Contacts of the helix formed by residues 110 - 137 (chain A) 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 A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106A ILE* 3.0 29.2 - - + +
107A GLN 5.4 0.7 - - - -
109A ASN* 1.3 83.6 - - - +
111A ASP* 1.3 60.9 + - - +
112A ILE 3.1 2.0 - - - -
113A LEU* 2.9 26.8 + - + +
114A MET* 3.1 11.2 + - + +
106B ILE* 5.5 8.5 - - + +
107B GLN* 5.8 3.4 - - - +
110B PRO* 3.3 38.6 - - + -
113B LEU* 5.3 1.3 - - + +
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Residues in contact with ASP 111 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A THR* 3.8 16.6 + - + +
109A ASN* 2.7 21.0 + - - +
110A PRO* 1.3 77.2 - - - +
112A ILE* 1.3 62.4 + - - +
113A LEU 2.9 6.2 + - - -
114A MET* 3.0 27.8 + - - +
115A ARG* 2.7 42.7 + - - +
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Residues in contact with ILE 112 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A THR* 4.1 14.5 - - + +
11A LEU* 3.5 32.1 - - + -
13A TRP* 4.8 6.5 - - + -
14A PHE* 3.6 37.9 - - + -
69A PHE* 4.6 6.4 - - + -
102A PHE* 4.0 18.0 - - + -
105A LEU* 4.3 6.7 - - + +
106A ILE* 4.1 26.7 - - + +
109A ASN* 3.0 17.6 + - - +
111A ASP* 1.3 80.4 + - - +
113A LEU* 1.3 64.4 + - - +
115A ARG* 3.8 4.3 - - - +
116A LEU* 3.5 18.4 + - - +
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Residues in contact with LEU 113 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76A PHE* 4.6 9.0 - - + -
102A PHE* 5.3 2.9 - - + -
106A ILE* 3.5 47.1 - - + -
110A PRO* 2.9 17.2 + - + +
112A ILE* 1.3 79.4 - - - +
114A MET* 1.3 53.5 + - - +
115A ARG 3.1 1.3 - - - -
116A LEU* 3.0 8.5 + - + +
117A SER* 2.7 51.2 + - - +
110B PRO 4.5 5.2 - - - +
113B LEU* 3.1 26.5 - - + -
114B MET* 4.2 16.6 - - - +
117B SER* 3.8 9.4 - - - +
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Residues in contact with MET 114 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A PRO* 3.1 15.7 + - + +
111A ASP* 3.0 21.9 + - - +
113A LEU* 1.3 74.5 - - - +
115A ARG* 1.3 54.3 + - - +
117A SER* 3.2 6.5 + - - -
118A ALA* 2.7 36.9 + - + +
75B LEU* 5.9 2.2 - - - -
76B PHE* 3.8 23.2 - - + -
103B ARG* 5.9 8.5 - - + +
106B ILE* 4.2 38.8 - - + -
113B LEU* 4.6 8.2 - - + +
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Residues in contact with ARG 115 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8A ASP* 2.9 38.0 + - - -
10A THR* 4.5 2.8 - - - -
11A LEU* 3.5 37.3 - - + +
69A PHE* 4.5 8.1 - - + -
111A ASP* 2.7 45.8 + - - +
112A ILE* 3.8 8.7 - - - +
114A MET* 1.3 79.5 - - - +
116A LEU* 1.3 62.6 + - - +
118A ALA* 3.5 6.7 + - - +
119A GLN* 3.4 29.1 + - - +
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Residues in contact with LEU 116 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A LEU* 4.6 4.9 - - + -
69A PHE* 3.2 45.9 - - + -
72A GLU* 3.4 31.4 - - + -
75A LEU* 5.4 1.8 - - + -
76A PHE* 4.3 11.0 - - + -
102A PHE* 5.0 13.9 - - + -
112A ILE 3.5 8.3 + - - +
113A LEU* 3.0 11.1 + - + +
115A ARG* 1.3 78.0 - - - +
117A SER* 1.3 67.7 + - - +
119A GLN* 3.0 16.4 + - + +
120A MET* 3.1 44.0 + - + +
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Residues in contact with SER 117 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113A LEU* 2.7 31.0 + - - +
114A MET* 3.6 2.2 - - - -
116A LEU* 1.3 75.5 - - - +
118A ALA* 1.3 67.5 + - - +
120A MET* 2.7 20.1 + - - +
121A ALA* 2.8 12.8 + - - +
76B PHE* 3.3 29.2 - - - -
113B LEU* 4.0 1.4 - - - +
117B SER* 2.6 28.3 + - - -
120B MET* 4.1 4.3 - - - +
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Residues in contact with ALA 118 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114A MET* 2.7 21.6 + - + +
115A ARG* 3.7 8.1 - - - +
117A SER* 1.3 70.4 - - - +
119A GLN* 1.3 64.2 + - + +
121A ALA* 3.0 5.7 + - - +
122A ARG* 3.0 22.6 + - - +
76B PHE* 3.6 33.7 - - + +
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Residues in contact with GLN 119 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A TYR* 5.4 0.4 - - - -
67A GLY 3.0 25.3 + - - -
68A ASP* 3.7 15.6 + - - +
69A PHE* 2.7 44.5 + - + +
115A ARG* 3.4 16.3 + - - +
116A LEU* 3.0 13.1 + - + +
118A ALA* 1.3 81.0 - - + +
120A MET* 1.3 59.3 + - - +
122A ARG* 3.6 7.2 + - - +
123A ARG* 3.1 43.8 + - - +
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Residues in contact with MET 120 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72A GLU* 4.3 14.8 - - + +
73A LEU* 4.3 18.4 - - + -
76A PHE* 3.5 28.9 - - + -
116A LEU* 3.1 37.4 + - + +
117A SER* 2.7 19.2 + - - +
119A GLN* 1.3 70.0 - - + +
121A ALA* 1.3 66.5 + - - +
122A ARG 3.0 1.3 - - - -
123A ARG* 2.8 20.7 + - - +
124A LEU* 2.8 15.1 + - - +
117B SER* 3.6 23.1 - - - +
120B MET* 4.4 13.0 - - + -
121B ALA 4.2 16.4 - - - -
124B LEU* 5.1 5.6 - - + +
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Residues in contact with ALA 121 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117A SER 2.8 6.2 + - - +
118A ALA* 3.3 9.6 - - - +
120A MET* 1.3 76.3 - - - +
122A ARG* 1.3 60.8 + - - +
124A LEU 3.5 0.2 + - - -
125A GLN* 3.2 29.7 + - - +
73B LEU* 3.5 37.9 - - + +
76B PHE* 3.7 32.5 - - + -
120B MET* 4.0 3.5 - - - -
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Residues in contact with ARG 122 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A ALA 3.0 11.2 + - - +
119A GLN* 3.7 11.0 - - - +
121A ALA* 1.3 75.3 - - - +
123A ARG* 1.3 63.2 + - + +
125A GLN* 2.9 24.7 + - - +
126A VAL* 2.8 50.8 + - + +
77B GLU* 2.9 28.5 + - - +
80B GLN* 3.1 23.6 + - - +
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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
----------------------------------------------------------
62A SER* 6.0 0.2 - - - +
64A LEU* 3.6 19.7 - - + +
68A ASP* 3.4 17.4 + - - +
69A PHE 2.7 28.0 + - - +
72A GLU* 2.8 36.7 + - - +
119A GLN* 3.1 41.8 + - - +
120A MET* 2.8 12.6 + - - +
122A ARG* 1.3 76.8 - - + +
124A LEU* 1.3 54.8 + - - +
126A VAL* 3.8 6.0 - - - +
127A THR* 2.7 40.4 + - - -
210A CMP 3.7 27.7 + - + +
124B LEU* 3.9 22.2 - - + -
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Residues in contact with LEU 124 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A MET 2.8 15.0 + - - +
121A ALA* 3.7 5.4 - - - +
123A ARG* 1.3 74.1 - - - +
125A GLN* 1.3 66.1 + - - +
127A THR 3.1 0.5 + - - -
128A SER* 2.8 37.0 + - - +
72B GLU* 5.0 1.1 - - - +
73B LEU* 4.0 26.2 - - + -
120B MET* 4.2 15.7 - - + +
123B ARG* 3.6 52.5 - - + +
124B LEU* 3.9 11.4 - - + +
127B THR* 3.7 16.8 - - + +
210B CMP 3.9 11.0 - - + +
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Residues in contact with GLN 125 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A ALA* 3.2 10.1 + - - +
122A ARG* 2.9 49.7 + - - +
124A LEU* 1.3 80.1 - - - +
126A VAL* 1.3 65.5 + - + +
128A SER* 3.0 6.9 + - - -
129A GLU* 2.8 23.6 + - - +
73B LEU* 3.3 43.3 - - + +
74B GLY* 5.2 0.3 - - - -
80B GLN* 2.9 21.1 + - - +
81B GLU 5.0 5.8 - - - +
83B SER* 4.2 17.1 - - - -
210B CMP 5.1 0.3 + - - -
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Residues in contact with VAL 126 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A LEU 5.9 0.4 - - - +
62A SER* 6.0 3.6 - - - +
122A ARG* 2.8 46.5 + - + +
123A ARG* 3.8 5.2 - - - +
125A GLN* 1.3 77.1 - - + +
127A THR* 1.3 64.0 + - - +
129A GLU* 2.9 34.4 + - - +
130A LYS* 3.1 25.4 + - - +
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Residues in contact with THR 127 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A LEU* 4.9 8.7 + - + -
123A ARG 2.7 23.0 + - - -
124A LEU* 3.9 2.7 - - - -
126A VAL* 1.3 73.8 - - - +
128A SER* 1.3 62.1 + - - +
130A LYS* 3.2 13.9 + - + +
131A VAL* 3.2 18.5 + - - +
210A CMP 2.9 33.7 + - - +
124B LEU* 4.6 4.3 - - + -
127B THR* 3.6 26.5 - - + -
128B SER* 4.2 2.7 - - - +
131B VAL* 3.8 18.8 - - + -
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Residues in contact with SER 128 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124A LEU* 2.8 22.6 + - - +
125A GLN* 3.3 10.0 - - - -
127A THR* 1.3 73.3 - - - +
129A GLU* 1.3 68.2 + - - +
131A VAL* 2.9 17.4 + - - +
132A GLY* 3.2 8.7 + - - -
51B ILE* 4.6 7.1 - - - +
61B LEU* 3.9 20.4 - - - -
83B SER* 6.2 3.4 - - - -
127B THR* 4.0 8.4 - - - +
210B CMP 2.8 31.7 + - - -
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Residues in contact with GLU 129 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125A GLN 2.8 11.5 + - - +
126A VAL* 3.0 28.3 - - + +
128A SER* 1.3 77.5 - - - +
130A LYS* 1.3 61.0 + - + +
132A GLY* 3.0 5.3 + - - -
133A ASN* 3.0 32.3 + - - +
145A GLN* 4.4 15.4 + - - -
149A ASN* 5.9 0.5 + - - -
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Residues in contact with LYS 130 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A MET* 6.4 1.3 - - + -
60A ILE* 3.8 10.7 + - - +
61A LEU* 3.1 35.8 + - + +
62A SER* 4.5 4.8 - - - +
126A VAL* 3.1 29.2 + - + +
127A THR* 3.5 16.4 - - + +
128A SER 3.2 0.2 - - - -
129A GLU* 1.3 78.7 - - + +
131A VAL* 1.3 63.1 + - - +
133A ASN* 3.1 15.9 + - + +
134A LEU* 2.9 34.0 + - + +
149A ASN* 6.1 1.6 - - - -
175A ILE* 4.5 21.3 + - - +
131B VAL* 4.8 11.7 - - + -
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Residues in contact with VAL 131 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A THR 3.2 13.6 + - - +
128A SER* 2.9 10.5 + - - +
130A LYS* 1.3 77.8 - - - +
132A GLY* 1.3 63.2 + - - +
134A LEU* 3.4 5.7 + - - +
135A ALA* 3.0 21.3 + - - +
59B MET* 4.1 20.2 - - - -
61B LEU* 4.1 16.4 - - + -
127B THR* 3.9 19.3 - - + +
130B LYS* 4.2 17.0 - - + -
131B VAL* 3.8 20.6 - - + +
134B LEU* 4.0 19.7 - - + +
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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
----------------------------------------------------------
128A SER 3.2 4.4 + - - -
129A GLU 3.0 7.5 + - - -
131A VAL* 1.3 77.3 - - - +
133A ASN* 1.3 57.6 + - - +
135A ALA* 2.8 3.7 + - - -
136A PHE* 2.6 50.5 + - - +
51B ILE* 3.9 21.7 - - - +
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Residues in contact with ASN 133 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129A GLU* 3.0 31.5 + - - +
130A LYS* 3.4 19.7 - - + +
132A GLY* 1.3 75.1 - - - +
134A LEU* 1.3 64.9 + - + +
137A LEU* 2.9 45.1 + - + +
142A ARG* 3.4 24.1 - - + -
145A GLN* 4.0 28.9 + - - +
149A ASN* 5.8 1.0 + - - -
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Residues in contact with LEU 134 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A MET* 4.2 13.0 - - + -
130A LYS* 2.9 24.5 + - + +
131A VAL* 3.7 6.3 - - - +
133A ASN* 1.3 77.4 - - + +
135A ALA* 1.3 61.3 + - - +
137A LEU 4.1 6.9 - - - +
142A ARG* 3.7 31.4 + - - +
175A ILE 5.5 0.4 - - - +
176A VAL* 3.8 15.3 - - - +
177A GLY* 5.1 1.3 - - - +
131B VAL* 3.7 32.3 - - + +
134B LEU* 4.3 32.0 - - + +
135B ALA* 4.9 8.7 - - + -
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Residues in contact with ALA 135 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131A VAL 3.0 17.0 + - - +
132A GLY* 2.8 6.4 + - - +
134A LEU* 1.3 79.7 - - - +
136A PHE* 1.3 66.7 + - + +
137A LEU 5.1 0.2 - - - -
57B LYS* 4.9 7.6 + - - -
59B MET* 3.4 42.2 - - + -
134B LEU* 4.8 4.0 - - + -
177B GLY* 5.5 3.1 - - - -
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Residues in contact with PHE 136 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A GLY* 2.6 29.2 + - - +
135A ALA* 1.3 81.5 - - + +
137A LEU* 1.3 70.4 + - + +
138A ASP 4.0 0.9 + - - -
51B ILE* 3.9 26.2 - - + -
52B LYS 3.8 7.4 - - - -
53B ASP* 3.4 50.0 - - + -
54B GLU* 4.9 8.6 - - - +
57B LYS* 4.0 31.9 - - + +
58B GLU 4.4 1.8 - - - -
59B MET* 3.6 33.4 - - + -
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Residues in contact with LEU 137 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A ASN* 2.9 38.8 + - - +
134A LEU 4.1 4.0 - - - +
135A ALA 5.1 0.2 - - - -
136A PHE* 1.3 87.0 - - + +
138A ASP* 1.3 67.3 + - - +
141A GLY* 3.8 28.3 - - - +
142A ARG* 2.8 28.0 + - + +
145A GLN* 4.6 9.4 - - + +
54B GLU* 4.7 12.3 - - - +
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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