 - - - +
115A LEU* 1.3 59.5 + - - +
117A LEU* 3.2 10.0 + - + +
118A HIS* 2.9 28.8 + - - +
133A ILE* 4.0 15.7 - - + +
137A TYR* 4.1 35.9 - - + +
138A LEU* 4.1 14.8 - - + -
141A GLN* 3.3 34.3 - - + +
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Residues in contact with LEU 115 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111A ASN* 2.8 36.3 + - - +
112A GLN* 3.6 13.2 - - + +
114A LEU* 1.3 73.5 - - - +
116A GLU* 1.3 59.9 + - + +
118A HIS* 3.3 6.9 + - + +
119A LYS* 2.9 28.6 + - - +
138A LEU* 3.8 28.0 - - + -
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Residues in contact with GLU 116 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A GLN* 3.0 42.3 + - + +
113A SER* 3.7 16.9 + - - +
115A LEU* 1.3 76.9 - - + +
117A LEU* 1.3 56.6 + - - +
119A LYS* 3.2 8.4 + - - +
120A LEU* 2.9 29.3 + - - +
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Residues in contact with LEU 117 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16A SER 5.1 0.4 - - - +
19A ALA* 3.9 26.2 - - + +
20A ILE* 3.5 26.2 - - + -
23A GLN* 4.1 28.3 - - + +
69A LEU* 5.6 1.3 - - + -
113A SER 2.9 14.2 + - - +
114A LEU* 3.2 11.9 + - + +
116A GLU* 1.3 75.9 - - - +
118A HIS* 1.3 57.8 + - - +
120A LEU* 3.3 8.6 + - + +
121A ALA* 2.9 26.9 + - - +
129A LEU* 3.8 21.5 - - + -
133A ILE* 3.4 22.9 - - + -
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Residues in contact with HIS 118 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114A LEU 2.9 15.2 + - - +
115A LEU* 3.6 8.5 - - + +
116A GLU 3.3 0.2 - - - -
117A LEU* 1.3 74.3 - - - +
119A LYS* 1.3 65.6 + - - +
121A ALA* 3.8 2.5 - - - +
122A THR* 2.8 40.2 + - - -
130A ALA* 3.3 31.6 + - + +
133A ILE* 3.9 14.5 - - + +
134A GLU* 3.0 24.9 + - - +
138A LEU* 4.0 24.7 - - + +
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Residues in contact with LYS 119 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115A LEU 2.9 16.9 + - - +
116A GLU* 3.2 12.5 + - - +
118A HIS* 1.3 72.9 + - - +
120A LEU* 1.3 57.9 + - - +
122A THR* 3.3 4.1 + - - -
123A ASP* 2.9 52.9 + - - +
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Residues in contact with LEU 120 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15A ASP* 3.5 39.9 - - + +
16A SER* 4.0 9.6 - - - +
19A ALA* 3.9 17.3 - - + -
22A ARG* 5.5 3.1 - - - +
116A GLU 2.9 13.3 + - - +
117A LEU* 3.5 10.5 - - + +
119A LYS* 1.3 76.3 - - - +
121A ALA* 1.3 57.8 + - - +
123A ASP* 3.2 5.0 + - + -
124A LYS* 2.8 56.3 + - + +
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Residues in contact with ALA 121 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16A SER* 4.7 1.8 + - - -
117A LEU* 2.9 20.5 + - - +
118A HIS* 3.8 4.3 - - - +
120A LEU* 1.3 73.9 - - - +
122A THR* 1.3 60.6 + - - +
124A LYS* 3.4 3.5 + - - +
125A ASN 3.0 4.7 + - - -
126A ASP* 2.8 36.9 + - + +
129A LEU* 3.6 34.1 - - + -
130A ALA* 3.9 18.6 - - - +
133A ILE* 4.8 0.2 - - + -
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Residues in contact with THR 122 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A HIS* 2.8 46.9 + - - -
119A LYS* 3.7 5.4 - - - -
121A ALA* 1.3 73.0 - - - +
123A ASP* 1.3 66.6 + - - +
125A ASN* 2.9 28.6 + - - +
126A ASP 4.8 0.7 - - - +
130A ALA* 4.2 6.7 - - - +
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Residues in contact with ASP 123 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119A LYS* 2.9 37.0 + - - +
120A LEU* 4.1 4.2 - - + +
122A THR* 1.3 87.5 - - - +
124A LYS* 1.3 64.1 + - + +
125A ASN* 3.1 12.5 + - - +
----------------------------------------------------------
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Residues in contact with LYS 124 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A ASN* 4.4 7.8 - - - +
13A HIS* 3.0 56.1 + - + -
15A ASP* 3.4 24.2 + - - -
16A SER* 4.5 6.7 - - - +
120A LEU* 2.8 37.5 + - + +
121A ALA* 4.0 3.4 - - - +
123A ASP* 1.3 78.8 - - + +
125A ASN* 1.3 72.5 + - - +
126A ASP* 3.4 4.9 - - + +
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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