Contacts of the helix formed by residues 132 - 155 (chain H) 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 H).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121G ARG* 5.0 1.9 - - - +
124G ILE* 4.7 18.8 - - + -
125G GLU* 4.7 18.6 - - - +
128G GLU* 4.6 20.0 - - - +
135G GLN* 4.9 8.5 - - - +
139G ILE* 4.4 21.2 - - + +
127H LEU 5.0 0.9 - - - -
128H GLU* 4.5 29.2 - - + +
130H LEU 4.3 0.8 - - - -
131H ASP* 1.3 71.8 + - - +
133H VAL* 1.3 66.5 + - + +
135H GLN* 3.0 39.6 - - - +
136H ASP* 3.1 10.4 + - - +
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Residues in contact with VAL 133 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121G ARG* 4.1 7.2 - - - +
124G ILE* 5.1 7.2 - - + -
139G ILE* 4.1 19.2 - - + +
142G ALA* 3.9 22.9 - - + -
143G GLY* 3.9 21.3 - - - +
146G GLU* 4.0 9.6 - - - +
71H ARG* 3.5 30.7 - - - +
131H ASP* 3.2 7.8 + - - +
132H LEU* 1.3 73.3 - - + +
134H SER* 1.3 55.8 + - - +
135H GLN 2.6 14.8 + - - -
136H ASP* 3.2 12.8 + - - +
137H LEU* 3.2 15.6 + - + +
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Residues in contact with SER 134 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17H VAL* 3.9 25.6 - - - +
21H LEU* 4.9 7.7 - - - +
71H ARG* 3.0 25.7 + - - +
75H LEU* 4.8 1.6 - - - +
127H LEU* 3.2 19.3 - - - +
131H ASP* 2.5 35.2 + - - -
132H LEU 3.5 0.4 - - - -
133H VAL* 1.3 71.8 - - - +
135H GLN* 1.3 57.8 + - - +
137H LEU* 4.1 10.9 - - - +
138H LEU* 3.7 16.5 + - - +
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Residues in contact with GLN 135 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124H ILE* 3.5 35.0 + - + +
125H GLU* 5.1 0.2 - - - +
127H LEU* 4.2 9.4 - - + -
128H GLU* 3.3 45.9 + - - +
131H ASP 3.4 10.2 + - - +
132H LEU* 3.0 28.5 + - - +
133H VAL 2.6 7.1 + - - -
134H SER* 1.3 74.0 - - - +
136H ASP* 1.3 65.4 + - - +
137H LEU 2.7 6.0 + - - -
138H LEU* 2.7 13.1 + - - +
139H ILE* 2.8 24.6 + - + +
132I LEU* 4.9 8.1 - - - +
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Residues in contact with ASP 136 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136G ASP* 2.5 18.7 - - - +
139G ILE* 4.1 24.2 - - + +
140G ALA* 5.4 5.9 - - - +
132H LEU 3.1 5.7 + - - +
133H VAL 3.2 5.4 + - - +
135H GLN* 1.3 77.8 + - - +
137H LEU* 1.3 62.3 + - - +
139H ILE* 3.6 12.1 - - - +
140H ALA* 3.1 24.6 + - - +
136I ASP* 2.4 38.2 - - - +
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Residues in contact with LEU 137 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21H LEU* 6.1 0.7 - - + -
67H GLU* 4.6 28.3 - - + +
68H VAL* 4.5 8.5 - - + -
71H ARG* 4.7 21.8 - - + -
133H VAL* 3.2 18.4 + - + +
134H SER* 4.1 7.6 - - - +
135H GLN 2.7 0.8 + - - -
136H ASP* 1.3 81.7 - - - +
138H LEU* 1.3 77.6 + - + +
139H ILE 3.2 0.2 + - - -
140H ALA* 3.3 7.2 + - - +
141H HIS* 3.0 52.0 - - + +
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Residues in contact with LEU 138 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21H LEU* 4.0 22.0 - - + -
24H GLN* 3.1 42.8 - - + +
28H TYR* 3.9 5.4 - - - +
68H VAL* 4.9 2.7 - - + -
120H THR* 3.7 20.2 - - + +
123H SER* 5.1 5.4 - - - -
124H ILE* 4.1 14.6 - - + -
127H LEU* 4.5 11.2 - - + -
134H SER 3.7 14.1 + - - +
135H GLN 2.7 11.0 + - - +
137H LEU* 1.3 94.1 - - + +
139H ILE* 1.3 64.3 + - - +
141H HIS* 3.3 11.0 + - + +
142H ALA* 3.2 15.4 + - - +
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Residues in contact with ILE 139 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124H ILE* 3.9 28.2 - - + +
135H GLN* 2.8 37.7 + - + +
136H ASP* 3.6 14.8 - - - +
138H LEU* 1.3 70.4 - - - +
140H ALA* 1.3 70.6 + - - +
142H ALA* 2.6 23.9 + - - +
143H GLY 3.2 3.3 + - - -
132I LEU* 4.4 27.6 - - + +
133I VAL* 4.1 22.9 - - + +
136I ASP* 4.0 27.1 - - + -
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Residues in contact with ALA 140 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64H TYR* 4.5 5.0 + - + -
136H ASP* 3.1 12.4 + - - +
137H LEU* 3.5 11.9 - - - +
139H ILE* 1.3 82.5 - - - +
141H HIS* 1.3 69.0 + - + +
143H GLY* 3.0 14.3 + - - +
144H GLU* 3.6 5.5 + - - +
136I ASP* 5.3 7.0 - - - +
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Residues in contact with HIS 141 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28H TYR* 2.7 32.1 + + - +
64H TYR* 3.3 45.9 - + + -
67H GLU* 3.0 21.8 + - + -
68H VAL* 4.0 7.4 - - + -
120H THR* 5.8 0.7 - - + -
137H LEU* 3.0 39.3 - - + +
138H LEU* 3.4 9.9 - - + +
139H ILE 2.9 2.2 + - - -
140H ALA* 1.3 75.5 - - + +
142H ALA* 1.3 64.4 - - - +
144H GLU* 2.9 5.9 + - - +
145H LEU* 2.8 40.7 + - + +
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Residues in contact with ALA 142 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117H ILE* 5.6 2.7 - - + -
120H THR* 4.4 17.2 - - + +
121H ARG* 5.4 1.3 - - - +
124H ILE* 4.5 4.0 - - + -
138H LEU 3.2 6.7 + - - +
139H ILE* 2.6 20.3 + - - +
141H HIS* 1.3 73.1 - - - +
143H GLY* 1.3 54.7 + - - +
145H LEU* 4.1 7.8 - - - +
146H GLU* 2.7 57.2 + - - +
133I VAL* 3.9 13.5 - - + -
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Residues in contact with GLY 143 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139H ILE 3.2 2.8 + - - -
140H ALA* 3.0 10.9 + - - -
142H ALA* 1.3 78.1 - - - +
144H GLU* 1.3 58.4 + - - +
146H GLU* 4.2 1.7 - - - +
147H LYS* 3.2 26.2 + - - +
71I ARG* 4.3 8.1 + - - -
133I VAL* 3.9 21.5 - - - +
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Residues in contact with GLU 144 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57H GLN* 4.7 4.3 - - - +
60H LEU* 3.5 28.6 - - + +
64H TYR* 3.4 23.3 + - + +
140H ALA 3.6 5.9 + - - +
141H HIS 2.9 2.6 + - - -
143H GLY* 1.3 75.4 - - - +
145H LEU* 1.3 69.0 + - - +
147H LYS* 3.5 21.1 + - + +
148H PHE* 2.8 27.0 + - - +
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Residues in contact with LEU 145 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28H TYR* 4.6 10.8 - - + +
31H LEU* 4.0 17.9 - - + -
57H GLN* 3.5 22.0 - - - +
61H VAL* 4.5 3.6 - - + -
64H TYR* 4.0 15.7 - - + -
113H TYR* 3.5 25.4 - - + -
116H VAL* 4.7 14.6 - - + -
117H ILE* 4.6 12.6 - - + -
120H THR* 5.7 4.0 - - + +
141H HIS* 2.8 51.6 + - + +
142H ALA* 3.6 7.4 - - - +
144H GLU* 1.3 76.0 - - - +
146H GLU* 1.3 64.4 + - - +
148H PHE* 3.2 2.6 + - - +
149H GLN 3.0 16.5 + - - -
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Residues in contact with GLU 146 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117H ILE* 3.5 33.2 - - + +
121H ARG* 3.0 34.4 + - - -
142H ALA* 2.7 37.1 + - - +
145H LEU* 1.3 74.2 - - - +
147H LYS* 1.3 62.9 + - - +
149H GLN* 3.2 7.6 - - - +
150H TRP 3.1 15.8 + - - -
6I ILE* 3.4 17.3 - - + +
71I ARG* 3.0 36.6 + - - +
74I THR* 3.5 14.4 - - + +
133I VAL* 3.9 1.1 - - - +
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Residues in contact with LYS 147 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143H GLY 3.2 19.7 + - - +
144H GLU* 3.5 24.1 + - + +
145H LEU 3.2 0.4 - - - -
146H GLU* 1.3 75.1 - - - +
148H PHE* 1.3 67.4 + - - +
150H TRP* 2.7 31.0 + - + +
151H PHE* 3.2 26.6 + - + -
66I ASP 5.1 0.2 + - - -
67I GLU* 5.1 10.9 + - - +
70I GLU* 2.8 46.4 + - - +
71I ARG* 5.8 1.3 - - - +
74I THR* 4.1 19.0 - - - +
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Residues in contact with PHE 148 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35H LEU* 4.1 11.7 - - + -
53H MET* 4.0 32.1 - - + -
54H ILE* 4.7 5.8 - - + -
57H GLN* 3.0 50.5 - - + +
109H LEU* 4.3 7.9 - - + -
113H TYR* 3.4 39.3 - + - -
144H GLU 2.8 15.2 + - - +
145H LEU 3.6 2.2 - - - +
147H LYS* 1.3 74.1 - - - +
149H GLN* 1.3 65.4 + - - +
151H PHE* 2.8 39.9 + + + +
152H VAL* 3.0 28.3 + - + -
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Residues in contact with GLN 149 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110H ASP* 3.5 15.7 + - - +
113H TYR* 3.5 21.1 - - + +
114H ASN* 2.9 32.1 + - - +
117H ILE* 3.4 21.8 - - + +
145H LEU 3.0 12.0 + - - +
146H GLU* 3.2 11.9 - - - +
147H LYS 3.1 0.2 + - - -
148H PHE* 1.3 78.9 - - - +
150H TRP* 1.3 66.2 + - - +
152H VAL* 2.8 14.6 + - + +
153H ARG* 2.8 58.2 + - + +
6I ILE* 5.0 3.1 - - - +
7I PRO* 3.9 5.9 - - - +
74I THR* 5.9 0.9 - - - +
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Residues in contact with TRP 150 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39C HIS 5.0 0.2 - - - -
40C TRP* 3.7 19.1 - - - -
42C VAL 5.2 1.6 - - - -
43C VAL* 5.7 3.1 - - + +
47C PHE* 4.2 16.8 - + - -
51C HIS* 4.5 9.4 - + - -
99C ARG* 4.8 4.0 - - - +
146H GLU 3.1 2.0 + - - -
147H LYS* 2.7 22.5 + - + +
149H GLN* 1.3 79.3 - - - +
151H PHE* 1.3 84.7 + + - -
153H ARG* 2.9 10.1 + - - +
154H ALA* 2.6 47.4 + - + +
157H GLU* 5.5 1.2 + - - -
4I PHE* 4.3 16.3 - + - -
70I GLU* 4.3 33.4 - - + -
73I ALA* 3.5 46.6 + - + +
74I THR* 3.7 28.0 - - + +
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Residues in contact with PHE 151 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C PHE* 3.3 22.2 - + + -
48C ILE* 4.2 9.6 - - + -
51C HIS* 3.7 33.7 - + - -
53H MET* 4.1 21.3 - - + -
147H LYS* 3.2 30.5 + - + -
148H PHE* 2.8 40.9 + + + +
150H TRP* 1.3 90.1 - + - +
152H VAL* 1.3 65.2 + - - +
154H ALA* 3.4 5.2 + - - +
155H HIS* 2.8 23.3 + - - -
70I GLU* 5.1 1.6 - - - -
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Residues in contact with VAL 152 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53H MET* 4.7 2.0 - - + -
106H LEU* 3.1 57.3 - - + +
109H LEU* 4.3 7.6 - - + -
110H ASP* 4.2 13.7 - - + +
113H TYR* 5.5 2.2 - - + -
148H PHE* 3.3 44.6 - - + +
149H GLN* 2.8 15.6 + - + +
151H PHE* 1.3 76.6 - - - +
153H ARG* 1.3 63.2 + - + +
155H HIS* 3.0 20.3 + - - +
156H LEU* 3.9 5.5 - - + +
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Residues in contact with ARG 153 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110H ASP* 2.8 32.4 + - + +
114H ASN* 3.1 31.1 + - - +
149H GLN* 2.8 43.5 + - + +
150H TRP* 2.9 10.5 + - - +
152H VAL* 1.3 69.1 - - - +
154H ALA* 1.3 53.0 + - - +
155H HIS 2.7 5.5 + - - -
156H LEU* 2.6 40.0 + - + +
157H GLU* 3.5 9.3 + - - +
4I PHE* 3.6 50.0 - - + +
5I THR 3.5 23.8 + - - +
6I ILE* 4.4 0.6 - - - +
7I PRO* 4.0 7.3 - - - +
74I THR 5.1 2.2 + - - -
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Residues in contact with ALA 154 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42C VAL 4.6 0.2 - - - +
43C VAL* 3.7 24.2 - - + +
44C GLY 3.0 26.2 + - - +
47C PHE* 3.8 34.1 - - + -
150H TRP* 2.6 31.6 + - + +
151H PHE 3.4 0.2 + - - -
153H ARG* 1.3 71.1 - - - +
155H HIS* 1.3 57.9 + - - +
156H LEU 3.2 1.8 + - - -
157H GLU* 4.0 10.3 + - - -
----------------------------------------------------------
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Residues in contact with HIS 155 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44C GLY 3.0 15.9 - - - +
45C PRO* 3.1 35.5 + - - +
46C ASN* 4.8 0.6 - - - -
47C PHE* 3.2 29.3 + + + -
48C ILE* 3.6 30.6 + - + +
46H ASN* 4.4 1.3 + - - -
49H GLY* 5.5 0.4 - - - -
50H VAL* 4.0 16.9 + - + +
53H MET* 3.8 9.6 - - - -
103H GLN* 4.0 10.3 + - - +
106H LEU* 3.5 29.1 - - + +
151H PHE 2.8 20.7 + - - -
152H VAL* 3.0 11.1 + - - +
153H ARG 2.7 3.4 + - - -
154H ALA* 1.3 74.6 - - - +
156H LEU* 1.3 62.6 + - + +
157H GLU 3.8 0.2 - - - -
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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