Contacts of the helix formed by residues 110 - 137 (chain B) in PDB entry 1ZRC
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 110 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106A ILE* 4.8 13.2 - - + +
107A GLN* 5.7 4.3 - - - -
110A PRO* 3.3 40.6 - - + -
113A LEU* 4.5 3.3 - - + +
106B ILE* 3.1 19.7 - - + +
107B GLN 4.3 5.2 - - - +
108B VAL 4.5 0.2 - - - -
109B ASN* 1.3 85.3 - - - +
111B ASP* 1.3 63.2 + - - +
112B ILE 3.2 0.7 - - - -
113B LEU* 3.1 7.8 + - + +
114B MET* 3.0 20.2 + - - +
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Residues in contact with ASP 111 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10B THR* 3.2 19.8 + - - +
109B ASN* 2.5 22.3 - - - +
110B PRO* 1.3 75.3 - - - +
112B ILE* 1.3 58.3 + - - -
114B MET* 3.2 14.9 + - - +
115B ARG* 2.9 59.0 + - - +
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Residues in contact with ILE 112 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10B THR* 4.4 11.4 - - + +
11B LEU* 3.7 28.9 - - + -
13B TRP* 4.9 7.0 - - + -
14B PHE* 3.8 30.5 - - + -
69B PHE* 3.9 12.0 - - + -
102B PHE* 4.0 20.6 - - + -
105B LEU* 4.5 5.2 - - + +
106B ILE* 4.0 24.9 - - + +
109B ASN* 3.3 19.4 - - - +
111B ASP* 1.3 80.3 + - - +
113B LEU* 1.3 72.9 + - - +
115B ARG* 3.2 9.4 + - + +
116B LEU* 3.2 19.9 + - - +
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Residues in contact with LEU 113 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A PRO* 5.3 1.6 - - + +
113A LEU* 3.1 45.5 - - + -
114A MET* 4.6 8.7 - - + +
117A SER* 4.0 2.2 - - - +
75B LEU* 4.9 0.2 - - + -
76B PHE* 4.3 16.4 - - + -
102B PHE* 4.7 2.5 - - + -
106B ILE* 3.7 44.2 - - + -
110B PRO* 3.1 9.3 + - + +
112B ILE* 1.3 79.2 - - - +
114B MET* 1.3 64.5 + - - +
116B LEU* 3.6 22.8 + - + -
117B SER* 2.9 25.3 + - - +
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Residues in contact with MET 114 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75A LEU* 6.0 3.1 - - - +
76A PHE* 3.9 22.3 - - + -
103A ARG* 4.9 19.5 - - + +
106A ILE* 3.8 40.6 - - + -
107A GLN* 6.0 3.6 - - + -
113A LEU* 4.2 8.1 - - + -
110B PRO 3.0 11.9 + - - +
111B ASP* 3.2 20.6 - - - +
112B ILE 3.1 0.2 - - - -
113B LEU* 1.3 74.9 - - - +
115B ARG* 1.3 69.4 + - + +
117B SER* 3.0 6.6 + - - -
118B ALA* 2.9 22.1 + - + +
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Residues in contact with ARG 115 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8B ASP* 3.4 28.3 + - - -
10B THR* 4.0 5.9 + - - -
11B LEU* 3.4 39.1 - - + +
69B PHE* 4.6 9.2 - - + -
111B ASP* 2.9 45.0 + - - +
112B ILE* 3.2 10.1 + - - +
114B MET* 1.3 77.1 - - - +
116B LEU* 1.3 62.6 + - - +
118B ALA* 3.1 11.2 + - - +
119B GLN* 3.1 25.5 + - - +
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Residues in contact with LEU 116 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39B LEU* 4.7 1.1 - - + -
69B PHE* 3.4 52.6 - - + -
72B GLU* 3.6 24.5 - - + -
75B LEU* 3.8 28.5 - - + -
76B PHE* 4.3 0.4 - - + -
102B PHE* 4.4 9.2 - - + -
112B ILE 3.2 9.7 + - - +
113B LEU* 3.8 18.6 - - + +
114B MET 3.2 0.2 - - - -
115B ARG* 1.3 77.6 - - - +
117B SER* 1.3 57.8 + - - +
119B GLN* 2.9 10.4 + - + +
120B MET* 2.9 43.5 + - + +
123B ARG* 6.3 0.2 - - - -
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Residues in contact with SER 117 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76A PHE* 3.2 29.6 - - - -
113A LEU* 4.4 1.8 - - - -
117A SER* 2.6 29.4 + - - -
120A MET* 3.6 7.1 - - - +
113B LEU* 2.9 15.9 + - - +
114B MET 3.0 5.1 + - - -
116B LEU* 1.3 74.0 - - - +
118B ALA* 1.3 60.6 + - - +
120B MET* 3.0 14.8 + - - +
121B ALA* 2.8 29.1 + - - +
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Residues in contact with ALA 118 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76A PHE* 3.5 34.6 - - + +
114B MET* 2.9 12.0 + - + +
115B ARG* 3.3 13.0 - - - +
117B SER* 1.3 75.0 - - - +
119B GLN* 1.3 64.1 + - + +
121B ALA* 3.1 5.4 + - - +
122B ARG* 3.1 22.0 + - - +
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Residues in contact with GLN 119 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11B LEU* 6.2 0.8 - - - +
67B GLY 2.8 25.6 + - - -
68B ASP* 3.0 10.8 - - - +
69B PHE* 2.9 36.5 + - + -
115B ARG* 3.1 12.3 + - - +
116B LEU* 2.9 13.1 + - + +
118B ALA* 1.3 76.9 - - + +
120B MET* 1.3 61.1 + - - +
122B ARG* 3.7 5.9 + - - +
123B ARG* 2.8 67.9 + - - +
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Residues in contact with MET 120 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117A SER* 4.1 8.3 - - - +
120A MET* 4.4 12.8 - - + -
121A ALA* 4.0 26.5 - - - -
124A LEU* 4.2 7.8 - - + +
72B GLU* 3.4 27.1 - - - +
73B LEU* 4.4 3.6 - - + -
76B PHE* 3.6 39.5 - - + -
116B LEU* 2.9 17.9 + - + +
117B SER* 3.0 33.1 + - - +
119B GLN* 1.3 76.7 - - + +
121B ALA* 1.3 65.8 + - - +
123B ARG* 3.0 10.6 + - - +
124B LEU* 2.9 22.3 + - - +
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Residues in contact with ALA 121 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A LEU* 3.8 33.2 - - + +
76A PHE* 4.0 22.4 - - + -
120A MET* 4.2 4.8 - - - -
117B SER 2.8 11.9 + - - +
118B ALA 3.4 9.2 - - - +
120B MET* 1.3 77.3 - - - +
122B ARG* 1.3 61.6 + - - +
124B LEU* 3.1 12.5 + - - +
125B GLN* 3.1 20.4 + - - +
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Residues in contact with ARG 122 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77A GLU* 3.5 24.2 + - - -
80A GLN* 5.1 7.1 + - - +
118B ALA 3.1 11.8 + - - +
119B GLN* 3.7 6.5 + - - +
120B MET 3.3 0.2 - - - -
121B ALA* 1.3 78.7 - - - +
123B ARG* 1.3 63.7 + - + +
125B GLN* 3.4 24.0 + - - +
126B VAL* 3.0 47.7 + - + +
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Residues in contact with ARG 123 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124A LEU* 3.6 18.7 - - + +
64B LEU* 3.5 24.0 - - + +
68B ASP* 3.4 12.5 + - - +
69B PHE* 2.8 30.8 + - - +
72B GLU* 3.0 31.0 + - - -
119B GLN* 2.8 54.6 + - - +
120B MET* 3.0 11.7 + - - +
122B ARG* 1.3 78.3 - - + +
124B LEU* 1.3 60.6 + - - +
126B VAL* 4.2 5.1 - - - +
127B THR* 2.7 31.5 + - - -
210B CMP 3.7 27.8 + - + -
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Residues in contact with LEU 124 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72A GLU* 4.2 6.7 - - - +
73A LEU* 3.3 37.5 - - + -
120A MET* 5.1 7.9 - - + +
123A ARG* 3.9 41.5 - - + +
124A LEU* 3.9 14.3 - - + +
127A THR* 4.3 2.7 - - - +
210A CMP 3.8 31.0 - - + +
120B MET 2.9 11.2 + - - +
121B ALA* 3.1 9.2 + - - +
123B ARG* 1.3 75.0 - - - +
125B GLN* 1.3 55.0 + - - +
127B THR* 3.2 2.4 + - - -
128B SER* 2.7 39.6 + - - +
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Residues in contact with GLN 125 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A LEU* 3.1 37.1 - - + +
80A GLN* 2.9 27.9 + - - +
81A GLU 5.4 3.5 - - - +
83A SER* 4.4 17.2 - - - -
210A CMP 5.2 1.0 + - - -
121B ALA* 3.1 14.8 + - - +
122B ARG* 3.6 34.8 - - - +
124B LEU* 1.3 76.8 - - - +
126B VAL* 1.3 55.1 + - + +
128B SER* 3.0 9.8 + - - -
129B GLU* 2.7 36.5 + - - +
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Residues in contact with VAL 126 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61B LEU 5.6 5.2 - - - +
62B SER* 5.8 7.0 - - - +
122B ARG* 3.0 38.7 + - + +
123B ARG* 4.2 5.2 - - - +
125B GLN* 1.3 76.1 - - + +
127B THR* 1.3 66.4 + - - +
129B GLU* 3.0 14.3 + - - +
130B LYS* 2.8 24.3 + - + +
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Residues in contact with THR 127 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124A LEU* 3.7 5.6 - - + +
127A THR* 3.6 20.6 - - + -
128A SER* 4.0 9.6 - - - +
131A VAL* 3.9 19.1 - - + -
61B LEU* 5.4 3.2 + - + -
123B ARG 2.7 24.4 + - - -
124B LEU 3.8 2.0 - - - -
126B VAL* 1.3 76.6 - - - +
128B SER* 1.3 62.6 + - - +
130B LYS* 3.0 21.2 + - + +
131B VAL* 3.1 16.8 + - - +
210B CMP 3.0 34.5 + - - +
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Residues in contact with SER 128 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A ILE* 4.2 7.7 - - - +
61A LEU* 3.8 16.2 - - - -
83A SER* 6.0 4.5 - - - -
127A THR* 4.2 3.6 - - - +
210A CMP 2.9 37.1 + - - -
124B LEU 2.7 19.5 + - - -
125B GLN* 3.2 12.1 - - - -
127B THR* 1.3 73.9 - - - +
129B GLU* 1.3 57.4 + - - +
131B VAL* 2.8 27.5 + - - +
132B GLY* 3.0 9.5 + - - -
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Residues in contact with GLU 129 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A ILE* 5.7 1.8 - - - -
125B GLN 2.7 16.1 + - - +
126B VAL* 3.5 14.7 - - - +
128B SER* 1.3 72.2 - - - +
130B LYS* 1.3 61.2 + - - +
132B GLY* 3.4 3.2 + - - +
133B ASN* 3.1 35.6 + - - +
145B GLN* 3.6 22.2 - - - +
149B ASN* 4.8 8.5 + - - +
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Residues in contact with LYS 130 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131A VAL* 4.2 27.4 - - + -
59B MET* 4.3 7.4 - - - +
60B ILE 3.5 21.6 + - - -
61B LEU* 3.8 21.5 - - + +
126B VAL* 2.8 16.1 + - + +
127B THR* 3.1 18.4 - - + +
128B SER 3.0 0.2 - - - -
129B GLU* 1.3 75.4 - - - +
131B VAL* 1.3 61.9 + - - +
133B ASN* 3.4 10.9 + - + +
134B LEU* 3.0 30.2 + - + +
146B THR* 5.7 0.4 + - - -
175B ILE* 2.5 38.6 + - - +
176B VAL* 4.9 1.0 - - - +
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Residues in contact with VAL 131 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A ILE* 5.4 0.2 - - + -
59A MET* 3.8 18.4 - - + -
61A LEU* 3.8 19.3 - - + -
127A THR* 3.8 21.1 - - + +
130A LYS* 4.8 8.1 - - + -
131A VAL* 3.8 23.1 - - + +
134A LEU* 3.7 20.6 - - + +
127B THR 3.3 14.8 - - - +
128B SER* 2.8 8.6 + - - +
130B LYS* 1.3 75.1 - - - +
132B GLY* 1.3 68.2 + - - +
134B LEU* 3.2 6.9 + - - +
135B ALA* 3.0 19.9 + - - +
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Residues in contact with GLY 132 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A ILE* 3.9 21.9 - - - +
59A MET* 5.5 0.4 - - - -
128B SER 3.0 10.5 + - - -
129B GLU* 3.4 4.2 + - - -
130B LYS 3.3 0.4 - - - -
131B VAL* 1.3 76.3 - - - +
133B ASN* 1.3 53.9 + - - +
135B ALA* 2.8 6.4 + - - -
136B PHE* 2.6 52.8 + - - +
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Residues in contact with ASN 133 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129B GLU* 3.1 27.7 + - - +
130B LYS* 3.5 12.5 - - + +
131B VAL 3.3 0.2 - - - -
132B GLY* 1.3 74.6 - - - +
134B LEU* 1.3 58.5 + - + +
137B LEU* 3.0 54.3 + - + +
142B ARG* 3.4 17.2 - - + -
145B GLN* 3.5 29.7 - - - +
149B ASN* 5.4 0.9 - - - +
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Residues in contact with LEU 134 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131A VAL* 4.0 39.0 - - + +
134A LEU* 4.3 27.6 - - + +
135A ALA* 4.8 4.3 - - + -
59B MET* 4.1 14.1 - - + -
130B LYS* 3.0 26.6 + - + +
131B VAL* 3.2 4.9 + - - +
133B ASN* 1.3 78.4 - - + +
135B ALA* 1.3 57.6 + - - +
137B LEU 4.3 6.5 - - - +
142B ARG* 3.2 35.1 + - - +
176B VAL* 3.5 13.5 - - - +
177B GLY* 5.4 0.4 - - - -
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Residues in contact with ALA 135 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A LYS* 4.2 8.0 + - - -
59A MET* 3.7 38.4 - - + -
134A LEU* 4.9 6.1 - - + -
177A GLY* 4.8 16.3 - - - +
131B VAL 3.0 13.4 + - - +
132B GLY 2.8 2.9 + - - +
134B LEU* 1.3 80.9 - - - +
136B PHE* 1.3 66.7 + - + +
137B LEU 3.7 1.3 - - - +
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Residues in contact with PHE 136 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A ILE* 3.4 30.7 - - + -
52A LYS 4.0 12.8 - - - -
53A ASP* 3.9 28.7 - - + +
54A GLU* 5.4 1.9 - - - +
57A LYS* 3.8 39.2 + - + +
58A GLU 4.3 3.1 - - - -
59A MET* 3.2 38.6 - - + -
132B GLY* 2.6 31.5 + - - +
135B ALA* 1.3 81.0 - - + +
137B LEU* 1.3 74.6 + - + +
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Residues in contact with LEU 137 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A GLU* 5.3 10.8 - - - +
133B ASN* 3.0 44.1 + - + +
134B LEU 4.3 5.5 - - - +
135B ALA 5.0 0.5 - - - +
136B PHE* 1.3 95.9 - - + +
138B ASP* 1.3 68.8 + - - +
141B GLY* 3.8 29.2 - - - +
142B ARG* 3.1 19.8 + - + +
145B GLN* 4.9 8.1 - - + +
----------------------------------------------------------
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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