Contacts of the helix formed by residues 97 - 118 (chain A) in PDB entry 2WH6
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 97 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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91A PHE* 4.7 0.3 - - - -
95A ASP 3.7 3.5 + - - -
96A PRO* 1.3 74.4 - - - +
98A LEU* 1.3 65.8 + - - +
100A ARG* 3.3 26.0 + - - +
101A ALA* 3.0 23.7 + - - +
143A TRP* 3.5 11.2 - - - -
67B ASP* 4.5 0.7 + - - -
70B ASN* 2.8 32.3 + - - -
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Residues in contact with LEU 98 (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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50A TYR* 5.5 0.2 - - - +
97A SER* 1.3 74.3 - - - +
99A GLY* 1.3 56.6 + - - +
101A ALA* 3.2 4.6 + - + +
102A LEU* 2.9 41.0 + - + +
143A TRP* 3.4 15.3 - - + -
150A TRP* 5.7 2.9 - - + -
153A LEU* 3.9 32.8 - - + -
157A ASN* 4.9 8.1 - - + +
158A ILE* 3.6 42.4 - - + -
69B PHE* 3.9 20.2 - - + -
70B ASN* 4.0 5.7 + - - +
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Residues in contact with GLY 99 (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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57A ILE* 5.5 0.2 - - - +
97A SER 3.3 0.2 - - - -
98A LEU* 1.3 79.7 - - - +
100A ARG* 1.3 56.2 + - - +
102A LEU* 3.4 2.7 + - - +
103A ALA* 2.8 24.8 + - - +
66B GLY* 3.3 32.1 - - - -
69B PHE* 3.8 21.1 - - - +
70B ASN* 3.1 12.3 + - - -
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Residues in contact with ARG 100 (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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90A ILE* 3.3 32.3 + - + +
91A PHE* 3.5 22.9 - - + -
93A ARG 3.0 28.9 + - - -
94A GLY* 4.5 2.0 + - - -
95A ASP 4.2 17.1 + - - -
97A SER* 3.3 21.3 + - - +
99A GLY* 1.3 75.7 - - - +
101A ALA* 1.3 57.7 + - - +
103A ALA* 3.3 3.6 + - - +
104A TRP* 2.9 25.6 + - - +
62B LEU 4.8 0.4 - - - -
63B ARG* 3.7 29.6 + - - +
66B GLY* 3.6 10.7 - - - -
67B ASP* 3.0 38.5 + - - +
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Residues in contact with ALA 101 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91A PHE* 3.6 14.9 - - + -
97A SER 3.0 17.0 + - - +
98A LEU* 3.5 6.5 - - + +
100A ARG* 1.3 78.1 - - - +
102A LEU* 1.3 62.0 + - + +
104A TRP* 3.4 2.8 + - - +
105A MET* 3.0 28.4 + - - +
140A LEU* 4.2 20.4 - - + -
143A TRP* 4.4 12.3 - - + -
144A ILE* 5.5 0.2 - - + -
150A TRP* 4.4 13.7 - - + -
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Residues in contact with LEU 102 (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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50A TYR* 3.9 28.9 - - + -
53A LEU* 4.3 7.6 - - + -
54A LEU* 3.7 18.1 - - + +
57A ILE* 3.6 18.2 - - + -
98A LEU* 2.9 29.9 + - + +
99A GLY* 3.9 3.4 - - - +
101A ALA* 1.3 73.2 - - + +
103A ALA* 1.3 60.5 + - - +
105A MET* 4.4 2.2 - - + +
106A ALA* 2.8 32.6 + - - +
150A TRP* 4.3 13.0 - - + -
158A ILE* 4.2 11.9 - - + -
69B PHE* 3.6 36.3 - - + -
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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
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57A ILE* 4.5 9.1 - - - +
65A PHE* 3.9 1.1 - - - -
99A GLY 2.8 22.3 + - - +
100A ARG 3.6 4.9 - - - +
102A LEU* 1.3 73.3 - - - +
104A TRP* 1.3 58.3 + - - +
106A ALA* 3.8 5.1 - - - +
107A TRP* 3.0 29.8 + - - +
62B LEU* 3.7 36.1 - - + +
65B ILE* 4.1 12.1 - - + -
66B GLY 3.9 7.4 - - - +
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Residues in contact with TRP 104 (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 PHE* 3.7 31.4 - + - -
86A VAL* 3.7 25.6 - - + -
87A PHE* 3.6 27.7 - + + -
90A ILE* 3.5 20.9 - - + -
91A PHE* 3.7 15.7 - + + -
100A ARG 2.9 17.0 + - - +
101A ALA 3.6 2.2 - - - +
103A ALA* 1.3 77.6 - - - +
105A MET* 1.3 66.4 + - - +
107A TRP* 3.2 19.8 + + - +
108A CYS* 2.9 51.4 + - - -
133A MET 4.3 2.5 - - - -
136A ALA* 3.9 11.2 - - + -
137A SER* 2.8 26.9 + - - -
140A LEU* 4.0 22.0 - - + -
62B LEU* 4.5 5.2 - - + +
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Residues in contact with MET 105 (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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5A THR* 3.9 19.7 - - + -
8A ILE* 3.8 29.4 - - + -
9A LEU* 3.9 35.4 - - + +
12A LEU* 4.2 10.8 - - + -
50A TYR* 6.5 0.4 - - + -
54A LEU* 3.9 18.8 - - + +
101A ALA 3.0 18.4 + - - +
102A LEU* 3.3 5.6 + - + +
104A TRP* 1.3 90.3 - - + +
106A ALA* 1.3 58.5 + - - +
108A CYS* 3.3 3.7 + - - +
109A MET* 2.8 29.6 + - - +
137A SER* 4.6 0.2 - - - -
140A LEU* 4.4 1.6 - - + -
150A TRP* 4.1 24.0 - - + -
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Residues in contact with ALA 106 (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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54A LEU* 3.9 30.6 - - + +
57A ILE* 3.7 28.3 - - + -
58A ILE* 3.7 5.2 - - + +
65A PHE* 3.6 8.3 - - + -
102A LEU 2.8 17.5 + - - +
103A ALA 3.8 1.8 - - - +
105A MET* 1.3 78.1 - - - +
107A TRP* 1.3 57.1 + - - +
109A MET* 3.3 1.5 + - - +
110A HIS* 2.8 31.2 + - - +
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Residues in contact with TRP 107 (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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65A PHE* 3.4 31.1 + + + -
68A THR* 2.8 31.4 + - - -
69A TRP* 3.8 45.4 - + + +
72A PHE* 4.1 16.6 - + + -
83A PHE* 3.8 26.0 - + - -
86A VAL* 4.6 6.3 - - + -
103A ALA 3.0 18.1 + - - +
104A TRP* 3.6 25.4 - + - +
106A ALA* 1.3 75.2 - - - +
108A CYS* 1.3 63.8 + - - +
110A HIS* 3.4 4.3 + + - +
111A ALA* 2.9 28.8 + - + +
58B ILE* 3.8 22.9 - - + +
62B LEU* 3.8 23.6 - - + -
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Residues in contact with CYS 108 (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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9A LEU* 3.9 13.9 - - + -
83A PHE* 4.4 4.9 - - - -
104A TRP* 2.9 62.2 + - - +
105A MET* 3.7 4.5 - - - +
107A TRP* 1.3 81.1 - - - +
109A MET* 1.3 57.9 + - - +
111A ALA* 3.1 2.8 + - - -
112A CYS* 2.9 25.6 + - - +
133A MET* 3.5 42.4 - - - +
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Residues in contact with MET 109 (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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9A LEU* 4.4 3.7 - - + +
12A LEU* 3.9 22.7 - - - +
13A CYS* 4.1 17.9 - - - -
16A ASP* 4.0 14.8 - - + -
51A HIS* 3.5 33.7 - - + +
54A LEU* 3.7 26.7 - - + -
55A GLU 4.1 6.1 - - - +
58A ILE* 3.7 24.2 - - + -
105A MET 2.8 17.9 + - - +
106A ALA* 3.8 3.1 - - - +
108A CYS* 1.3 76.4 - - - +
110A HIS* 1.3 58.2 + - - +
112A CYS* 3.3 2.4 + - - +
113A ARG* 2.9 41.1 + - - +
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Residues in contact with HIS 110 (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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58A ILE* 3.8 30.9 - - + +
62A SER 5.2 0.7 - - - -
65A PHE* 3.5 41.0 + + + -
66A THR* 3.9 22.6 + - - -
69A TRP* 4.2 14.1 - - + +
106A ALA 2.8 18.9 + - - +
107A TRP* 3.7 6.7 - + - +
109A MET* 1.3 76.8 - - - +
111A ALA* 1.3 64.5 + - - +
113A ARG* 3.3 14.6 + - - +
114A THR* 2.9 45.6 + - - +
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Residues in contact with ALA 111 (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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69A TRP* 3.5 47.7 - - + -
83A PHE* 4.7 2.0 - - + -
107A TRP* 2.9 17.4 + - + +
108A CYS* 3.5 6.7 - - - +
110A HIS* 1.3 79.8 - - + +
112A CYS* 1.3 64.0 + - - +
114A THR* 3.2 3.1 + - - +
115A LEU* 3.0 29.0 + - - +
133A MET* 4.1 9.0 - - + -
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Residues in contact with CYS 112 (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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13A CYS* 3.7 36.3 - - - -
17A SER* 5.3 1.1 - - - -
29A LEU* 4.1 9.6 - - - -
108A CYS 2.9 16.1 + - - +
109A MET 3.6 4.3 - - - +
111A ALA* 1.3 76.5 - - - +
113A ARG* 1.3 63.3 + - - +
115A LEU* 3.3 10.2 + - - +
116A CYS* 2.9 43.3 + - - -
130A VAL* 3.9 22.0 - - - -
133A MET* 4.0 7.5 - - + +
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Residues in contact with ARG 113 (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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16A ASP* 2.8 46.4 + - - +
17A SER* 6.0 1.8 - - - -
20A HIS* 3.5 31.1 + - + +
51A HIS* 4.5 1.6 + - - -
55A GLU* 2.7 34.9 + - - -
58A ILE* 4.1 21.7 - - - +
109A MET* 2.9 25.1 + - - +
110A HIS* 3.5 13.3 + - - +
112A CYS* 1.3 78.0 - - - +
114A THR* 1.3 64.4 + - - +
116A CYS* 3.8 3.0 - - - -
117A CYS* 3.0 43.4 + - - -
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Residues in contact with THR 114 (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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69A TRP* 4.1 15.9 - - + -
70A ASN* 5.2 4.0 - - - +
110A HIS* 2.9 38.7 + - - +
111A ALA 3.6 4.3 - - - -
113A ARG* 1.3 79.0 - - - +
115A LEU* 1.3 63.2 + - - +
117A CYS* 3.5 3.6 + - - +
118A ASN* 3.3 25.4 + - + +
1162A BR 3.8 18.2 - - + -
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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
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26A HIS* 5.4 0.2 + - - -
69A TRP* 3.7 18.2 - - + -
111A ALA* 3.0 24.7 + - + +
112A CYS* 3.6 8.7 - - - +
114A THR* 1.3 77.6 - - - +
116A CYS* 1.3 62.9 + - - +
118A ASN 3.6 5.7 - - - +
121A THR* 3.3 41.2 + - + -
125A VAL* 3.8 19.1 - - + +
126A VAL* 4.0 23.1 - - + +
129A SER* 3.3 31.4 - - - +
130A VAL* 5.2 1.8 - - + +
133A MET* 5.0 1.8 - - + -
1162A BR 3.5 21.8 - - + -
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Residues in contact with CYS 116 (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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17A SER* 4.6 10.3 - - - +
26A HIS* 3.8 36.2 + - + -
29A LEU* 4.4 9.2 - - - -
112A CYS* 2.9 37.0 + - - +
113A ARG* 4.1 3.6 - - - +
115A LEU* 1.3 79.3 - - - +
117A CYS* 1.3 61.9 + - - +
118A ASN 3.4 2.7 + - - +
119A GLN* 5.6 1.9 - - - +
126A VAL* 4.1 14.8 - - - -
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Residues in contact with CYS 117 (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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20A HIS* 4.4 20.4 - - - -
21A GLY* 5.3 5.6 - - - -
113A ARG* 3.0 35.7 + - - +
114A THR* 4.2 4.3 - - - +
116A CYS* 1.3 78.9 - - - +
118A ASN* 1.3 59.8 + - - +
119A GLN* 3.3 13.3 + - - +
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Residues in contact with ASN 118 (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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114A THR* 3.3 17.1 + - + +
115A LEU 3.6 4.0 + - - +
116A CYS 3.4 2.5 - - - +
117A CYS* 1.3 74.9 - - - +
119A GLN* 1.3 58.7 + - - +
120A SER* 2.5 31.8 + - - -
121A THR* 2.9 42.5 + - - +
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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