Contacts of the helix formed by residues 110 - 140 (chain L) in PDB entry 2UX1
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 L).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51L ARG 4.8 2.7 - - - -
108L ASN 4.5 6.1 - - - +
109L VAL* 1.3 74.4 - - - +
111L ILE* 1.3 65.0 + - - +
112L GLU* 3.6 7.3 + - - +
113L GLU* 2.8 46.0 + - - +
114L GLN* 2.8 25.6 + - - +
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Residues in contact with ILE 111 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53E ARG* 3.8 26.0 - - - +
50L MET* 3.8 31.6 - - + -
51L ARG 3.3 33.2 + - - +
52L GLY* 3.6 25.6 - - - +
53L ARG 3.7 5.8 - - - +
55L PHE* 4.2 8.3 - - - +
58L TRP* 4.6 8.7 - - + -
110L THR* 1.3 72.3 - - - +
112L GLU* 1.3 60.8 + - + +
114L GLN* 3.1 8.8 + - - +
115L LEU* 3.0 41.9 + - + +
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Residues in contact with GLU 112 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53E ARG* 3.0 51.3 + - - +
173E EPE 5.5 4.3 + - - -
110L THR* 3.2 7.6 + - - +
111L ILE* 1.3 76.6 - - + +
113L GLU* 1.3 57.7 + - - +
115L LEU* 4.6 1.1 - - + -
116L ALA* 3.1 26.2 + - - +
166L LEU* 3.7 28.7 - - + +
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Residues in contact with GLU 113 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108L ASN 4.6 0.5 - - - +
109L VAL* 3.4 24.6 - - + +
110L THR* 2.8 48.1 + - - +
112L GLU* 1.3 75.5 - - + +
114L GLN* 1.3 57.9 + - - +
116L ALA* 3.2 8.3 + - - +
117L ARG* 2.9 28.5 + - - +
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Residues in contact with GLN 114 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46L VAL* 3.5 26.1 - - + +
49L TYR* 4.0 32.9 + - - +
50L MET* 4.0 18.5 - - + +
106L ASP 4.2 2.8 + - - -
109L VAL* 4.0 20.7 + - + +
110L THR 2.8 24.2 + - - +
111L ILE 3.3 7.4 - - - +
113L GLU* 1.3 72.9 - - - +
115L LEU* 1.3 57.7 + - + +
117L ARG* 2.5 43.4 + - - +
118L VAL* 3.0 31.5 + - - +
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Residues in contact with LEU 115 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53E ARG* 5.0 3.1 - - - +
50L MET* 5.3 1.6 - - - -
58L TRP* 3.7 61.5 - - + +
62L MET* 3.9 17.3 - - + -
111L ILE* 3.0 27.7 + - + +
112L GLU* 5.0 0.7 - - - -
114L GLN* 1.3 77.2 - - + +
116L ALA* 1.3 57.7 + - - +
118L VAL* 3.1 6.3 + - - +
119L VAL* 2.9 33.7 + - - +
162L LEU* 4.1 13.1 - - + +
165L GLU* 4.0 13.5 - - + -
166L LEU* 4.0 24.5 - - + -
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Residues in contact with ALA 116 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112L GLU 3.1 19.4 + - - +
113L GLU* 3.2 8.5 + - - +
115L LEU* 1.3 76.4 - - - +
117L ARG* 1.3 60.4 + - - +
119L VAL* 3.4 6.7 + - - +
120L GLU* 3.1 22.9 + - - +
166L LEU* 4.1 14.7 - - + +
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Residues in contact with ARG 117 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42L ILE* 4.2 28.2 - - + +
45L GLN* 2.5 34.8 + - - +
46L VAL* 4.0 11.6 - - + +
49L TYR* 5.9 0.2 - - - +
103L VAL* 4.2 20.7 - - - +
106L ASP 5.8 1.8 + - - +
109L VAL* 5.1 10.4 - - - +
113L GLU 2.9 12.2 + - - +
114L GLN* 2.5 43.6 + - - +
116L ALA* 1.3 72.1 - - - +
118L VAL* 1.3 66.0 + - - +
120L GLU* 3.3 7.6 + - + +
121L VAL* 3.1 26.4 + - + +
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Residues in contact with VAL 118 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42L ILE* 5.8 1.8 - - + -
43L LEU* 3.9 31.6 - - + -
46L VAL* 4.1 14.6 - - + -
62L MET* 4.0 19.5 - - + -
65L TYR* 4.2 8.3 - - + -
114L GLN 3.0 17.2 + - - +
115L LEU* 3.1 9.2 + - - +
117L ARG* 1.3 74.7 - - - +
119L VAL* 1.3 65.3 + - - +
121L VAL* 3.2 9.7 + - - +
122L PHE* 3.0 32.9 + - + -
162L LEU* 3.7 24.2 - - + -
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Residues in contact with VAL 119 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115L LEU 2.9 19.5 + - - +
116L ALA* 3.5 9.9 - - - +
118L VAL* 1.3 77.7 - - - +
120L GLU* 1.3 58.3 + - - +
122L PHE* 3.2 4.7 + - - +
123L ARG* 2.8 52.8 + - + +
159L ILE* 4.5 8.2 - - + +
162L LEU* 3.5 35.0 - - + -
163L GLN* 3.7 26.7 - - + +
166L LEU* 4.4 5.8 - - + -
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Residues in contact with GLU 120 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100L LEU* 5.3 0.6 - - - +
116L ALA 3.1 13.6 + - - +
117L ARG* 3.3 11.0 + - + +
119L VAL* 1.3 74.9 - - - +
121L VAL* 1.3 65.9 + - + +
123L ARG* 3.3 23.2 + - - +
124L TYR* 3.1 22.9 + - - +
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Residues in contact with VAL 121 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39L ALA* 3.6 33.0 - - + +
42L ILE* 3.8 36.8 - - + -
43L LEU* 5.7 3.4 - - + -
100L LEU* 4.3 19.3 - - + -
117L ARG* 3.1 15.7 + - + +
118L VAL* 3.5 10.1 - - + +
120L GLU* 1.3 77.4 - - + +
122L PHE* 1.3 63.7 + - + +
124L TYR* 3.3 5.0 + - - +
125L LEU* 2.9 33.4 + - + +
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Residues in contact with PHE 122 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43L LEU* 4.4 13.2 - - + -
65L TYR* 3.9 31.9 - + + -
69L ILE* 4.2 20.2 - - + -
118L VAL* 3.0 20.6 + - + +
119L VAL* 3.2 5.6 + - - +
121L VAL* 1.3 83.5 - - + +
123L ARG* 1.3 59.7 + - - +
125L LEU* 4.3 9.9 - - + -
126L ALA* 2.8 26.2 + - - +
155L ILE* 3.2 29.3 - - + +
158L HIS* 3.7 35.4 - + + -
159L ILE* 3.7 13.9 - - + -
162L LEU* 3.7 27.6 - - + -
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Residues in contact with ARG 123 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119L VAL* 2.8 28.7 + - + +
120L GLU* 3.6 23.2 + - - +
121L VAL 3.3 0.2 - - - -
122L PHE* 1.3 77.0 - - - +
124L TYR* 1.3 56.8 + - - +
126L ALA* 3.4 4.6 + - - +
127L ALA* 3.0 28.1 + - - +
159L ILE* 3.9 22.6 - - + +
163L GLN* 3.4 28.3 - - - +
170L PRO 3.0 22.4 + - - -
171L LYS* 2.8 32.3 + - - +
172L LEU* 3.9 12.4 + - + +
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Residues in contact with TYR 124 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31L GLN* 3.8 3.5 + - - +
35L ASP* 2.5 43.6 + - + -
99L GLN* 3.2 39.6 - - + +
100L LEU* 3.7 31.4 - - + -
120L GLU 3.1 13.6 + - - +
121L VAL 3.5 7.2 - - - +
123L ARG* 1.3 74.1 - - - +
125L LEU* 1.3 63.3 + - + +
127L ALA* 3.1 8.7 + - + +
128L LEU* 2.8 39.0 + - + +
131L LYS* 4.8 15.6 + - - -
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Residues in contact with LEU 125 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35L ASP* 4.2 27.8 - - + +
36L LEU* 3.8 32.5 - - + -
39L ALA* 4.0 15.0 - - + -
69L ILE* 4.0 18.2 - - + -
100L LEU* 5.0 0.7 - - + -
121L VAL* 2.9 26.3 + - + +
122L PHE* 3.8 12.6 - - + +
123L ARG 3.4 0.2 - - - -
124L TYR* 1.3 81.1 - - + +
126L ALA* 1.3 56.2 - - - +
128L LEU* 3.3 10.4 + - + +
129L PHE* 2.9 50.2 + - + -
155L ILE* 4.7 5.8 - - + -
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Residues in contact with ALA 126 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122L PHE 2.8 18.0 + - - +
123L ARG* 3.5 6.7 - - - +
125L LEU* 1.3 76.7 - - - +
127L ALA* 1.3 61.0 + - - +
129L PHE* 3.5 4.8 + - - +
130L GLN* 3.1 22.2 + - - +
152L LYS* 3.9 13.7 - - + +
155L ILE* 4.2 13.4 - - + +
156L GLU* 4.4 19.5 - - + +
159L ILE* 4.2 11.0 - - + -
172L LEU* 5.6 2.2 - - + -
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Residues in contact with ALA 127 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123L ARG 3.0 13.8 + - - +
124L TYR* 3.5 11.2 - - + +
126L ALA* 1.3 71.9 - - - +
128L LEU* 1.3 60.6 + - - +
130L GLN* 3.2 8.5 + - - +
131L LYS* 3.0 45.1 + - - +
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Residues in contact with LEU 128 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28L VAL* 4.0 18.5 - - + +
31L GLN* 3.7 25.6 - - + -
32L ALA* 3.7 27.6 - - + -
35L ASP* 3.4 27.8 - - + +
124L TYR* 2.8 25.8 + - + +
125L LEU* 3.6 15.5 - - + +
127L ALA* 1.3 77.0 - - - +
129L PHE* 1.3 61.8 + - + +
131L LYS* 3.3 21.3 + - + +
132L GLY* 2.8 24.8 + - - -
148L PHE* 4.7 0.6 - - + -
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Residues in contact with PHE 129 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32L ALA* 4.3 4.0 - - + -
36L LEU* 3.9 25.6 - - + -
72L TYR* 4.5 5.2 - + - -
76L MET* 3.8 23.1 - - + -
125L LEU* 2.9 30.7 + - + +
126L ALA 3.9 4.0 - - - +
128L LEU* 1.3 92.5 - - + +
130L GLN* 1.3 61.0 + - - +
132L GLY 3.3 0.3 + - - -
133L PHE* 2.8 25.8 + - - +
148L PHE* 3.4 41.8 - + + +
151L ALA* 3.6 25.8 - - + -
152L LYS* 3.8 17.7 - - + -
155L ILE* 3.9 20.0 - - + -
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Residues in contact with GLN 130 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140G GLY 4.9 10.8 + - - +
142G SER* 4.8 4.9 + - - -
126L ALA 3.1 13.7 + - - +
127L ALA* 3.2 11.0 + - - +
129L PHE* 1.3 73.3 - - - +
131L LYS* 1.3 61.1 + - + +
133L PHE* 3.0 18.2 + - - +
134L ASP* 2.7 69.7 + - - +
152L LYS* 3.2 31.2 + - - +
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Residues in contact with LYS 131 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28L VAL* 4.4 8.7 - - + -
124L TYR* 4.8 14.6 + - - -
127L ALA* 3.0 34.9 + - - +
128L LEU* 3.5 21.3 - - + +
130L GLN* 1.3 74.3 - - + +
132L GLY* 1.3 57.9 + - - +
134L ASP* 3.3 8.6 + - - +
135L VAL* 2.9 38.4 + - + +
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Residues in contact with GLY 132 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28L VAL* 3.7 17.4 - - - +
128L LEU 2.8 13.5 + - - -
129L PHE 3.5 4.5 - - - -
131L LYS* 1.3 76.7 - - - +
133L PHE* 1.3 58.6 + - - +
135L VAL* 4.0 0.7 - - - +
136L SER* 2.8 30.3 + - - -
148L PHE* 3.5 27.3 - - - -
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Residues in contact with PHE 133 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140G GLY 5.9 0.7 - - - -
142G SER* 3.2 39.3 - - - -
129L PHE 2.8 17.0 + - - +
130L GLN* 3.0 19.2 + - - +
132L GLY* 1.3 72.4 - - - +
134L ASP* 1.3 71.1 + - - +
136L SER* 3.0 4.8 + - - -
137L ASP* 2.9 32.9 + - - +
145L ASN* 2.8 62.8 + - - +
148L PHE* 3.9 7.5 - - + +
149L ASN* 3.7 20.2 - - + +
152L LYS* 5.7 2.9 - - + -
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Residues in contact with ASP 134 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130L GLN* 2.7 51.2 + - - +
131L LYS* 3.7 7.2 - - - +
133L PHE* 1.3 84.3 - - - +
135L VAL* 1.3 63.5 + - + +
137L ASP* 3.5 4.4 + - - +
138L GLU* 3.1 24.3 + - - +
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Residues in contact with VAL 135 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24L ASP* 3.1 44.6 - - + +
25L SER* 3.4 17.5 - - - +
28L VAL* 4.3 7.9 - - + -
131L LYS* 2.9 22.2 + - + +
132L GLY 4.1 1.8 - - - +
134L ASP* 1.3 78.1 - - + +
136L SER* 1.3 61.9 + - - +
138L GLU* 3.2 9.1 + - - +
139L GLU* 3.1 22.7 + - + +
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Residues in contact with SER 136 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25L SER* 3.2 19.3 - - - -
132L GLY 2.8 22.8 + - - -
133L PHE* 3.0 11.1 + - - -
135L VAL* 1.3 77.9 - - - +
137L ASP* 1.3 59.8 + - - +
139L GLU 3.2 0.9 + - - -
140L GLY 3.1 4.2 + - - -
141L ASP* 2.9 44.2 + - - +
144L THR* 4.0 12.7 - - - -
145L ASN* 3.1 24.7 - - - -
148L PHE* 5.1 0.2 - - - -
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Residues in contact with ASP 137 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133L PHE* 2.9 34.3 + - + +
134L ASP* 3.5 7.4 - - - +
136L SER* 1.3 76.3 + - - +
138L GLU* 1.3 62.4 + - - +
140L GLY* 3.3 12.4 + - - +
141L ASP 5.2 0.4 - - - +
145L ASN* 3.6 17.2 + - - +
----------------------------------------------------------
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Residues in contact with GLU 138 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134L ASP 3.1 14.6 + - - +
135L VAL* 3.5 10.5 - - - +
137L ASP* 1.3 75.2 - - - +
139L GLU* 1.3 63.9 + - + +
140L GLY 3.5 0.5 + - - -
----------------------------------------------------------
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Residues in contact with GLU 139 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21L SER* 3.5 21.0 + - - +
22L LEU* 3.3 28.0 - - + +
23L ALA* 3.7 1.7 + - - +
24L ASP* 3.0 39.9 + - - +
25L SER* 2.6 37.6 + - - +
135L VAL 3.1 13.3 + - - +
136L SER 4.0 3.4 - - - +
137L ASP 3.2 0.4 - - - -
138L GLU* 1.3 79.8 - - + +
140L GLY* 1.3 62.0 + - - +
141L ASP 3.5 0.4 + - - +
----------------------------------------------------------
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Residues in contact with GLY 140 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130B GLN* 5.0 8.5 + - - +
22L LEU* 4.8 2.1 - - - +
136L SER 3.1 3.7 + - - -
137L ASP* 3.3 11.0 + - - -
138L GLU 3.3 1.4 + - - -
139L GLU* 1.3 81.0 - - - +
141L ASP* 1.3 59.0 + - - +
142L SER* 3.5 7.7 + - - -
----------------------------------------------------------
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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