Contacts of the helix formed by residues 110 - 140 (chain F) 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 F).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51F ARG 4.6 3.8 - - - -
108F ASN 4.4 6.3 - - - +
109F VAL* 1.3 74.2 - - - +
111F ILE* 1.3 59.9 + - - +
112F GLU* 3.6 10.5 + - - +
113F GLU* 2.9 42.3 + - - +
114F GLN* 2.9 32.3 + - - +
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Residues in contact with ILE 111 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53B ARG* 3.8 28.5 - - - +
50F MET* 3.4 37.9 - - + -
51F ARG 3.4 22.3 + - - +
52F GLY* 3.7 14.4 - - - +
53F ARG 3.5 17.3 - - - +
54F GLY 4.8 0.4 - - - -
55F PHE 4.4 3.4 - - - +
58F TRP* 4.8 6.7 - - + -
110F THR* 1.3 74.0 - - - +
112F GLU* 1.3 64.6 + - - +
114F GLN* 3.2 4.7 + - + +
115F LEU* 2.9 42.6 + - + +
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Residues in contact with GLU 112 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53B ARG* 5.3 6.1 - - - +
110F THR* 3.3 9.3 + - - +
111F ILE* 1.3 79.0 - - - +
113F GLU* 1.3 62.8 + - - +
115F LEU* 3.8 1.4 - - - +
116F ALA* 2.9 32.0 + - + +
166F LEU* 4.0 24.6 - - + +
168F GLN* 5.7 2.6 + - - -
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Residues in contact with GLU 113 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108F ASN 4.4 0.9 - - - +
109F VAL* 3.5 23.2 - - + +
110F THR* 2.9 46.3 + - - +
112F GLU* 1.3 82.4 - - + +
114F GLN* 1.3 58.4 + - - +
116F ALA* 3.3 6.6 + - - +
117F ARG* 2.9 29.1 + - - +
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Residues in contact with GLN 114 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45F GLN* 5.5 1.8 - - - +
46F VAL* 3.6 42.0 - - + +
49F TYR* 4.2 25.7 + - - +
50F MET* 4.4 15.4 - - + +
51F ARG 5.8 0.2 - - - +
106F ASP 4.3 4.9 + - - -
109F VAL* 3.5 29.7 + - + +
110F THR 2.9 23.7 + - - +
111F ILE* 3.5 8.3 - - + +
113F GLU* 1.3 76.1 - - - +
115F LEU* 1.3 64.7 + - + +
117F ARG* 3.1 13.5 + - - +
118F VAL* 3.1 26.1 + - - +
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Residues in contact with LEU 115 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53B ARG* 5.2 1.6 - - - +
46F VAL* 5.7 0.2 - - + -
50F MET* 5.0 4.9 - - + -
58F TRP* 3.7 55.4 - - + +
62F MET* 4.1 13.0 - - + -
111F ILE* 2.9 33.5 + - + +
112F GLU* 3.9 3.1 - - - +
114F GLN* 1.3 76.6 - - + +
116F ALA* 1.3 57.1 + - - +
118F VAL* 3.2 6.0 + - + +
119F VAL* 2.9 31.2 + - - +
162F LEU* 3.9 13.9 - - + +
165F GLU* 3.9 18.2 - - + -
166F LEU* 4.0 22.4 - - + -
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Residues in contact with ALA 116 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112F GLU* 2.9 22.6 + - + +
113F GLU* 3.6 8.3 - - - +
115F LEU* 1.3 77.7 - - - +
117F ARG* 1.3 57.1 + - - +
119F VAL* 3.3 2.0 + - - -
120F GLU* 2.7 46.4 + - + +
166F LEU* 4.1 13.7 - - + +
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Residues in contact with ARG 117 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42F ILE* 3.7 37.6 - - + +
45F GLN* 4.3 12.5 + - - -
46F VAL* 5.1 4.4 - - + +
101F LYS 3.3 25.5 + - - -
102F GLU* 4.1 7.7 - - - +
103F VAL* 4.3 18.8 - - - +
113F GLU 2.9 14.0 + - - +
114F GLN* 3.4 20.4 - - - +
116F ALA* 1.3 79.1 - - - +
118F VAL* 1.3 61.8 + - + +
120F GLU* 3.2 8.6 + - - +
121F VAL* 3.0 35.3 + - + +
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Residues in contact with VAL 118 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42F ILE* 6.1 1.1 - - + -
43F LEU* 4.0 15.3 - - + -
46F VAL* 4.1 14.6 - - + -
62F MET* 3.8 26.2 - - + -
65F TYR* 4.3 7.2 - - + -
114F GLN 3.1 14.8 + - - +
115F LEU* 3.2 8.9 + - - +
117F ARG* 1.3 72.1 - - - +
119F VAL* 1.3 68.8 + - - +
121F VAL* 3.1 9.0 + - - +
122F PHE* 2.8 44.3 + - + +
162F LEU* 3.9 22.9 - - + -
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Residues in contact with VAL 119 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115F LEU 2.9 18.4 + - - +
116F ALA 3.5 7.6 - - - +
117F ARG 3.3 0.2 - - - -
118F VAL* 1.3 77.2 - - - +
120F GLU* 1.3 68.2 + - - +
122F PHE* 3.1 8.1 + - - +
123F ARG* 2.9 55.1 + - + +
159F ILE* 4.5 7.4 - - + +
162F LEU* 3.5 32.3 - - + -
163F GLN* 3.6 29.6 - - + +
166F LEU* 4.3 6.3 - - + -
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Residues in contact with GLU 120 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116F ALA* 2.7 36.6 + - + +
117F ARG* 3.2 7.6 + - - +
119F VAL* 1.3 87.5 - - - +
121F VAL* 1.3 62.3 + - + +
123F ARG* 3.3 29.6 + - - +
124F TYR* 3.1 21.8 + - - +
163F GLN* 4.9 2.9 + - - -
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Residues in contact with VAL 121 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39F ALA* 3.8 31.9 - - + +
42F ILE* 4.2 31.9 - - + -
43F LEU* 5.8 4.5 - - + -
100F LEU* 4.1 18.6 - - + -
117F ARG* 3.0 28.5 + - - +
118F VAL* 3.1 9.6 + - - +
120F GLU* 1.3 75.2 - - + +
122F PHE* 1.3 69.6 + - + +
124F TYR* 3.3 7.6 + - - +
125F LEU* 3.0 28.2 + - + +
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Residues in contact with PHE 122 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43F LEU* 4.3 17.3 - - + -
65F TYR* 3.9 31.0 - + + -
69F ILE* 4.6 7.9 - - + -
118F VAL* 2.8 29.6 + - + +
119F VAL* 3.6 4.7 - - - +
121F VAL* 1.3 82.6 - - + +
123F ARG* 1.3 60.2 + - - +
125F LEU* 3.2 7.1 + - + +
126F ALA* 2.8 26.0 + - - +
155F ILE* 3.5 37.4 - - + +
158F HIS* 3.7 34.5 - + + -
159F ILE* 3.7 16.2 - - + -
162F LEU* 3.9 21.8 - - + -
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Residues in contact with ARG 123 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119F VAL* 2.9 25.6 + - + +
120F GLU* 3.4 27.8 + - - +
122F PHE* 1.3 76.5 - - - +
124F TYR* 1.3 63.6 + - - +
126F ALA* 3.4 4.0 + - - +
127F ALA* 3.0 24.1 + - - +
159F ILE* 3.9 21.5 - - + +
163F GLN* 3.3 28.1 + - - +
170F PRO 2.8 24.0 + - - -
171F LYS* 2.9 33.0 + - - +
172F LEU* 3.9 9.1 + - - +
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Residues in contact with TYR 124 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31F GLN* 4.0 2.1 + - - +
35F ASP* 2.7 42.9 + - + -
99F GLN* 3.3 42.6 + - + +
100F LEU* 3.6 32.1 - - + -
120F GLU 3.1 12.7 + - - +
121F VAL 3.4 7.9 - - - +
122F PHE 3.2 0.2 - - - -
123F ARG* 1.3 77.9 - - - +
125F LEU* 1.3 68.9 + - + +
127F ALA* 3.1 8.7 + - + +
128F LEU* 2.9 36.5 + - + +
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Residues in contact with LEU 125 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35F ASP* 4.2 28.9 - - + +
36F LEU* 4.1 19.5 - - + -
39F ALA* 4.0 16.2 - - + -
69F ILE* 3.8 28.7 - - + -
100F LEU* 4.9 0.4 - - + -
121F VAL* 3.0 23.4 + - + +
122F PHE* 3.2 15.7 + - + +
124F TYR* 1.3 83.3 - - + +
126F ALA* 1.3 57.1 + - - +
128F LEU* 3.1 8.1 + - + +
129F PHE* 2.8 51.8 + - + -
155F ILE* 4.8 5.2 - - + -
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Residues in contact with ALA 126 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122F PHE 2.8 16.7 + - - +
123F ARG* 3.8 7.4 - - - +
125F LEU* 1.3 76.6 - - - +
127F ALA* 1.3 57.7 + - - +
129F PHE* 3.3 11.8 + - - +
130F GLN* 3.0 26.9 + - - +
152F LYS* 3.9 12.2 - - + +
155F ILE* 4.0 13.6 - - + +
156F GLU* 4.2 23.8 - - + +
159F ILE* 4.6 3.1 - - + -
172F LEU* 6.1 0.7 - - + -
----------------------------------------------------------
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Residues in contact with ALA 127 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123F ARG 3.0 16.6 + - - +
124F TYR* 3.1 9.4 + - + +
126F ALA* 1.3 73.8 - - - +
128F LEU* 1.3 65.8 + - - +
130F GLN* 3.2 9.2 + - - +
131F LYS* 3.1 21.1 + - - +
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Residues in contact with LEU 128 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28F VAL* 4.1 18.3 - - + +
31F GLN* 3.8 24.2 - - + -
32F ALA* 3.7 32.5 - - + -
35F ASP* 3.7 21.3 - - + +
124F TYR* 2.9 25.5 + - + +
125F LEU* 3.4 12.1 - - + +
127F ALA* 1.3 78.7 - - - +
129F PHE* 1.3 70.5 + - + +
131F LYS* 3.1 11.6 + - + +
132F GLY* 2.9 24.8 + - - -
148F PHE* 5.3 0.7 - - + -
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Residues in contact with PHE 129 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32F ALA* 4.7 0.7 - - + -
36F LEU* 4.1 23.8 - - + -
72F TYR* 4.1 7.4 - + - -
76F MET* 3.9 21.1 - - + -
125F LEU* 2.8 34.3 + - + +
126F ALA* 3.6 6.7 - - - +
127F ALA 3.2 0.2 - - - -
128F LEU* 1.3 94.2 - - + +
130F GLN* 1.3 56.5 + - - +
132F GLY 3.2 0.2 + - - -
133F PHE* 2.8 28.9 + - - +
148F PHE* 3.5 31.8 - + + +
151F ALA* 3.5 30.7 - - + -
152F LYS* 3.6 27.4 - - + -
155F ILE* 4.1 15.5 - - + -
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Residues in contact with GLN 130 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140D GLY 5.2 6.4 + - - -
142D SER* 4.9 6.7 + - - -
126F ALA 3.0 14.2 + - - +
127F ALA* 3.4 12.8 - - - +
128F LEU 3.2 0.2 - - - -
129F PHE* 1.3 78.1 - - - +
131F LYS* 1.3 57.1 + - - +
133F PHE* 3.2 15.2 + - - +
134F ASP* 2.9 56.2 + - - +
152F LYS* 3.2 32.2 - - + +
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Residues in contact with LYS 131 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28F VAL* 4.6 10.5 - - + -
127F ALA 3.1 12.3 + - - +
128F LEU* 3.1 14.8 + - + +
130F GLN* 1.3 76.9 - - - +
132F GLY* 1.3 58.7 + - - +
134F ASP* 3.2 10.3 + - + +
135F VAL* 2.9 56.0 + - + +
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Residues in contact with GLY 132 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28F VAL* 3.6 22.9 - - - +
128F LEU 2.9 12.0 + - - -
129F PHE 3.6 3.1 - - - -
131F LYS* 1.3 74.8 - - - +
133F PHE* 1.3 62.7 + - - +
135F VAL* 4.0 0.9 - - - +
136F SER* 2.8 30.1 + - - -
148F PHE* 3.5 23.4 - - - -
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Residues in contact with PHE 133 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140D GLY 6.1 0.4 - - - -
142D SER* 3.3 37.9 - - - -
129F PHE 2.8 14.0 + - - +
130F GLN* 3.3 21.5 - - - +
132F GLY* 1.3 74.2 - - - +
134F ASP* 1.3 78.1 + - - +
136F SER* 3.0 4.9 + - - -
137F ASP* 3.0 24.2 + - + +
145F ASN* 2.9 59.6 + - - +
148F PHE* 3.8 8.2 - - + +
149F ASN* 3.8 19.3 - - + +
152F LYS* 5.9 2.2 - - + -
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Residues in contact with ASP 134 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130F GLN* 2.9 41.2 + - - +
131F LYS* 3.6 13.6 - - + +
133F PHE* 1.3 85.9 - - - +
135F VAL* 1.3 63.0 + - + +
137F ASP* 3.2 4.8 + - - +
138F GLU* 3.0 34.3 + - - +
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Residues in contact with VAL 135 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24F ASP* 3.3 50.0 - - + +
25F SER* 3.6 6.5 - - - +
28F VAL* 4.3 8.1 - - + -
131F LYS* 2.9 51.2 + - + +
132F GLY 4.0 2.2 - - - +
134F ASP* 1.3 72.7 - - + +
136F SER* 1.3 65.1 + - - +
138F GLU* 3.1 21.7 + - - +
139F GLU* 3.1 16.2 + - + +
----------------------------------------------------------
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Residues in contact with SER 136 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25F SER* 3.3 20.2 - - - -
132F GLY 2.8 22.9 + - - -
133F PHE 3.0 8.5 + - - -
135F VAL* 1.3 76.5 - - - +
137F ASP* 1.3 60.8 + - - +
139F GLU 3.4 0.5 + - - -
140F GLY 3.0 4.0 + - - -
141F ASP* 2.9 45.4 + - - +
144F THR* 3.7 11.8 - - - -
145F ASN* 3.0 24.1 - - - -
----------------------------------------------------------
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Residues in contact with ASP 137 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133F PHE* 3.0 30.4 + - + +
134F ASP* 3.5 7.2 - - - +
136F SER* 1.3 78.8 + - - +
138F GLU* 1.3 61.6 + - + +
140F GLY* 3.2 12.0 + - - -
141F ASP 5.7 0.2 - - - -
142F SER* 6.4 0.2 - - - +
145F ASN* 3.6 19.2 + - - +
----------------------------------------------------------
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Residues in contact with GLU 138 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134F ASP* 3.0 26.0 + - + +
135F VAL* 3.1 13.7 + - - +
137F ASP* 1.3 78.6 - - + +
139F GLU* 1.3 61.9 + - + +
140F GLY 3.4 0.7 + - - -
----------------------------------------------------------
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Residues in contact with GLU 139 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22F LEU* 3.0 41.4 + - + +
23F ALA* 3.7 4.3 + - - +
24F ASP* 3.1 32.2 + - + +
25F SER* 2.7 41.0 + - - +
135F VAL* 3.1 14.1 + - + +
136F SER 4.1 1.1 - - - +
137F ASP 3.3 0.2 - - - -
138F GLU* 1.3 79.4 - - + +
140F GLY* 1.3 62.0 + - - +
141F ASP 3.3 0.6 + - - -
----------------------------------------------------------
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Residues in contact with GLY 140 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22F LEU* 5.2 0.4 - - - -
136F SER 3.0 5.4 + - - -
137F ASP* 3.2 8.6 + - - -
138F GLU 3.2 4.8 + - - -
139F GLU* 1.3 79.3 - - - +
141F ASP* 1.3 58.9 + - - +
142F SER* 3.1 11.3 + - - -
130K GLN* 5.1 8.8 + - - +
133K PHE* 5.9 1.4 - - - -
----------------------------------------------------------
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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