Contacts of the helix formed by residues 112 - 144 (chain A) in PDB entry 4Z9G
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 SER 112 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111A LYS* 1.3 76.2 - - - +
113A LYS* 1.3 59.5 - - - +
114A VAL 3.0 5.4 - - - -
115A HIS* 2.9 43.5 + - - +
116A TYR* 3.4 27.4 + - - -
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Residues in contact with LYS 113 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111A LYS 3.4 7.1 - - - +
112A SER* 1.3 77.4 - - - +
114A VAL* 1.3 51.4 + - - +
116A TYR* 3.6 18.5 - - + +
117A HIS* 2.3 47.3 + - + +
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Residues in contact with VAL 114 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111A LYS* 3.2 29.2 - - - +
112A SER 2.9 0.6 + - - -
113A LYS* 1.3 76.2 - - - +
115A HIS* 1.3 69.3 + - + +
117A HIS* 3.2 18.1 + - + +
118A VAL* 3.1 35.0 + - + +
346A TYR* 5.5 0.9 - - - +
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Residues in contact with HIS 115 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111A LYS 5.6 0.7 - - - -
112A SER* 2.9 26.1 + - - +
114A VAL* 1.3 79.6 - - + +
116A TYR* 1.3 71.6 + - + +
119A ALA* 3.0 29.8 + - - +
341A ARG* 3.4 36.6 + - - -
342A VAL* 3.1 28.3 - - + +
345A ILE* 5.3 6.7 - - + +
346A TYR* 3.2 39.6 + + + +
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Residues in contact with TYR 116 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A SER* 3.4 23.5 + - - -
113A LYS* 3.2 20.1 + - + +
114A VAL 3.2 1.2 - - - -
115A HIS* 1.3 93.0 - + + +
117A HIS* 1.3 66.9 + - - +
119A ALA* 3.5 5.5 + - + +
120A ALA* 3.1 25.3 + - - +
345A ILE* 5.2 18.5 - - + +
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Residues in contact with HIS 117 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113A LYS* 2.3 43.5 + - + +
114A VAL* 3.2 27.8 + - + +
116A TYR* 1.3 77.1 - - - +
118A VAL* 1.3 67.4 + - + +
120A ALA* 3.6 10.9 - - - +
121A ILE* 3.6 19.6 - - - +
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Residues in contact with VAL 118 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114A VAL* 3.1 26.1 + - + +
117A HIS* 1.3 80.6 - - + +
119A ALA* 1.3 67.5 + - - +
121A ILE* 3.2 19.0 + - + +
122A ILE* 3.4 17.6 + - + +
346A TYR* 3.4 32.3 - - + +
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Residues in contact with ALA 119 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115A HIS 3.0 17.7 + - - +
116A TYR* 4.0 5.8 - - + +
118A VAL* 1.3 76.0 - - - +
120A ALA* 1.3 53.9 - - - +
122A ILE* 2.9 16.1 + - - +
123A ASN* 2.6 38.4 + - + +
345A ILE* 5.1 11.9 - - + +
346A TYR* 4.5 13.4 + - + -
349A ALA* 4.5 11.8 - - + +
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Residues in contact with ALA 120 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116A TYR 3.1 18.2 + - - +
117A HIS* 3.6 10.5 - - - +
119A ALA* 1.3 76.6 - - - +
121A ILE* 1.3 56.7 + - + +
123A ASN* 3.9 6.9 - - - +
124A TYR* 3.0 30.1 + - - +
169A TRP* 4.8 2.7 - - - -
173A GLN* 5.5 7.5 - - - +
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Residues in contact with ILE 121 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117A HIS 3.6 15.2 + - - +
118A VAL* 3.2 11.4 + - + +
119A ALA 3.1 0.8 - - - -
120A ALA* 1.3 75.3 - - + +
122A ILE* 1.3 62.4 + - + +
124A TYR* 3.1 4.5 + - - +
125A LEU* 2.8 35.3 + - + +
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Residues in contact with ILE 122 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A VAL* 3.4 15.9 + - + +
119A ALA* 2.9 12.7 + - + +
121A ILE* 1.3 76.6 - - + +
123A ASN* 1.3 63.7 + - - +
124A TYR 3.2 0.7 + - - -
125A LEU* 4.0 4.6 - - - +
126A GLY* 3.4 17.8 + - - -
346A TYR* 4.1 34.8 - - + +
349A ALA* 3.9 18.6 - - + -
350A PHE* 4.2 18.6 - - + +
353A SER* 3.8 4.0 + - - -
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Residues in contact with ASN 123 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119A ALA* 2.6 22.2 + - - +
120A ALA* 4.1 5.8 - - - +
122A ILE* 1.3 73.3 - - - +
124A TYR* 1.3 57.9 + - - +
127A HIS* 2.5 67.2 + - - -
169A TRP* 3.3 18.1 + - + +
349A ALA* 3.7 21.5 - - + +
352A GLU* 3.6 28.4 + - - +
353A SER* 3.5 8.2 + - - -
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Residues in contact with TYR 124 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A ALA 3.0 20.8 + - - +
121A ILE* 3.1 6.9 + - - +
123A ASN* 1.3 77.8 - - - +
125A LEU* 1.3 67.9 + - - +
127A HIS* 3.4 11.3 + - - +
128A CYS* 3.5 26.8 + - - -
169A TRP* 3.6 20.9 - + + -
170A PHE* 4.1 25.2 - + - -
173A GLN* 5.3 7.4 - - + -
174A LEU* 4.8 25.0 - - + +
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Residues in contact with LEU 125 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A ILE* 2.8 21.3 + - + +
122A ILE* 4.0 5.4 - - - +
124A TYR* 1.3 81.0 - - - +
126A GLY* 1.3 59.6 + - - +
128A CYS* 3.0 31.0 + - + +
129A ILE* 3.3 25.6 + - + +
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Residues in contact with GLY 126 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122A ILE 3.4 8.6 + - - -
125A LEU* 1.3 74.3 - - - +
127A HIS* 1.3 50.2 + - - +
128A CYS 3.0 5.2 - - - -
129A ILE* 3.1 14.8 + - - +
130A SER* 2.7 42.8 + - - -
353A SER* 2.9 17.0 - - - -
354A PHE* 4.0 8.5 - - - -
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Residues in contact with HIS 127 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123A ASN* 2.5 48.0 + - - +
124A TYR 3.4 6.4 + - - +
125A LEU 3.2 1.0 - - - -
126A GLY* 1.3 75.2 - - - +
128A CYS* 1.3 58.2 + - - +
130A SER* 3.9 2.5 - - - -
131A LEU* 3.3 6.6 + - - +
166A ASN* 2.8 52.3 + - + +
169A TRP* 3.5 40.5 - + + +
170A PHE* 3.7 16.0 - - + -
352A GLU* 4.2 14.3 + - - -
353A SER* 2.9 30.7 + - - -
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Residues in contact with CYS 128 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124A TYR* 3.5 28.7 - - - -
125A LEU* 3.0 15.6 + - + +
126A GLY 3.0 0.6 - - - -
127A HIS* 1.3 76.6 - - - +
129A ILE* 1.3 66.3 + - + +
130A SER 3.2 1.3 - - - -
131A LEU* 3.2 4.3 + - - +
132A VAL* 3.1 31.1 + - + +
170A PHE* 4.0 21.3 - - - -
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Residues in contact with ILE 129 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125A LEU* 3.5 32.5 - - + +
126A GLY* 3.1 6.3 + - - +
128A CYS* 1.3 75.5 - - + +
130A SER* 1.3 57.6 + - - +
132A VAL* 3.5 5.3 + - - +
133A ALA* 3.0 32.7 + - + +
354A PHE* 3.6 37.2 - - + -
357A PHE* 4.6 11.2 - - + -
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Residues in contact with SER 130 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126A GLY 2.7 16.4 + - - -
127A HIS* 4.0 1.3 - - - -
128A CYS 3.2 0.2 - - - -
129A ILE* 1.3 79.9 - - - +
131A LEU* 1.3 55.8 + - - +
133A ALA* 3.9 2.4 - - - +
134A LEU* 3.0 32.9 + - - +
166A ASN* 3.8 13.2 - - - -
353A SER 2.5 29.4 + - - -
354A PHE* 3.4 15.1 - - - -
356A GLY* 3.8 17.7 - - - -
357A PHE* 3.8 9.5 + - - +
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Residues in contact with LEU 131 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A HIS 3.3 8.3 + - - +
128A CYS* 3.2 6.5 + - - +
129A ILE 3.2 0.4 - - - -
130A SER* 1.3 79.0 - - - +
132A VAL* 1.3 62.6 + - + +
134A LEU* 4.7 2.0 - - + -
135A LEU* 2.8 47.3 + - + +
163A ILE* 4.0 32.1 - - + +
166A ASN* 3.2 33.2 - - + +
167A ALA* 4.7 13.7 - - + -
170A PHE* 4.3 17.9 - - + -
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Residues in contact with VAL 132 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A CYS* 3.1 18.3 + - + +
129A ILE* 4.0 4.7 - - - +
131A LEU* 1.3 76.1 - - + +
133A ALA* 1.3 59.9 + - - +
135A LEU* 3.8 6.5 - - + +
136A VAL* 2.9 48.3 + - + +
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Residues in contact with ALA 133 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129A ILE* 3.0 19.4 + - + +
130A SER 3.9 4.3 - - - +
132A VAL* 1.3 78.3 - - - +
134A LEU* 1.3 60.9 + - - +
136A VAL* 3.8 5.3 - - - +
137A ALA* 3.2 23.2 + - - +
357A PHE* 3.8 22.4 - - + -
360A SER* 3.6 22.0 - - - +
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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
----------------------------------------------------------
130A SER 3.0 22.2 + - - +
131A LEU* 3.9 7.4 - - + +
132A VAL 3.3 0.2 - - - -
133A ALA* 1.3 77.3 - - - +
135A LEU* 1.3 59.0 + - - +
137A ALA* 3.4 2.4 + - - +
138A PHE* 3.0 27.2 + - - +
159A ILE* 3.6 36.6 - - + +
162A PHE* 3.6 43.1 - - + +
163A ILE* 4.0 13.0 - - + +
166A ASN* 4.9 4.0 - - + +
356A GLY* 3.5 36.1 - - - +
359A VAL* 4.6 4.3 - - + -
360A SER* 4.0 9.9 - - - +
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Residues in contact with LEU 135 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131A LEU* 2.8 40.4 + - + +
132A VAL* 3.8 5.8 - - + +
134A LEU* 1.3 74.4 - - - +
136A VAL* 1.3 67.8 + - + +
138A PHE* 3.2 10.6 + - + +
139A VAL* 3.0 32.0 + - + +
163A ILE* 4.1 29.8 - - + -
1203A OLA 5.1 5.4 - - + -
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Residues in contact with VAL 136 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A VAL* 2.9 37.4 + - + +
133A ALA* 3.8 6.3 - - - +
134A LEU 3.3 0.2 - - - -
135A LEU* 1.3 76.5 - - + +
137A ALA* 1.3 62.9 + - - +
139A VAL* 3.1 11.6 + - + +
140A LEU* 3.1 43.7 + - + +
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Residues in contact with ALA 137 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A ALA 3.2 14.2 + - - +
134A LEU 3.7 4.3 - - - +
136A VAL* 1.3 79.1 - - - +
138A PHE* 1.3 63.0 + - - +
140A LEU* 3.1 13.8 + - - +
141A PHE* 3.0 30.5 + - + -
159A ILE* 3.7 19.7 - - + -
360A SER* 4.2 9.2 - - - +
364A CYS* 3.8 21.5 - - - -
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Residues in contact with PHE 138 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A LEU 3.0 14.3 + - - +
135A LEU* 3.2 16.1 + - + +
137A ALA* 1.3 76.8 - - - +
139A VAL* 1.3 65.2 + - + +
141A PHE* 3.4 5.3 + - - +
142A LEU* 3.3 58.2 + - + +
156A ALA* 3.4 33.2 - - + -
159A ILE* 3.7 16.5 - - + +
160A ALA* 3.9 9.0 - - + -
163A ILE* 3.8 14.6 - - + -
1203A OLA 4.1 40.2 - - + -
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Residues in contact with VAL 139 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135A LEU* 3.0 20.5 + - + +
136A VAL* 3.1 9.2 + - - +
138A PHE* 1.3 81.3 - - + +
140A LEU* 1.3 70.2 - - + +
142A LEU* 3.4 7.1 + - - +
143A ARG* 3.0 33.5 + - + +
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Residues in contact with LEU 140 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A VAL* 3.1 30.2 + - + +
137A ALA* 3.1 12.3 + - - +
139A VAL* 1.3 84.0 - - + +
141A PHE* 1.3 63.6 + - + +
143A ARG* 3.5 18.5 + - - +
144A ALA* 3.4 22.7 + - - +
364A CYS* 4.6 14.1 - - - -
367A ASN* 5.8 6.0 + - - +
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Residues in contact with PHE 141 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A ALA* 3.0 32.5 + - + -
138A PHE* 3.8 7.2 - - - +
139A VAL 3.3 0.2 - - - -
140A LEU* 1.3 78.7 - - + +
142A LEU* 1.3 64.1 + - - +
143A ARG 3.4 0.3 + - - -
144A ALA* 3.6 9.2 + - - +
146A SER* 5.3 1.9 - - - -
147A ILE* 3.6 21.2 + - + +
152A ASN* 3.9 22.6 - - + +
155A HIS* 3.4 31.6 - + + -
156A ALA* 4.2 20.2 - - + -
159A ILE* 3.5 26.5 - - + -
363A ALA* 3.6 28.0 - - + -
364A CYS* 4.5 6.5 - - - -
367A ASN* 3.7 29.6 - - - +
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Residues in contact with LEU 142 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A PHE* 3.3 54.8 + - + +
139A VAL* 3.9 5.8 - - - +
141A PHE* 1.3 77.5 - - - +
143A ARG* 1.3 62.7 + - - +
144A ALA 3.6 5.4 + - - +
147A ILE* 3.5 31.4 - - + +
156A ALA* 4.6 7.9 - - + -
1203A OLA 6.3 1.8 - - + -
----------------------------------------------------------
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Residues in contact with ARG 143 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139A VAL* 3.0 26.1 + - + +
140A LEU* 3.7 20.3 - - - +
141A PHE 3.2 0.4 - - - -
142A LEU* 1.3 79.7 - - - +
144A ALA* 1.3 61.9 + - - +
145A ARG* 4.0 1.2 + - - +
----------------------------------------------------------
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Residues in contact with ALA 144 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140A LEU 3.4 13.5 + - - +
141A PHE* 3.6 4.1 + - - +
142A LEU 3.4 0.9 - - - +
143A ARG* 1.3 81.5 - - + +
145A ARG* 1.3 59.5 + - - +
146A SER* 2.9 28.1 + - - +
147A ILE* 3.3 22.9 + - - +
367A ASN* 6.3 0.7 - - - +
----------------------------------------------------------
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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