Contacts of the helix formed by residues 109 - 138 (chain K) in PDB entry 2EHO
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 LYS 109 (chain K).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160H ASP* 3.1 40.2 + - - +
163H ALA* 6.3 2.5 - - + -
67K ASP* 6.2 0.4 - - - +
68K VAL* 4.1 22.1 - - + +
107K ILE 3.4 1.4 + - - -
108K PRO* 1.3 84.1 - - + +
110K ALA* 1.3 66.1 + - - +
111K ASP* 3.3 16.4 - - - +
112K GLU* 3.0 35.9 + - + +
113K ILE* 3.4 8.9 + - + +
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Residues in contact with ALA 110 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100K LEU* 4.3 13.4 - - + +
104K SER* 3.7 31.4 - - - +
107K ILE* 3.3 18.0 + - + +
108K PRO 2.9 6.4 + - - -
109K LYS* 1.3 73.1 - - - +
111K ASP* 1.3 57.5 + - - +
112K GLU 2.6 14.2 + - - -
113K ILE* 2.6 23.8 + - - +
114K ARG* 3.2 9.0 + - - +
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Residues in contact with ASP 111 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109K LYS* 4.0 13.6 - - - +
110K ALA* 1.3 80.1 + - - +
112K GLU* 1.3 71.2 + - - +
114K ARG* 4.0 14.3 - - - +
115K THR* 3.7 13.9 + - - -
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Residues in contact with GLU 112 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160H ASP* 5.1 3.1 - - - +
68K VAL* 3.0 38.1 - - + +
72K GLU* 3.8 7.1 - - - +
109K LYS* 3.0 31.1 + - + +
110K ALA 2.6 6.3 + - - -
111K ASP* 1.3 80.4 + - - +
113K ILE* 1.3 61.3 - - - +
114K ARG 3.2 2.0 - - - -
115K THR* 3.4 9.2 + - - +
116K LEU* 3.2 26.0 + - + +
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Residues in contact with ILE 113 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66K MSE 3.7 34.1 - - + +
67K ASP* 4.1 0.9 - - - -
68K VAL* 3.5 40.6 - - + +
71K LEU* 3.5 21.3 - - + -
96K THR* 4.8 2.0 - - + -
100K LEU* 4.6 10.5 - - + -
107K ILE* 4.4 7.0 - - + -
108K PRO* 3.8 13.7 - - + +
109K LYS* 3.4 13.2 - - + +
110K ALA* 2.6 18.3 + - - +
112K GLU* 1.3 70.6 - - - +
114K ARG* 1.3 64.0 + - - +
116K LEU* 3.3 2.9 + - - +
117K VAL* 2.9 36.5 + - + +
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Residues in contact with ARG 114 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96K THR* 5.0 1.8 - - + -
100K LEU* 3.6 27.5 - - + +
101K ASN* 5.9 1.4 + - - -
110K ALA 3.2 3.6 + - - +
111K ASP* 4.0 13.5 - - - +
113K ILE* 1.3 79.3 - - - +
115K THR* 1.3 59.7 + - - +
117K VAL* 3.3 3.7 + - - +
118K LYS* 2.8 54.8 + - + +
190L GLU* 4.4 22.8 + - - +
191L LYS* 5.7 5.1 - - - +
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Residues in contact with THR 115 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75K ARG* 5.6 1.1 - - - +
111K ASP 3.7 10.4 + - - -
112K GLU* 3.4 14.3 + - - -
113K ILE 3.3 0.4 - - - -
114K ARG* 1.3 80.4 + - - +
116K LEU* 1.3 63.6 + - + +
118K LYS* 3.2 8.5 + - + +
119K ASP* 2.7 46.9 + - - +
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Residues in contact with LEU 116 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68K VAL* 3.4 52.3 - - + +
71K LEU* 3.9 19.5 - - + +
72K GLU* 3.4 32.8 - - + +
75K ARG* 4.4 22.0 + - + +
112K GLU* 3.2 17.5 + - + +
113K ILE 3.3 6.5 + - - +
115K THR* 1.3 82.0 - - + +
117K VAL* 1.3 57.5 + - - +
119K ASP* 3.5 4.8 + - - +
120K MSE 2.9 29.1 + - - +
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Residues in contact with VAL 117 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65K TRP* 5.1 2.9 - - + -
71K LEU* 3.9 25.1 - - + -
92K TYR* 4.0 23.6 - - + -
93K MSE 4.0 15.7 - - + -
96K THR* 3.7 39.3 - - + +
113K ILE* 2.9 19.5 + - + +
114K ARG 3.9 2.5 - - - +
116K LEU* 1.3 72.4 - - - +
118K LYS* 1.3 68.0 + - - +
120K MSE 3.1 6.6 + - + +
121K TRP* 2.9 23.2 + - - +
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Residues in contact with LYS 118 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93K MSE 5.4 2.9 - - - -
114K ARG* 2.8 38.9 + - + +
115K THR* 3.5 8.1 - - - +
117K VAL* 1.3 76.7 - - - +
119K ASP* 1.3 62.0 + - - +
121K TRP* 3.4 8.0 + - + +
122K ASP* 2.8 53.2 + - - +
186L PHE* 5.7 0.4 - - - -
190L GLU* 3.5 32.7 + - - -
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Residues in contact with ASP 119 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75K ARG* 2.7 39.7 + - - +
115K THR* 2.7 42.2 + - - +
116K LEU 3.9 0.7 - - - +
118K LYS* 1.3 77.7 - - - +
120K MSE 1.3 65.7 + - - +
121K TRP 3.2 0.2 - - - -
122K ASP* 3.9 14.9 - - - +
123K THR* 2.9 31.4 + - - +
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Residues in contact with MSE 120 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71K LEU* 5.0 11.9 - - + +
74K MSE 3.8 35.7 - - + +
75K ARG* 4.0 26.4 - - + +
78K GLU* 4.1 21.1 - - + +
85K THR* 4.7 3.1 - - - +
86K PRO 6.1 0.2 - - - +
87K MSE 3.3 37.9 - - + -
88K PRO* 5.4 0.7 - - + -
92K TYR* 4.6 10.1 - - + -
116K LEU 2.9 16.7 + - - +
117K VAL* 3.3 14.4 - - + +
119K ASP* 1.3 75.8 - - - +
121K TRP* 1.3 62.4 + - - +
123K THR* 3.1 18.0 + - - -
124K ARG* 3.2 17.7 + - - +
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Residues in contact with TRP 121 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92K TYR* 3.7 17.9 + - - -
93K MSE 3.0 48.0 - - + -
117K VAL 2.9 6.0 + - - +
118K LYS* 3.5 11.0 - - + +
120K MSE 1.3 74.9 - - - +
122K ASP* 1.3 83.3 + - - +
124K ARG* 2.9 13.4 + - - +
125K ILE* 3.0 45.1 + - + +
151K MSE 3.7 31.6 - - + -
152K GLU* 3.4 23.8 - - + -
155K THR* 4.1 12.1 - - + -
186L PHE* 3.2 53.4 - + - -
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Residues in contact with ASP 122 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118K LYS* 2.8 50.6 + - - +
119K ASP* 3.8 17.8 - - - +
121K TRP* 1.3 90.6 - - - +
123K THR* 1.3 62.6 + - + +
125K ILE* 3.6 4.7 + - - +
126K ALA* 3.3 20.1 + - - +
129K ARG* 5.5 0.7 + - - -
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Residues in contact with THR 123 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75K ARG* 3.5 25.3 + - - +
78K GLU* 4.3 13.1 - - - +
79K ARG* 5.0 20.4 + - + -
119K ASP 2.9 16.7 + - - +
120K MSE 3.1 15.8 + - - -
122K ASP* 1.3 78.2 - - + +
124K ARG* 1.3 58.0 + - - +
126K ALA* 3.4 8.0 - - - +
127K LYS* 3.2 31.1 + - - +
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Residues in contact with ARG 124 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78K GLU* 3.3 31.0 + - + +
84K PHE* 3.3 29.9 - - + +
85K THR 2.5 31.5 + - - -
87K MSE 3.0 37.8 - - + +
92K TYR* 4.0 0.7 - - - -
120K MSE 3.2 11.4 + - - +
121K TRP 2.9 7.7 + - - +
123K THR* 1.3 75.3 + - - +
125K ILE* 1.3 66.7 + - + +
126K ALA 3.1 1.3 - - - -
127K LYS* 3.2 6.7 + - - +
128K LEU* 2.9 19.1 + - - +
147K ASN 2.7 22.6 + - - -
148K LEU* 3.9 6.8 - - - +
149K THR* 4.4 0.2 - - - +
152K GLU* 2.8 47.8 + - - +
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Residues in contact with ILE 125 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121K TRP* 3.0 67.4 + - + +
122K ASP* 4.1 4.0 - - - +
124K ARG* 1.3 76.7 - - + +
126K ALA* 1.3 59.2 + - - +
128K LEU* 3.1 11.6 + - + +
129K ARG* 2.9 34.4 + - + +
152K GLU* 4.2 17.0 - - + +
155K THR* 6.5 0.4 - - + -
156K SER* 4.3 8.5 - - - +
154L GLN* 4.0 31.2 - - + +
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Residues in contact with ALA 126 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122K ASP 3.3 12.0 + - - +
123K THR* 3.4 13.5 - - - +
125K ILE* 1.3 79.9 - - - +
127K LYS* 1.3 63.1 + - + +
129K ARG* 3.1 30.3 + - - +
130K VAL* 3.0 29.4 + - + +
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Residues in contact with LYS 127 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78K GLU* 2.7 52.3 + - + +
79K ARG* 5.5 2.2 - - - -
81K GLU* 3.3 11.9 + - - +
82K GLU 3.3 18.2 - - - +
83K THR 2.4 33.0 + - - -
84K PHE* 3.7 11.4 - - + +
123K THR* 3.2 16.1 + - - +
124K ARG* 3.2 9.0 + - - +
126K ALA* 1.3 77.2 - - + +
128K LEU* 1.3 58.3 + - - +
130K VAL* 3.7 7.2 - - - +
131K SER* 2.8 31.0 + - - -
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Residues in contact with LEU 128 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84K PHE* 3.6 22.4 - - + -
124K ARG 2.9 13.0 + - - +
125K ILE* 3.3 18.2 - - + +
126K ALA 3.1 0.2 - - - -
127K LYS* 1.3 74.7 - - - +
129K ARG* 1.3 56.8 + - + +
131K SER* 3.2 4.7 + - - -
132K ALA* 2.7 38.4 + - + +
145K LEU* 5.4 7.0 - - + -
148K LEU* 4.3 17.7 - - + -
152K GLU* 4.3 14.6 - - + +
153K ILE* 5.9 1.1 - - - -
156K SER* 4.1 28.5 - - - +
160K LEU* 4.3 21.8 - - + -
150L MSE 6.5 0.4 - - - -
154L GLN* 5.7 0.4 - - - +
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Residues in contact with ARG 129 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122K ASP 5.5 0.6 + - - -
125K ILE* 2.9 18.6 + - + +
126K ALA* 3.5 31.4 + - - +
128K LEU* 1.3 77.0 - - + +
130K VAL* 1.3 58.7 + - - +
132K ALA 3.0 1.7 + - - -
133K ASP* 2.8 27.3 + - - +
147L ARG* 3.9 12.9 - - - +
150L MSE 3.1 38.8 - - + +
151L ASP* 3.3 37.6 + - - +
154L GLN* 3.1 33.9 + - - +
155L ASN* 6.0 1.6 - - - +
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Residues in contact with VAL 130 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126K ALA* 3.0 19.0 + - + +
127K LYS* 3.7 9.2 - - - +
129K ARG* 1.3 75.8 - - - +
131K SER* 1.3 64.0 + - - +
133K ASP* 3.3 5.8 + - - +
134K SER* 2.9 23.5 + - - -
147L ARG* 3.4 24.9 - - - +
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Residues in contact with SER 131 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84K PHE* 4.8 12.7 - - - -
127K LYS 2.8 21.5 + - - -
128K LEU* 3.6 10.2 - - - +
130K VAL* 1.3 74.0 - - - +
132K ALA* 1.3 53.2 + - - +
134K SER* 3.1 8.3 + - - -
135K PHE* 2.8 36.4 + - - +
----------------------------------------------------------
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Residues in contact with ALA 132 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128K LEU* 2.7 24.1 + - + +
129K ARG 3.2 4.9 - - - +
131K SER* 1.3 69.2 - - - +
133K ASP* 1.3 64.8 + - - +
135K PHE* 3.3 8.5 + - - +
136K VAL* 3.0 27.5 + - - +
160K LEU* 3.6 34.5 - - + -
146L PHE* 4.0 3.8 - - + -
150L MSE 4.0 12.6 - - + -
----------------------------------------------------------
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Residues in contact with ASP 133 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129K ARG 2.8 18.1 + - - +
130K VAL* 3.7 7.6 - - - +
132K ALA* 1.3 71.1 - - - +
134K SER* 1.3 65.0 + - - +
136K VAL* 3.2 2.5 + - - +
137K ARG* 2.8 52.2 + - - +
143L ILE 5.4 1.1 - - - +
146L PHE* 3.9 17.5 - - + -
147L ARG* 2.5 47.7 + - + +
150L MSE 4.7 0.7 - - + -
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Residues in contact with SER 134 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130K VAL* 2.9 15.7 + - - -
131K SER* 3.1 13.0 + - - -
133K ASP* 1.3 78.9 - - - +
135K PHE* 1.3 56.1 + - - +
137K ARG* 3.6 5.0 - - - +
138K GLN* 2.7 64.2 + - - +
----------------------------------------------------------
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Residues in contact with PHE 135 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170I TYR* 5.2 3.1 - + - -
205I LEU* 5.0 8.3 - - + -
131K SER* 2.8 20.0 + - - +
132K ALA* 3.5 8.7 - - - +
134K SER* 1.3 74.1 + - - +
136K VAL* 1.3 70.1 + - + +
138K GLN* 3.5 4.5 + - - -
139K GLN* 3.1 17.7 + - - -
140K GLU* 3.3 60.2 + - + -
141K ALA 4.2 10.3 - - - -
142K HIS 3.8 7.9 - - - -
143K ALA* 3.5 33.0 - - + -
164K LEU* 3.6 36.1 - - + -
167K MSE 5.6 1.8 - - + -
171K ARG* 6.1 0.2 - - - -
----------------------------------------------------------
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Residues in contact with VAL 136 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132K ALA* 3.0 19.7 + - + +
133K ASP* 3.6 4.3 - - - +
135K PHE* 1.3 82.6 - - + +
137K ARG* 1.3 70.0 + - + +
139K GLN* 3.2 13.3 + - - +
160K LEU* 6.1 1.1 - - + -
164K LEU* 4.4 8.1 - - + -
167K MSE 3.7 24.9 - - - +
143L ILE* 3.4 49.3 - - + +
146L PHE* 4.2 32.8 - - + -
----------------------------------------------------------
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Residues in contact with ARG 137 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133K ASP* 2.8 44.4 + - - +
134K SER* 3.7 5.2 - - - +
136K VAL* 1.3 73.5 - - + +
138K GLN* 1.3 60.7 + - + +
139K GLN* 2.8 19.7 + - - +
143L ILE* 3.9 30.0 + - + +
144L GLY* 4.0 24.9 + - - -
147L ARG* 5.0 5.7 - - - +
----------------------------------------------------------
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Residues in contact with GLN 138 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188I THR* 5.4 1.9 - - - +
134K SER* 2.7 45.6 + - - +
135K PHE* 3.7 4.5 - - - +
137K ARG* 1.3 71.5 - - + +
139K GLN* 1.3 68.9 + - - +
140K GLU* 3.4 15.2 + - + +
----------------------------------------------------------
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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