Contacts of the helix formed by residues 132 - 155 (chain K) in PDB entry 1VEQ
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 LEU 132 (chain K).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121J ARG* 4.8 2.5 - - - +
124J ILE* 4.6 19.7 - - + -
125J GLU* 4.8 20.0 - - - +
128J GLU* 4.8 16.4 - - + +
135J GLN* 5.0 7.6 - - - +
139J ILE* 4.4 22.5 - - + +
127K LEU 4.5 1.3 + - - -
128K GLU* 4.5 28.9 - - + +
130K LEU 4.3 0.6 + - - -
131K ASP* 1.3 72.0 + - - +
133K VAL* 1.3 65.9 + - + +
135K GLN* 3.0 40.8 + - - +
136K ASP* 3.0 10.0 + - - +
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Residues in contact with VAL 133 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121J ARG* 3.9 7.6 - - - +
124J ILE* 5.2 5.8 - - + -
139J ILE* 4.1 17.3 - - + -
142J ALA* 3.9 15.9 - - + -
143J GLY* 3.8 21.3 - - - +
146J GLU* 3.8 18.8 - - - +
71K ARG* 3.5 31.6 - - - +
131K ASP* 3.2 9.4 + - - +
132K LEU* 1.3 73.5 - - + +
134K SER* 1.3 54.2 + - - +
135K GLN 2.6 15.9 + - - -
136K ASP* 3.1 12.6 + - - +
137K LEU* 3.1 14.9 + - + +
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Residues in contact with SER 134 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17K VAL* 3.9 25.8 - - - +
21K LEU* 4.8 7.0 - - - -
71K ARG* 3.0 25.6 + - - +
75K LEU* 4.9 1.7 - - - +
127K LEU* 3.2 19.6 - - - +
131K ASP* 2.6 32.9 + - - -
132K LEU 3.4 0.4 - - - -
133K VAL* 1.3 74.3 - - - +
135K GLN* 1.3 57.7 + - - +
137K LEU* 4.1 11.9 - - - +
138K LEU* 3.7 15.2 + - - +
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Residues in contact with GLN 135 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124K ILE* 3.5 37.9 + - + +
127K LEU* 4.2 8.7 - - + -
128K GLU* 3.3 43.6 - - - +
131K ASP 3.4 6.9 + - - +
132K LEU* 3.0 34.0 - - - +
133K VAL 2.6 6.9 + - - -
134K SER* 1.3 76.0 - - - +
136K ASP* 1.3 63.0 + - - -
137K LEU 2.6 5.6 + - - -
138K LEU* 2.7 13.7 + - - +
139K ILE* 2.8 23.6 + - + +
132L LEU* 4.8 8.9 - - - +
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Residues in contact with ASP 136 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136J ASP* 2.5 18.4 - - - +
139J ILE* 4.0 26.0 - - + +
140J ALA* 5.3 8.0 - - - +
132K LEU 3.0 5.5 + - - +
133K VAL 3.1 5.4 + - - +
135K GLN* 1.3 77.4 + - - +
137K LEU* 1.3 64.8 + - - +
139K ILE* 3.6 10.9 - - - +
140K ALA* 3.1 23.9 + - - +
136L ASP* 2.4 36.7 - - - +
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Residues in contact with LEU 137 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21K LEU* 6.1 0.4 - - + -
67K GLU* 4.6 27.8 - - + +
68K VAL* 4.5 8.7 - - + -
71K ARG* 4.7 22.7 - - + -
133K VAL* 3.1 18.8 + - + +
134K SER* 4.1 8.5 - - - -
135K GLN 2.6 0.8 + - - -
136K ASP* 1.3 82.4 - - - +
138K LEU* 1.3 77.7 + - + +
140K ALA* 3.3 6.9 + - - +
141K HIS* 3.1 51.0 - - + +
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Residues in contact with LEU 138 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21K LEU* 4.1 24.2 - - + -
24K GLN* 3.1 41.7 - - + +
28K TYR* 3.9 9.6 - - - +
68K VAL* 4.9 3.4 - - + -
120K THR* 3.6 18.9 - - + +
123K SER* 5.1 6.3 - - - -
124K ILE* 4.1 16.7 - - + +
127K LEU* 4.6 10.8 - - + -
134K SER 3.7 10.7 + - - +
135K GLN* 2.7 11.2 + - - +
137K LEU* 1.3 95.0 - - + +
139K ILE* 1.3 63.7 + - - +
141K HIS* 3.4 8.2 + - + +
142K ALA* 3.3 15.4 + - - +
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Residues in contact with ILE 139 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124K ILE* 3.9 28.7 - - + -
135K GLN* 2.8 36.4 + - + +
136K ASP* 3.6 14.1 - - - +
138K LEU* 1.3 71.3 - - - +
140K ALA* 1.3 71.2 + - - +
142K ALA* 2.6 23.8 + - - +
143K GLY 3.2 2.9 + - - -
132L LEU* 4.3 27.8 - - + +
133L VAL* 4.0 22.2 - - + +
136L ASP* 4.0 27.4 - - + +
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Residues in contact with ALA 140 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64K TYR* 4.5 5.0 + - + -
136K ASP* 3.1 12.4 + - - +
137K LEU* 3.5 11.2 - - - +
139K ILE* 1.3 82.5 - - - +
141K HIS* 1.3 67.6 + - + +
143K GLY* 3.0 14.5 + - - -
144K GLU* 3.6 5.9 + - - +
136L ASP* 5.3 6.9 + - - +
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Residues in contact with HIS 141 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28K TYR* 2.6 33.0 + + - +
64K TYR* 3.2 46.0 - + + -
67K GLU* 3.0 21.4 + - - -
68K VAL* 3.9 7.0 - - + -
120K THR* 5.8 1.1 - - + -
137K LEU* 3.1 39.4 - - + +
138K LEU* 3.5 9.3 - - + +
139K ILE 2.9 1.8 + - - -
140K ALA* 1.3 76.2 - - + +
142K ALA* 1.3 65.7 + - - +
144K GLU* 2.9 5.2 + - - +
145K LEU* 2.7 40.3 + - + +
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Residues in contact with ALA 142 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117K ILE* 5.6 3.1 - - + -
120K THR* 4.5 10.9 - - + +
121K ARG* 5.4 1.8 - - + +
124K ILE* 4.4 9.0 - - + -
138K LEU 3.3 7.4 + - - +
139K ILE* 2.6 19.4 + - - +
141K HIS* 1.3 73.3 - - - +
143K GLY* 1.3 55.1 + - - +
145K LEU* 3.0 7.6 + - - -
146K GLU* 2.6 56.5 + - - +
133L VAL* 3.8 14.6 - - + -
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Residues in contact with GLY 143 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139K ILE 3.2 3.0 + - - -
140K ALA* 3.0 11.0 + - - -
142K ALA* 1.3 78.6 - - - +
144K GLU* 1.3 59.4 + - - +
146K GLU* 4.1 1.4 - - - +
147K LYS* 3.1 26.3 + - - +
71L ARG* 4.3 8.0 + - - -
133L VAL* 3.9 20.9 - - - +
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Residues in contact with GLU 144 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57K GLN* 4.2 4.7 - - - +
60K LEU* 3.5 27.1 - - + +
64K TYR* 3.4 24.3 + - + +
140K ALA 3.6 5.7 + - - +
141K HIS 2.9 2.8 + - - +
143K GLY* 1.3 75.5 - - - +
145K LEU* 1.3 62.5 + - - +
147K LYS* 3.6 22.6 + - + +
148K PHE* 2.8 32.9 + - - +
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Residues in contact with LEU 145 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28K TYR* 4.6 10.1 - - + +
31K LEU* 4.0 18.2 - - + -
57K GLN* 3.5 13.0 - - - +
61K VAL* 4.6 3.8 - - + -
64K TYR* 4.0 16.2 - - + -
113K TYR* 3.5 34.0 - - + -
116K VAL* 4.7 13.7 - - + -
117K ILE* 4.5 13.0 - - + -
120K THR* 5.7 4.5 - - + +
141K HIS* 2.7 52.3 + - + +
142K ALA* 3.6 7.4 - - - +
144K GLU* 1.3 73.0 - - - +
146K GLU* 1.3 64.1 + - - +
148K PHE* 3.3 2.6 + - - +
149K GLN 3.0 18.2 + - - -
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Residues in contact with GLU 146 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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117K ILE* 3.5 33.0 - - + +
121K ARG* 2.9 35.5 + - - -
142K ALA* 2.6 35.5 + - - +
145K LEU* 1.3 73.5 - - - +
147K LYS* 1.3 62.4 + - - +
149K GLN* 3.2 7.9 + - - +
150K TRP 3.2 15.9 + - - -
6L ILE* 3.4 16.9 - - + +
71L ARG* 2.8 39.0 + - - +
74L THR* 3.4 15.3 - - + +
133L VAL* 3.9 1.3 - - - +
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Residues in contact with LYS 147 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143K GLY 3.1 19.5 + - - +
144K GLU* 3.6 24.7 + - + +
145K LEU 3.3 0.2 - - - -
146K GLU* 1.3 74.0 - - - +
148K PHE* 1.3 68.8 + - - +
150K TRP* 2.8 29.7 + - + +
151K PHE* 3.2 25.6 + - + -
66L ASP 5.1 0.8 + - - -
67L GLU* 5.1 10.9 + - - +
70L GLU* 2.8 46.2 + - - +
71L ARG* 5.1 1.5 - - - +
74L THR* 4.1 18.4 - - - +
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Residues in contact with PHE 148 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35K LEU* 4.2 11.0 - - + -
53K MET* 4.1 32.8 - - + -
54K ILE* 4.7 5.4 - - + -
57K GLN* 3.0 51.1 - - + +
109K LEU* 4.2 7.9 - - + -
113K TYR* 3.4 38.1 - + - -
144K GLU* 2.8 15.8 + - + +
145K LEU 3.6 1.6 - - - +
147K LYS* 1.3 73.7 - - - +
149K GLN* 1.3 66.3 + - - +
151K PHE* 2.7 40.2 + + + +
152K VAL* 3.1 29.0 + - + -
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Residues in contact with GLN 149 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110K ASP* 3.4 15.5 + - - +
113K TYR* 3.4 24.3 - - + +
114K ASN* 2.9 32.3 + - - +
117K ILE* 3.4 18.4 - - + +
145K LEU 3.0 13.3 + - - +
146K GLU* 3.2 11.6 - - - +
147K LYS 3.1 0.2 + - - -
148K PHE* 1.3 77.6 - - - +
150K TRP* 1.3 66.6 + - - +
152K VAL* 2.8 23.6 + - + +
153K ARG* 2.8 47.5 + - + +
6L ILE* 5.0 3.6 - - - +
7L PRO* 4.0 5.7 - - - +
74L THR* 5.7 1.4 - - - +
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Residues in contact with TRP 150 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39F HIS 4.9 0.7 - - - -
40F TRP* 3.7 19.7 - - - -
42F VAL 5.2 1.8 - - - -
43F VAL* 5.8 2.6 - - + +
47F PHE* 4.2 17.3 - + - -
51F HIS* 4.3 10.8 - + - -
99F ARG* 4.9 5.1 - - - +
146K GLU 3.2 2.4 + - - -
147K LYS* 2.8 23.6 + - + +
149K GLN* 1.3 78.1 + - - +
151K PHE* 1.3 84.5 + + - -
153K ARG* 3.0 10.7 + - - +
154K ALA* 2.6 46.0 + - + +
157K GLU* 5.5 1.0 + - - -
4L PHE* 4.4 13.2 - + - -
70L GLU* 4.3 33.2 - - + -
73L ALA* 3.5 45.4 + - + +
74L THR* 3.8 27.3 - - + +
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Residues in contact with PHE 151 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47F PHE* 3.4 20.0 - + - -
48F ILE* 4.1 11.4 - - + -
51F HIS* 3.7 33.9 - + - -
52F GLU* 6.2 0.2 - - - -
53K MET* 4.0 21.3 - - + -
147K LYS* 3.2 31.1 + - + -
148K PHE* 2.7 40.0 + + + +
150K TRP* 1.3 89.7 - + - +
152K VAL* 1.3 64.2 + - - +
154K ALA* 3.3 5.7 + - - +
155K HIS* 2.9 23.6 + - - -
70L GLU* 5.0 0.9 - - - -
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Residues in contact with VAL 152 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53K MET* 4.7 2.2 - - + +
106K LEU* 3.0 57.0 - - + +
109K LEU* 4.3 7.9 - - + -
110K ASP* 4.1 14.1 - - + +
113K TYR* 5.5 2.0 - - + -
148K PHE* 3.3 44.4 - - + +
149K GLN* 2.8 15.9 + - + +
151K PHE* 1.3 76.4 - - + +
153K ARG* 1.3 62.8 + - + +
155K HIS* 3.0 20.0 + - - +
156K LEU* 3.9 5.6 - - + +
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Residues in contact with ARG 153 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110K ASP* 2.7 33.1 + - + +
114K ASN* 3.1 32.1 + - - +
149K GLN* 2.8 43.4 + - + +
150K TRP* 3.4 9.2 - - - +
152K VAL* 1.3 69.0 - - - +
154K ALA* 1.3 54.4 + - - +
155K HIS 2.8 4.9 - - - -
156K LEU* 2.7 37.8 + - + +
157K GLU* 3.5 10.3 + - - +
4L PHE* 3.4 57.2 - - + +
5L THR 3.6 23.6 + - - -
6L ILE* 4.4 1.2 - - - +
7L PRO* 4.2 1.6 - - - +
74L THR 4.9 2.4 + - - -
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Residues in contact with ALA 154 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42F VAL 4.5 0.2 - - - +
43F VAL* 3.6 22.4 - - + +
44F GLY 2.9 26.0 + - - +
47F PHE* 3.7 37.4 - - + +
150K TRP* 2.6 31.6 + - + +
151K PHE 3.3 0.4 + - - +
153K ARG* 1.3 72.3 - - - +
155K HIS* 1.3 57.9 + - - +
156K LEU 3.2 1.2 + - - -
157K GLU* 4.0 8.5 + - - -
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Residues in contact with HIS 155 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44F GLY 2.9 20.1 - - - +
45F PRO* 3.0 33.7 + - - +
46F ASN* 4.7 0.8 - - - -
47F PHE* 3.2 28.7 + + + -
48F ILE* 3.5 33.2 + - + +
46K ASN* 4.4 1.3 + - - -
49K GLY* 5.6 0.4 - - - -
50K VAL* 4.0 16.1 + - + +
53K MET* 3.9 8.7 - - - -
103K GLN* 4.0 9.9 + - - +
106K LEU* 3.5 27.8 - - + +
151K PHE 2.9 20.7 + - - -
152K VAL* 3.0 12.6 + - - +
153K ARG 2.7 1.0 + - - -
154K ALA* 1.3 76.9 - - - +
156K LEU* 1.3 62.9 + - - +
157K GLU 3.7 0.4 - - - -
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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
------------------------------------------------------------
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