Contacts of the helix formed by residues 111 - 138 (chain B) in PDB entry 4I0A
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 PRO 111 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107A ILE* 5.1 10.1 - - + +
108A GLN* 4.5 19.3 - - - +
111A PRO* 3.8 36.8 - - + -
114A LEU* 4.5 2.3 - - + +
107B ILE* 3.5 23.3 - - + +
108B GLN 4.8 2.7 - - - +
109B VAL 4.2 4.3 - - - +
110B ASN* 1.3 85.8 - - - +
112B ASP* 1.3 59.2 + - - +
113B ILE 3.1 0.9 - - - -
114B LEU* 2.8 26.2 + - + +
115B MET* 3.0 14.3 + - + +
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Residues in contact with ASP 112 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108A GLN* 4.4 14.0 + - - +
11B THR* 4.5 10.4 + - + +
110B ASN* 3.0 28.1 + - - +
111B PRO* 1.3 79.9 - - - +
113B ILE* 1.3 58.3 + - - +
115B MET* 3.2 15.5 + - + +
116B ARG* 3.0 38.6 + - - +
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Residues in contact with ILE 113 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11B THR* 4.1 21.8 - - + +
12B LEU* 5.2 4.9 - - + -
14B TRP* 4.4 7.4 - - + -
15B PHE* 3.9 33.2 - - + -
70B PHE* 4.2 14.6 - - + -
103B PHE* 3.7 33.7 - - + -
106B LEU* 4.4 4.0 - - + -
107B ILE* 4.1 19.7 - - + +
110B ASN 3.3 16.8 + - - +
111B PRO 3.1 0.8 - - - -
112B ASP* 1.3 78.5 - - - +
114B LEU* 1.3 63.3 + - - +
116B ARG* 3.6 13.8 + - - +
117B LEU* 3.3 21.5 + - - +
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Residues in contact with LEU 114 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111A PRO* 4.6 4.0 - - + +
114A LEU* 3.6 29.2 - - + -
115A MET* 3.8 32.1 - - + +
118A SER* 4.1 0.9 - - - +
77B PHE* 4.0 26.9 - - + -
103B PHE* 4.9 3.8 - - + -
107B ILE* 4.1 33.2 - - + -
111B PRO* 2.8 12.4 + - + +
113B ILE* 1.3 80.2 - - - +
115B MET* 1.4 59.4 + - - +
117B LEU* 3.2 11.5 + - + +
118B SER* 2.8 44.4 + - - +
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Residues in contact with MET 115 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76A LEU* 5.1 2.7 - - + +
77A PHE* 3.9 36.1 - - + +
104A ARG* 4.7 22.9 - - + -
107A ILE* 4.1 19.7 - - + -
108A GLN* 5.8 2.7 - - - +
114A LEU* 3.7 21.5 - - + +
111B PRO* 3.0 15.1 + - + +
112B ASP* 3.4 19.7 - - - +
114B LEU* 1.4 77.0 - - - +
116B ARG* 1.3 57.7 + - + +
118B SER* 3.4 2.2 + - - -
119B ALA* 2.9 31.4 + - - +
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Residues in contact with ARG 116 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9B ASP* 3.2 27.2 + - - -
11B THR* 4.4 16.1 - - - +
12B LEU* 3.3 33.9 - - - +
70B PHE* 4.3 11.7 - - + -
112B ASP* 3.0 28.3 + - - +
113B ILE* 3.8 19.5 - - - +
115B MET* 1.3 78.9 - - + +
117B LEU* 1.3 62.7 + - - +
119B ALA* 3.6 7.2 + - - +
120B GLN* 3.5 26.9 + - - +
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Residues in contact with LEU 117 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40B LEU* 4.0 26.5 - - + -
70B PHE* 3.9 25.0 - - + +
73B GLU* 4.1 17.7 - - + +
76B LEU* 4.3 5.8 - - + -
77B PHE* 4.1 11.7 - - + -
103B PHE* 3.6 31.6 - - + -
113B ILE 3.3 9.9 + - - +
114B LEU* 3.2 12.7 + - + +
116B ARG* 1.3 80.2 - - - +
118B SER* 1.3 58.1 + - - +
120B GLN* 3.1 7.8 + - - +
121B MET* 3.0 48.3 + - + +
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Residues in contact with SER 118 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77A PHE* 3.5 29.6 - - - -
114A LEU* 4.2 1.9 - - - +
118A SER* 2.5 30.3 + - - -
121A MET* 3.8 3.8 - - - +
114B LEU* 2.8 29.0 + - - +
115B MET 3.9 0.4 - - - -
117B LEU* 1.3 70.4 - - - +
119B ALA* 1.3 60.0 + - - +
121B MET* 3.1 14.1 + - - +
122B ALA* 2.8 31.0 + - - +
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Residues in contact with ALA 119 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77A PHE* 3.4 36.6 - - + +
115B MET 2.9 17.1 + - - +
116B ARG* 3.7 8.1 - - - +
118B SER* 1.3 74.2 - - - +
120B GLN* 1.3 59.6 + - + +
122B ALA* 3.5 2.8 + - - +
123B ARG* 3.2 25.6 + - - +
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Residues in contact with GLN 120 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68B GLY 2.9 25.6 + - - -
69B ASP* 3.9 11.4 + - - +
70B PHE* 2.9 43.7 + - + +
116B ARG* 3.5 12.0 + - - +
117B LEU* 3.1 9.0 + - - +
119B ALA* 1.3 75.6 - - + +
121B MET* 1.3 65.5 + - - +
123B ARG* 3.3 7.5 + - - +
124B ARG* 3.0 49.1 + - - +
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Residues in contact with MET 121 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A SER* 3.8 29.6 - - - +
121A MET* 4.2 14.8 - - + +
122A ALA* 4.0 29.8 - - - -
125A LEU* 4.8 6.0 - - + +
73B GLU* 3.8 35.2 - - + +
74B LEU* 4.1 3.8 - - + -
77B PHE* 3.8 12.6 - - + -
117B LEU* 3.0 31.2 + - + +
118B SER* 3.5 13.0 - - - +
120B GLN* 1.3 77.6 - - - +
122B ALA* 1.3 61.7 + - - +
124B ARG* 3.3 8.8 + - - +
125B LEU* 3.0 23.9 + - - +
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Residues in contact with ALA 122 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A LEU* 3.8 26.3 - - + +
77A PHE* 3.8 15.7 - - + -
121A MET* 3.1 27.9 - - + +
118B SER 2.8 12.3 + - - +
119B ALA 3.7 4.9 - - - +
120B GLN 3.3 0.2 - - - -
121B MET* 1.3 76.4 - - - +
123B ARG* 1.3 63.0 + - - +
125B LEU* 3.2 4.0 + - - +
126B GLN* 3.1 27.9 + - - +
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Residues in contact with ARG 123 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81A GLN* 5.3 3.9 - - - +
119B ALA 3.2 14.0 + - - +
120B GLN* 3.6 10.5 - - - +
122B ALA* 1.3 75.7 - - - +
124B ARG* 1.3 64.8 + - + +
126B GLN* 3.2 40.1 + - - +
127B VAL* 3.0 49.6 + - + +
130B GLU* 5.3 5.1 + - - -
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Residues in contact with ARG 124 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125A LEU* 3.8 16.8 - - + -
63B SER* 5.7 0.4 - - - +
65B LEU* 3.8 22.2 - - + +
69B ASP* 3.5 19.6 + - - +
70B PHE* 2.6 31.4 + - - -
73B GLU* 3.0 35.3 + - - -
120B GLN* 3.0 50.4 + - - +
121B MET* 3.6 6.1 - - - +
123B ARG* 1.3 77.9 - - + +
125B LEU* 1.3 57.7 + - - +
127B VAL* 3.8 5.3 - - - +
128B THR* 2.9 35.9 + - - -
301B CMP 3.7 31.2 + - + +
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Residues in contact with LEU 125 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A GLU* 4.1 8.1 - - - +
74A LEU* 3.8 30.5 - - + -
121A MET* 4.9 7.2 - - + +
124A ARG* 3.5 48.0 - - + +
125A LEU* 3.7 14.8 - - + +
128A THR* 3.7 17.3 - - + +
301A CMP 3.8 17.0 - - + +
121B MET 3.0 13.6 + - - +
122B ALA 3.6 7.4 - - - +
123B ARG 3.2 0.4 - - - -
124B ARG* 1.3 75.0 - - - +
126B GLN* 1.3 57.5 + - - +
129B SER* 2.7 42.0 + - - +
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Residues in contact with GLN 126 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A LEU* 3.7 38.0 + - + +
81A GLN* 3.0 30.9 + - - +
82A GLU 4.7 8.9 + - - -
84A SER* 4.2 20.8 - - - -
301A CMP 4.9 0.2 + - - -
122B ALA 3.1 15.4 + - - +
123B ARG* 3.2 43.2 + - - +
125B LEU* 1.3 77.1 - - - +
127B VAL* 1.3 57.9 + - - +
129B SER* 3.6 5.2 + - - -
130B GLU* 3.1 28.6 + - - +
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Residues in contact with VAL 127 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B LEU 5.2 9.2 - - - +
63B SER* 5.6 6.3 - - - +
123B ARG* 3.0 57.5 + - + +
124B ARG* 3.9 6.1 - - - +
126B GLN* 1.3 73.0 - - - +
128B THR* 1.3 64.2 + - - +
130B GLU* 3.2 14.8 + - - +
131B LYS* 3.0 28.4 + - + +
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Residues in contact with THR 128 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125A LEU* 4.2 6.1 - - - -
128A THR* 4.0 23.8 - - + +
129A SER* 4.0 12.6 - - - +
132A ALA* 4.4 8.5 - - + -
62B LEU* 4.6 11.8 + - + -
124B ARG 2.9 16.1 + - - -
125B LEU 4.2 1.3 - - - -
127B VAL* 1.3 78.5 - - - +
129B SER* 1.3 57.3 + - - +
131B LYS* 3.3 8.1 + - + +
132B ALA* 3.0 27.5 + - - +
301B CMP 2.8 35.6 + - - +
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Residues in contact with SER 129 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A ILE* 3.6 12.5 - - - +
62A LEU* 3.7 27.6 - - - +
84A SER* 6.0 1.8 - - - -
128A THR* 3.9 4.4 - - - +
301A CMP 2.8 33.4 + - - -
125B LEU 2.7 24.2 + - - -
126B GLN* 3.7 6.3 - - - -
128B THR* 1.3 74.7 - - - +
130B GLU* 1.3 60.0 + - - +
132B ALA* 3.4 2.6 + - - +
133B GLY 3.0 23.9 + - - -
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Residues in contact with GLU 130 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A ILE* 5.0 4.0 - - - -
123B ARG* 5.3 4.9 + - - -
126B GLN 3.1 15.4 + - - +
127B VAL* 3.5 18.0 - - - +
129B SER* 1.3 78.2 - - - +
131B LYS* 1.3 62.8 + - - +
133B GLY* 3.3 4.0 + - - -
134B ASN* 3.1 33.6 + - - +
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Residues in contact with LYS 131 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A ALA* 4.9 2.7 - - + -
60B MET* 3.3 12.6 - - + +
61B ILE 3.2 23.9 + - - +
62B LEU* 4.3 27.1 - - + +
127B VAL* 3.0 14.9 + - + +
128B THR* 3.3 12.3 + - + +
130B GLU* 1.3 77.7 - - - +
132B ALA* 1.4 56.7 + - - +
134B ASN* 3.1 13.0 + - + +
135B LEU* 2.9 44.4 + - + +
176B ILE* 2.7 37.6 + - - +
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Residues in contact with ALA 132 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A MET* 3.4 10.9 - - + +
62A LEU* 4.3 10.5 - - + -
128A THR* 4.6 7.9 - - + -
131A LYS* 4.6 4.9 - - + -
132A ALA* 4.4 12.3 - - + +
135A LEU* 3.2 26.9 - - + +
128B THR 3.0 16.2 + - - +
129B SER* 3.7 5.2 - - - +
131B LYS* 1.4 72.3 - - - +
133B GLY* 1.4 53.1 + - - +
135B LEU* 3.3 7.4 + - - -
136B ALA 2.9 29.8 + - - -
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Residues in contact with GLY 133 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A ILE* 3.8 22.6 - - - +
60A MET* 4.1 7.9 - - - +
129B SER 3.0 11.1 + - - -
130B GLU 3.4 5.4 - - - -
131B LYS 3.2 0.2 - - - -
132B ALA* 1.4 75.1 - - - +
134B ASN* 1.3 56.1 + - - +
136B ALA* 3.3 2.3 + - - +
137B PHE* 2.9 45.1 + - - -
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Residues in contact with ASN 134 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130B GLU* 3.1 28.3 + - - +
131B LYS* 3.1 11.6 + - + +
133B GLY* 1.3 74.7 - - - +
135B LEU* 1.3 57.6 + - + +
137B PHE* 4.4 4.2 - - - +
138B LEU* 2.8 57.6 + - + +
143B ARG* 5.1 2.9 - - + -
146B GLN* 5.1 9.1 - - - +
150B ASN* 5.3 6.3 + - - -
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Residues in contact with LEU 135 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A ALA* 3.2 42.6 - - + +
135A LEU* 3.7 13.6 - - + +
136A ALA* 4.1 3.6 - - + -
143A ARG* 4.0 5.2 + - - -
60B MET* 3.5 33.2 - - + -
131B LYS* 2.9 28.4 + - + +
132B ALA 3.6 6.5 - - - +
134B ASN* 1.3 72.3 - - + +
136B ALA* 1.3 61.7 + - - +
138B LEU 3.4 4.2 - - - +
143B ARG* 2.7 59.6 + - + +
177B VAL* 4.2 2.0 - - - +
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Residues in contact with ALA 136 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A MET* 3.4 39.3 - - + -
135A LEU* 4.1 15.4 - - + +
143A ARG* 4.5 6.0 + - - +
178A GLY* 4.0 11.1 - - - +
302A CMP 2.5 35.7 + - + -
132B ALA 2.9 10.6 + - - +
133B GLY 3.8 3.4 - - - +
134B ASN 3.3 0.2 - - - -
135B LEU* 1.3 74.7 - - - +
137B PHE* 1.3 57.9 + - + +
138B LEU 3.6 1.6 + - - +
----------------------------------------------------------
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Residues in contact with PHE 137 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A ILE* 4.1 4.5 - - + -
53A LYS* 3.6 10.1 - - - -
54A ASP* 3.4 44.7 - - + +
58A LYS* 3.6 29.7 - - + +
59A GLU 4.2 1.8 - - - -
60A MET* 3.4 32.3 - - + -
302A CMP 3.0 48.1 + + - -
133B GLY* 2.9 33.1 + - - +
134B ASN* 4.3 5.2 - - - +
136B ALA* 1.3 78.3 - - - +
138B LEU* 1.3 70.4 + - + +
139B ASP 4.4 0.2 + - - -
----------------------------------------------------------
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Residues in contact with LEU 138 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134B ASN* 2.8 36.5 + - + +
135B LEU 3.4 7.3 - - - +
136B ALA 3.4 1.6 - - - -
137B PHE* 1.3 89.6 - - + +
139B ASP* 1.3 58.9 + - - +
142B GLY* 3.8 28.5 - - - +
143B ARG* 2.8 41.8 + - + +
146B GLN* 3.9 23.6 - - + +
----------------------------------------------------------
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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