Contacts of the helix formed by residues 110 - 140 (chain A) in PDB entry 1UMN
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 THR 110 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A ARG 4.4 3.1 - - - -
108A ASN 4.5 5.4 - - - +
109A VAL* 1.3 79.7 - - - +
111A ILE* 1.3 64.1 + - - +
112A GLU* 3.6 7.7 + - - +
113A GLU* 3.1 25.5 + - + +
114A GLN* 2.9 22.9 + - - +
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Residues in contact with ILE 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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50A MET* 3.3 35.7 - - + -
51A ARG 3.4 24.9 + - - +
52A GLY* 3.5 16.4 - - - +
53A ARG 3.5 15.9 - - - +
55A PHE* 4.0 8.3 - - - +
58A TRP* 4.6 9.6 - - + -
110A THR* 1.3 73.7 - - - +
112A GLU* 1.3 64.4 + - - +
114A GLN* 3.0 8.1 + - - +
115A LEU* 2.9 40.3 + - + +
53K ARG* 3.9 24.9 - - - +
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Residues in contact with GLU 112 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A THR* 3.3 7.0 + - - +
111A ILE* 1.3 80.2 - - - +
113A GLU* 1.3 56.1 + - - +
115A LEU* 3.5 4.0 + - + +
116A ALA* 3.0 27.0 + - - +
166A LEU* 3.8 30.6 - - + +
53K ARG* 3.0 47.9 + - - +
1174K EPE 5.6 0.5 - - - -
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Residues in contact with GLU 113 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A VAL* 3.3 33.3 - - + +
110A THR* 3.1 19.9 + - + +
112A GLU* 1.3 74.5 - - - +
114A GLN* 1.3 67.1 + - - +
116A ALA* 3.2 7.6 + - + +
117A ARG* 2.9 23.7 + - + +
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Residues in contact with GLN 114 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A GLN* 5.4 4.9 + - - +
46A VAL* 3.6 41.8 - - + +
49A TYR* 4.2 29.3 + - - +
50A MET* 4.7 14.6 - - + -
51A ARG 5.8 0.2 - - - +
106A ASP 4.2 3.0 + - - -
109A VAL* 3.7 29.0 + - + +
110A THR 2.9 20.1 + - - +
111A ILE* 3.4 10.8 - - - +
113A GLU* 1.3 77.8 - - - +
115A LEU* 1.3 62.5 + - - +
117A ARG* 3.2 11.2 + - - +
118A VAL* 3.1 25.8 + - - +
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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
----------------------------------------------------------
50A MET* 4.7 6.5 - - + -
58A TRP* 3.7 61.2 - - + +
62A MET* 4.0 16.2 - - + -
111A ILE* 2.9 28.2 + - + +
112A GLU* 3.8 4.9 - - - +
113A GLU 3.2 0.2 - - - -
114A GLN* 1.3 75.9 - - - +
116A ALA* 1.3 59.2 + - - +
118A VAL* 3.1 6.4 + - + +
119A VAL* 2.9 30.0 + - - +
162A LEU* 4.1 11.9 - - + +
165A GLU* 4.0 15.9 - - + -
166A LEU* 4.1 20.2 - - + -
53K ARG* 5.4 2.0 - - - +
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Residues in contact with ALA 116 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A GLU 3.0 18.5 + - - +
113A GLU* 3.2 9.8 + - + +
115A LEU* 1.3 76.3 - - - +
117A ARG* 1.3 57.8 + - - +
119A VAL* 3.3 7.6 + - - +
120A GLU* 2.9 27.0 + - - +
163A GLN* 5.7 1.3 - - - +
166A LEU* 4.0 13.8 - - + +
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Residues in contact with ARG 117 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A ILE* 3.7 33.5 - - + +
46A VAL* 5.1 4.9 - - + -
100A LEU* 4.9 6.7 - - - +
101A LYS* 3.0 33.9 + - - +
113A GLU* 2.9 15.0 + - + +
114A GLN* 3.4 16.6 - - - +
115A LEU 3.2 0.2 - - - -
116A ALA* 1.3 75.1 - - - +
118A VAL* 1.3 64.7 + - - +
120A GLU* 2.7 52.6 + - - +
121A VAL* 3.0 34.8 + - - +
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Residues in contact with VAL 118 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A ILE* 6.1 1.3 - - + -
43A LEU* 4.0 16.6 - - + -
46A VAL* 4.1 13.5 - - + -
62A MET* 3.9 26.9 - - + -
65A TYR* 4.2 7.2 - - + -
114A GLN 3.1 16.1 + - - +
115A LEU* 3.1 9.2 + - - +
117A ARG* 1.3 72.5 - - - +
119A VAL* 1.3 68.0 + - - +
121A VAL* 3.1 8.1 + - - +
122A PHE* 2.8 42.7 + - + +
162A LEU* 3.7 23.6 - - + -
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Residues in contact with VAL 119 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115A LEU 2.9 19.6 + - - +
116A ALA* 3.5 10.3 - - - +
118A VAL* 1.3 76.9 - - - +
120A GLU* 1.3 57.2 + - - +
122A PHE* 3.2 7.7 + - - +
123A ARG* 2.8 59.1 + - + +
159A ILE* 4.4 9.0 - - + +
162A LEU* 3.5 32.3 - - + -
163A GLN* 3.7 30.5 - - + +
166A LEU* 4.5 2.2 - - + -
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Residues in contact with GLU 120 (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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116A ALA 2.9 13.5 + - - +
117A ARG* 2.7 44.0 + - - +
118A VAL 3.2 0.2 - - - -
119A VAL* 1.3 78.3 - - - +
121A VAL* 1.3 63.6 + - - +
123A ARG* 3.3 10.5 + - - +
124A TYR* 3.1 21.9 + - + +
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Residues in contact with VAL 121 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A ALA* 3.8 32.5 - - + +
42A ILE* 4.0 24.2 - - + -
43A LEU* 5.7 4.0 - - + -
100A LEU* 4.3 12.3 - - + -
117A ARG* 3.0 42.9 + - - +
118A VAL* 3.1 10.3 + - + +
120A GLU* 1.3 75.4 - - - +
122A PHE* 1.3 64.9 + - + +
124A TYR* 3.1 9.2 + - - +
125A LEU* 2.9 34.0 + - + +
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Residues in contact with PHE 122 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A ALA* 6.3 0.2 - - + -
43A LEU* 4.4 17.3 - - + -
65A TYR* 3.8 27.4 - + + -
69A ILE* 4.6 7.9 - - + -
118A VAL* 2.8 31.4 + - + +
119A VAL 3.6 4.9 - - - +
121A VAL* 1.3 81.1 - - + +
123A ARG* 1.3 60.4 + - - +
125A LEU* 3.2 9.6 + - + -
126A ALA* 2.8 27.2 + - - +
155A ILE* 3.4 34.2 - - + +
158A HIS* 3.6 34.8 - + + -
159A ILE* 3.7 15.7 - - + -
162A LEU* 3.8 26.9 - - + -
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Residues in contact with ARG 123 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119A VAL* 2.8 36.3 + - + +
120A GLU* 3.3 8.7 + - - +
122A PHE* 1.3 71.8 - - - +
124A TYR* 1.3 62.5 + - - +
126A ALA* 3.4 3.8 + - - +
127A ALA* 3.0 23.7 + - - +
159A ILE* 3.8 20.4 - - + +
163A GLN* 3.4 29.9 + - - +
170A PRO 2.9 23.4 + - - -
171A LYS* 2.9 32.6 + - - +
172A LEU* 4.0 10.5 + - + +
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Residues in contact with TYR 124 (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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31A GLN* 4.0 2.6 + - - +
35A ASP* 2.7 41.2 + - + -
99A GLN* 3.2 51.4 + - + +
100A LEU* 3.5 27.6 - - + -
120A GLU* 3.1 12.5 + - + +
121A VAL 3.2 8.3 - - - +
123A ARG* 1.3 78.2 - - - +
125A LEU* 1.3 67.7 + - + +
127A ALA* 3.1 10.2 + - + +
128A LEU* 2.8 39.5 + - + +
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Residues in contact with LEU 125 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35A ASP* 4.3 21.3 - - + +
36A LEU* 4.1 19.7 - - + -
39A ALA* 3.9 16.4 - - + -
69A ILE* 3.8 29.6 - - + -
100A LEU* 5.0 0.4 - - + -
121A VAL* 2.9 23.9 + - + +
122A PHE* 3.2 15.9 + - + +
124A TYR* 1.3 90.2 - - + +
126A ALA* 1.3 57.0 + - - +
128A LEU* 3.2 9.3 + - + +
129A PHE* 2.9 50.6 + - + -
155A ILE* 4.6 6.7 - - + -
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Residues in contact with ALA 126 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122A PHE 2.8 20.3 + - - +
123A ARG* 3.7 7.2 - - - +
125A LEU* 1.3 72.9 - - - +
127A ALA* 1.3 58.6 + - - +
129A PHE* 3.3 10.9 + - - +
130A GLN* 3.0 27.7 + - - +
152A LYS* 4.3 10.0 - - + +
155A ILE* 4.4 8.0 - - + +
156A GLU* 4.1 31.2 - - + +
159A ILE* 4.6 3.1 - - + -
172A LEU* 6.1 0.2 - - + -
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Residues in contact with ALA 127 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123A ARG 3.0 14.7 + - - +
124A TYR* 3.4 13.2 - - + +
126A ALA* 1.3 72.7 - - - +
128A LEU* 1.3 66.1 + - - +
130A GLN* 3.2 8.3 + - - +
131A LYS* 3.1 35.4 + - - +
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Residues in contact with LEU 128 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A VAL* 3.9 23.8 - - + +
31A GLN* 4.2 14.4 - - + -
32A ALA* 3.7 28.9 - - + -
35A ASP* 3.7 28.9 - - + +
124A TYR* 2.8 23.0 + - + +
125A LEU* 3.3 13.7 - - + +
127A ALA* 1.3 76.3 - - - +
129A PHE* 1.3 71.9 + - + +
131A LYS* 3.1 15.0 + - + +
132A GLY* 2.9 23.7 + - - -
148A PHE* 4.9 0.8 - - + -
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Residues in contact with PHE 129 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A ALA* 4.7 0.9 - - + -
36A LEU* 4.0 24.2 - - + -
72A TYR* 4.4 4.9 - + - -
76A MET* 3.7 23.6 - - + -
125A LEU* 2.9 32.9 + - + +
126A ALA* 3.7 5.6 - - - +
128A LEU* 1.3 92.0 - - + +
130A GLN* 1.3 61.3 + - - +
132A GLY 3.3 0.2 + - - -
133A PHE* 2.8 29.3 + - - +
148A PHE* 3.4 39.7 - + + +
151A ALA* 3.5 28.0 - - + -
152A LYS* 3.6 19.1 - - + -
155A ILE* 3.9 19.3 - - + -
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Residues in contact with GLN 130 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126A ALA 3.0 13.8 + - - +
127A ALA* 3.5 11.7 - - - +
128A LEU 3.2 0.2 - - - -
129A PHE* 1.3 76.8 - - - +
131A LYS* 1.3 59.1 + - + +
133A PHE* 3.1 17.1 + - - +
134A ASP* 2.9 62.4 + - - +
152A LYS* 3.0 39.6 - - - +
140I GLY 5.0 10.4 + - - +
142I SER* 4.8 5.9 + - - -
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Residues in contact with LYS 131 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A VAL* 4.4 6.7 - - + -
99A GLN* 5.4 7.5 - - - +
127A ALA* 3.1 21.6 + - - +
128A LEU* 3.1 16.5 + - + +
130A GLN* 1.3 77.4 - - + +
132A GLY* 1.3 56.6 + - - +
134A ASP* 3.3 9.3 + - - +
135A VAL* 2.9 38.1 + - + +
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Residues in contact with GLY 132 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A VAL* 3.5 24.9 - - - +
128A LEU 2.9 12.8 + - - -
129A PHE 3.3 1.3 + - - -
130A GLN 3.2 0.2 - - - -
131A LYS* 1.3 76.1 - - - +
133A PHE* 1.3 61.1 + - - +
135A VAL* 3.9 0.7 - - - +
136A SER* 2.8 31.2 + - - -
148A PHE* 3.5 23.7 - - - -
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Residues in contact with PHE 133 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129A PHE 2.8 14.7 + - - +
130A GLN* 3.2 20.9 - - - +
132A GLY* 1.3 76.2 - - - +
134A ASP* 1.3 71.4 + - - +
136A SER* 3.0 5.0 + - - -
137A ASP* 3.0 29.0 + - - +
145A ASN* 2.9 63.5 + - - +
148A PHE* 3.9 8.2 - - + -
149A ASN* 3.8 22.9 - - + +
152A LYS* 5.8 2.0 - - + -
140I GLY 5.7 2.5 - - - -
142I SER* 3.2 35.7 - - - -
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Residues in contact with ASP 134 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130A GLN* 2.9 45.8 + - - +
131A LYS* 3.7 7.3 - - - +
133A PHE* 1.3 82.5 - - - +
135A VAL* 1.3 67.6 + - + +
137A ASP* 3.1 6.1 + - - +
138A GLU* 2.9 38.2 + - - +
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Residues in contact with VAL 135 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A ASP* 3.2 51.1 - - + +
25A SER* 3.5 6.3 - - - +
28A VAL* 4.4 9.0 - - + -
131A LYS* 2.9 23.3 + - + +
132A GLY* 4.0 3.1 - - - +
134A ASP* 1.3 76.9 - - + +
136A SER* 1.3 64.4 + - - +
138A GLU* 3.2 17.2 + - - +
139A GLU* 3.1 23.9 + - + +
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Residues in contact with SER 136 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25A SER* 3.3 20.2 - - - -
132A GLY 2.8 22.8 + - - -
133A PHE 3.0 10.7 + - - -
135A VAL* 1.3 76.8 - - - +
137A ASP* 1.3 60.1 + - - +
139A GLU 3.3 1.0 + - - -
140A GLY 3.0 4.0 + - - -
141A ASP* 2.9 45.1 + - - +
144A THR* 3.8 11.6 - - - -
145A ASN* 3.1 25.6 - - - -
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Residues in contact with ASP 137 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A PHE* 3.0 30.2 + - + +
134A ASP* 3.1 8.0 + - - +
136A SER* 1.3 78.4 + - - +
138A GLU* 1.3 62.7 + - + +
140A GLY* 3.2 12.7 + - - -
141A ASP 5.7 0.2 - - - -
145A ASN* 3.6 17.1 + - - +
----------------------------------------------------------
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Residues in contact with GLU 138 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A ASP* 5.5 2.3 - - - +
134A ASP* 2.9 30.3 + - - +
135A VAL* 3.2 15.8 + - - +
137A ASP* 1.3 78.7 - - + +
139A GLU* 1.3 61.9 + - + +
140A GLY 3.6 0.3 + - - -
----------------------------------------------------------
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Residues in contact with GLU 139 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A LEU* 3.0 37.8 + - + +
23A ALA* 3.5 6.4 + - - +
24A ASP* 3.1 33.5 + - + +
25A SER* 2.7 39.8 + - - +
135A VAL* 3.1 13.0 + - + +
136A SER 4.1 2.9 - - - +
137A ASP 3.3 0.2 - - - -
138A GLU* 1.3 79.2 - - + +
140A GLY* 1.3 62.5 + - - +
141A ASP 3.3 0.6 + - - -
----------------------------------------------------------
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Residues in contact with GLY 140 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A LEU* 5.0 0.2 - - - -
136A SER 3.0 5.4 + - - -
137A ASP* 3.2 11.3 + - - -
138A GLU 3.3 1.2 + - - -
139A GLU* 1.3 78.4 - - - +
141A ASP* 1.3 59.0 + - - +
142A SER* 3.1 11.8 + - - -
130E GLN* 5.0 9.7 + - - +
133E PHE* 5.8 1.9 - - - -
----------------------------------------------------------
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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