Contacts of the helix formed by residues 120 - 143 (chain O) in PDB entry 2X17
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 120 (chain O).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10O LEU* 5.1 0.2 - - + -
57O PHE* 4.2 22.2 - - + -
101O ILE* 4.3 16.5 - - + +
104O LEU* 3.5 59.0 - - + +
105O ALA* 3.7 9.0 - - + +
108O ALA* 4.5 1.6 - - + -
116O THR* 2.9 36.5 + - + +
117O ARG* 4.1 8.7 - - - +
118O ALA 3.4 0.2 - - - -
119O PHE* 1.3 80.3 - - + +
121O GLU* 1.3 63.1 + - - +
122O TRP 3.3 0.9 - - - -
123O PHE* 3.2 17.3 + - + +
124O ILE* 3.2 22.3 + - + +
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Residues in contact with GLU 121 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121M GLU* 4.2 16.6 - - - +
117O ARG* 2.9 39.3 + - - +
118O ALA 3.4 15.9 - - - +
119O PHE 3.1 0.2 - - - -
120O LEU* 1.3 78.1 - - - +
122O TRP* 1.3 61.9 + - - +
124O ILE* 3.4 9.4 + - - +
125O ASN* 3.2 38.2 + - - +
117P ARG* 4.8 0.9 + - - +
118P ALA* 3.4 34.2 - - - +
121P GLU* 4.1 17.7 - - + +
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Residues in contact with TRP 122 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1706 MET* 4.1 19.7 - - + -
53O HIS* 3.7 23.3 - + - -
56O ARG* 3.4 54.4 - - - +
118O ALA 4.5 1.2 + - - +
119O PHE* 3.4 13.2 + - + +
120O LEU 3.3 0.2 - - - -
121O GLU* 1.3 78.9 - - - +
123O PHE* 1.3 91.0 + + + +
125O ASN* 3.6 6.6 + - - +
126O GLU* 3.0 42.7 + - + +
1171O AG 4.0 3.4 - - - -
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Residues in contact with PHE 123 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17O GLU* 4.3 8.3 - - - -
53O HIS* 3.6 31.4 - - + -
56O ARG* 3.8 13.5 - - + -
57O PHE* 3.4 34.1 - + - -
101O ILE* 4.1 20.6 - - + -
119O PHE* 3.5 42.2 - + - -
120O LEU* 3.2 10.8 + - - +
122O TRP* 1.3 105.0 - + + +
124O ILE* 1.3 58.6 + - - +
126O GLU* 3.6 12.2 - - - +
127O GLN* 2.9 36.3 + - - +
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Residues in contact with ILE 124 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101O ILE* 3.8 19.7 - - + -
102O TYR* 4.5 6.5 - - + -
105O ALA* 4.5 9.2 - - + -
117O ARG* 3.6 37.0 - - - +
120O LEU 3.2 14.4 + - - +
121O GLU* 3.4 11.0 + - - +
123O PHE* 1.3 76.1 - - - +
125O ASN* 1.3 61.4 + - - +
127O GLN* 3.6 4.6 + - - +
128O VAL* 3.2 26.2 + - - +
114P TYR* 3.4 37.9 - - + +
115P SER* 3.7 19.4 + - - +
118P ALA* 3.9 7.4 - - + -
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Residues in contact with ASN 125 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121O GLU* 3.2 33.1 + - - +
122O TRP* 3.9 6.1 - - - +
123O PHE 3.3 0.2 - - - -
124O ILE* 1.3 73.4 - - - +
126O GLU* 1.3 63.2 + - - +
128O VAL* 3.5 20.6 + - - +
129O GLU* 3.6 11.6 + - - +
115P SER 5.0 1.2 - - - +
118P ALA* 3.6 31.7 + - - +
119P PHE* 4.1 4.3 + - - +
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Residues in contact with GLU 126 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1706 MET* 4.3 7.2 - - + -
53O HIS* 3.2 17.5 + - - +
122O TRP* 3.0 35.8 + - + +
123O PHE* 3.6 16.7 - - - +
124O ILE 3.3 0.2 - - - -
125O ASN* 1.3 77.4 - - - +
127O GLN* 1.3 81.5 + - - +
129O GLU* 3.2 14.8 + - - +
130O GLU* 2.9 55.6 + - + +
1171O AG 3.6 17.3 - - - -
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Residues in contact with GLN 127 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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17O GLU* 4.7 4.6 + - - -
50O GLU* 5.1 3.2 + - - -
53O HIS* 4.9 2.6 + - - -
94O GLU* 3.0 31.8 + - - +
97O ILE* 3.6 27.4 - - + +
98O SER* 3.2 30.1 + - - +
101O ILE* 4.6 9.0 - - + -
123O PHE* 2.9 22.3 + - + +
124O ILE* 4.0 5.8 - - - +
126O GLU* 1.3 99.6 + - - +
128O VAL* 1.3 59.9 + - - +
130O GLU* 3.9 6.4 + - - +
131O GLU* 3.1 34.3 + - - +
64P ARG* 5.3 0.7 - - - -
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Residues in contact with VAL 128 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124O ILE 3.2 18.5 + - - +
125O ASN* 3.5 12.3 - - - +
126O GLU 3.2 0.8 - - - -
127O GLN* 1.3 77.4 - - - +
129O GLU* 1.3 64.0 + - + +
131O GLU* 4.1 1.6 - - - +
132O ALA* 3.2 23.4 + - - +
60P TYR* 4.3 15.7 - - + -
63P ASP* 3.9 28.5 - - + +
64P ARG* 4.0 22.9 - - - +
115P SER* 4.0 29.2 - - - +
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Residues in contact with GLU 129 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1706 MET* 4.1 22.7 - - - +
125O ASN 3.6 9.6 + - - +
126O GLU* 3.2 13.7 + - - +
128O VAL* 1.3 80.3 - - + +
130O GLU* 1.3 51.7 + - + +
132O ALA* 3.4 5.5 + - - +
133O SER* 2.8 35.8 + - - -
63P ASP* 5.7 4.9 - - - +
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Residues in contact with GLU 130 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1706 MET* 6.5 1.3 - - + -
24O TYR* 4.6 0.7 + - - -
46O GLN* 3.1 29.1 + - - +
49O GLU* 4.8 0.5 - - - +
50O GLU* 3.0 20.8 - - - +
53O HIS* 3.1 12.8 - - - -
94O GLU* 3.0 36.8 - - - +
126O GLU* 2.9 34.2 + - + +
127O GLN* 4.2 6.2 + - - +
129O GLU* 1.3 75.8 - - + +
131O GLU* 1.3 60.3 + - - +
133O SER* 3.5 6.2 - - - -
134O VAL* 2.9 36.5 + - + +
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Residues in contact with GLU 131 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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91O TYR* 3.8 20.3 + - + -
94O GLU* 3.7 25.5 - - + +
95O LYS* 3.9 23.8 - - - +
98O SER* 2.8 30.9 + - - +
127O GLN 3.1 18.7 + - - +
128O VAL* 4.1 4.0 - - - +
130O GLU* 1.3 75.5 - - - +
132O ALA* 1.3 58.4 + - - +
134O VAL* 4.0 0.8 - - - -
135O LYS* 2.9 33.2 + - - +
1P MET* 5.8 1.4 + - - +
63P ASP 5.1 3.8 - - - +
64P ARG* 4.0 24.8 + - - +
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Residues in contact with ALA 132 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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128O VAL 3.2 16.5 + - - +
129O GLU* 3.7 4.7 - - - +
131O GLU* 1.3 78.9 - - - +
133O SER* 1.3 61.7 + - - +
135O LYS* 4.2 5.0 - - - +
136O LYS* 3.2 25.5 + - - +
62P TYR 5.3 0.7 - - - +
63P ASP* 3.5 42.5 + - - +
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Residues in contact with SER 133 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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42O TRP* 3.7 20.7 - - - -
46O GLN* 5.0 2.2 + - - -
129O GLU 2.8 18.4 + - - -
130O GLU* 3.5 11.0 - - - -
132O ALA* 1.3 77.9 - - - +
134O VAL* 1.3 63.8 + - - +
136O LYS* 3.7 9.4 + - - +
137O ILE* 3.6 21.6 + - - +
161O ARG* 5.0 2.3 + - - -
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Residues in contact with VAL 134 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24O TYR* 4.8 7.2 - - + +
42O TRP* 4.4 17.3 - - + -
46O GLN* 5.6 3.1 - - - +
87O PHE* 3.8 30.1 - - + +
90O ALA* 4.1 5.4 - - + -
91O TYR* 3.8 34.8 - - + +
94O GLU* 4.0 20.0 - - + -
130O GLU* 2.9 22.1 + - - +
131O GLU 4.1 2.9 - - - +
133O SER* 1.3 73.9 - - - +
135O LYS* 1.3 64.8 + - - +
137O ILE* 3.3 3.4 + - - -
138O LEU* 3.0 20.6 + - - +
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Residues in contact with LYS 135 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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91O TYR* 3.5 41.2 - - + +
131O GLU 2.9 20.4 + - - +
132O ALA* 4.2 5.2 - - - +
134O VAL* 1.3 78.3 - - - +
136O LYS* 1.3 56.7 + - - +
138O LEU* 3.6 11.2 - - + +
139O ASP* 2.8 67.2 + - - +
142O LYS* 5.5 5.2 - - - +
1P MET* 5.5 0.4 - - - -
65P ASN* 3.4 39.9 + - + +
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Residues in contact with LYS 136 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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357 GLY* 5.8 3.4 - - - +
377 GLU* 2.9 45.5 + - + +
132O ALA 3.2 19.8 + - - +
133O SER* 3.8 8.7 - - - +
134O VAL 3.2 0.4 - - - -
135O LYS* 1.3 78.2 - - - +
137O ILE* 1.3 64.7 + - + +
139O ASP* 3.6 6.5 + - - +
140O LYS* 3.3 52.8 + - + +
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Residues in contact with ILE 137 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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39O PHE* 4.3 6.7 - - + -
42O TRP* 3.5 39.3 - - + +
87O PHE* 3.7 38.4 - - + -
133O SER* 3.6 12.8 + - - +
134O VAL 3.3 1.7 + - - +
136O LYS* 1.3 77.8 - - + +
138O LEU* 1.3 66.4 + - - +
140O LYS* 3.2 10.1 + - + +
141O LEU* 3.0 26.2 + - + +
154O LEU* 4.8 9.4 - - + -
158O LEU* 3.8 31.6 - - + -
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Residues in contact with LEU 138 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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84O LEU* 3.8 5.3 - - + +
87O PHE* 3.4 42.0 - - + +
88O GLU* 3.8 22.4 - - + +
91O TYR* 3.6 29.8 - - + -
134O VAL 3.0 14.2 + - - +
135O LYS* 3.4 12.5 + - + +
137O ILE* 1.3 77.1 - - - +
139O ASP* 1.3 59.5 + - - +
141O LEU* 3.1 7.5 + - - +
142O LYS* 3.0 54.2 + - + +
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Residues in contact with ASP 139 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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337 ASP 5.8 0.2 - - - +
347 LEU 6.0 1.3 - - - +
357 GLY* 5.9 8.2 - - - -
135O LYS* 2.8 55.2 + - - +
136O LYS* 3.9 6.6 - - - +
138O LEU* 1.3 82.4 - - - +
140O LYS* 1.3 58.6 + - + +
142O LYS* 3.5 16.1 + - - +
143O PHE* 3.1 24.9 + - - +
65P ASN* 4.6 2.4 - - - +
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Residues in contact with LYS 140 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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357 GLY* 4.5 16.8 - - - +
377 GLU* 6.4 0.4 - - - +
1527 PHE* 4.5 17.9 - - + -
1557 ASP* 5.5 6.2 + - - -
136O LYS* 3.3 44.0 + - + +
137O ILE* 3.2 13.1 + - + +
139O ASP* 1.3 76.7 - - + +
141O LEU* 1.3 58.2 + - - +
143O PHE* 3.4 13.9 - - + +
144O ALA* 3.1 25.6 + - - +
150O ILE* 5.1 0.9 - - - +
154O LEU* 3.8 33.7 - - + +
157O GLU* 3.8 19.4 + - - -
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Residues in contact with LEU 141 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39O PHE* 4.2 13.9 - - + -
83O PRO* 3.6 20.9 - - + +
84O LEU* 3.7 26.0 - - + +
87O PHE* 3.6 37.7 - - + -
137O ILE* 3.0 23.6 + - + +
138O LEU* 3.1 6.7 + - - +
140O LYS* 1.3 74.9 - - - +
142O LYS* 1.3 64.1 + - - +
143O PHE 3.1 1.6 - - - -
144O ALA* 3.2 26.4 + - + +
145O LYS* 3.6 3.8 + - - -
151O LEU* 3.8 28.9 - - + -
154O LEU* 4.3 7.6 - - + -
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Residues in contact with LYS 142 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84O LEU* 3.7 19.9 - - + +
88O GLU* 4.1 14.1 - - - -
135O LYS* 5.5 3.8 - - - +
138O LEU* 3.0 32.3 + - + +
139O ASP* 3.6 20.0 + - - +
141O LEU* 1.3 76.3 - - - +
143O PHE* 1.3 60.3 + - - +
145O LYS* 3.3 36.1 - - - +
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Residues in contact with PHE 143 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
347 LEU 5.7 4.0 - - - -
367 LEU* 5.3 8.3 - - + -
1487 PRO* 3.5 48.8 - - + +
1517 LEU* 3.8 25.1 - - + -
1527 PHE* 4.4 23.6 - + + -
139O ASP 3.1 14.1 + - - +
140O LYS* 3.4 17.7 - - + +
141O LEU 3.1 0.2 - - - -
142O LYS* 1.3 78.7 - - - +
144O ALA* 1.3 57.0 + - - +
145O LYS 3.6 1.9 + - - -
150O ILE* 4.4 12.9 - - + +
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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