Contacts of the helix formed by residues 99 - 127 (chain A) in PDB entry 5FLZ
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 ASP 99 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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59A VAL* 6.0 6.5 - - + +
98A MET* 1.3 75.5 - - - +
100A PRO* 1.3 70.5 - - - +
101A SER* 2.8 33.1 + - - -
102A PHE* 3.5 27.4 - - + -
103A LYS* 2.7 31.9 + - - +
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Residues in contact with PRO 100 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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98A MET 4.2 2.5 - - - +
99A ASP* 1.3 94.8 - - - +
101A SER* 1.4 59.4 + - - +
103A LYS* 3.8 12.9 - - + +
104A THR* 2.9 32.4 + - - -
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Residues in contact with SER 101 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99A ASP* 2.8 17.0 + - - -
100A PRO* 1.4 81.6 - - - +
102A PHE* 1.4 70.4 + - - +
104A THR* 3.6 4.7 + - - -
105A PHE* 3.1 36.6 + - - -
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Residues in contact with PHE 102 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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56A GLU* 5.5 1.1 - - - -
59A VAL* 3.2 35.4 - - + -
60A VAL* 4.6 11.4 - - + -
63A LEU* 4.3 20.2 - - + +
98A MET* 4.1 11.9 - - + -
99A ASP* 3.2 30.0 + - + +
101A SER* 1.4 85.2 - - - +
103A LYS* 1.4 54.7 + - - +
105A PHE* 3.2 11.2 + + - +
106A SER* 2.8 35.9 + - - -
171A ARG* 3.4 29.4 - - - -
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Residues in contact with LYS 103 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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96A LYS* 3.3 30.0 + - + +
97A LYS* 3.8 13.3 - - - +
98A MET* 3.1 45.3 + - - +
99A ASP 2.7 18.3 + - - +
100A PRO* 3.8 12.1 - - + +
102A PHE* 1.4 71.7 - - - +
104A THR* 1.4 56.2 + - - +
106A SER* 2.8 21.9 + - - -
107A ARG* 3.1 13.0 + - - +
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Residues in contact with THR 104 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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100A PRO 2.9 17.8 + - - -
101A SER* 3.8 5.3 - - - -
103A LYS* 1.4 73.9 - - - +
105A PHE* 1.4 68.8 + - + +
107A ARG* 3.1 16.9 + - + +
108A ARG* 3.2 12.0 + - - +
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Residues in contact with PHE 105 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101A SER* 3.1 34.9 + - - -
102A PHE* 3.2 11.0 + + - +
104A THR* 1.4 81.3 - - + +
106A SER* 1.3 59.3 - - - +
108A ARG* 3.1 22.4 + - + +
109A ILE* 3.1 26.0 + - + +
171A ARG* 4.1 40.8 - - + +
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Residues in contact with SER 106 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A LEU* 5.9 7.6 - - - -
66A VAL* 6.0 6.5 - - - -
96A LYS* 2.9 22.9 + - - -
98A MET* 3.7 13.7 - - - +
102A PHE 2.8 14.8 + - - -
103A LYS* 2.8 21.5 + - - -
104A THR 3.2 0.2 - - - -
105A PHE* 1.3 76.9 - - - +
107A ARG* 1.4 54.2 + - - +
109A ILE* 3.4 11.5 + - - +
110A VAL* 3.0 34.4 + - - +
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Residues in contact with ARG 107 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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96A LYS* 3.7 19.7 - - - +
103A LYS 3.1 9.5 + - - +
104A THR* 3.1 15.0 + - + +
106A SER* 1.4 73.3 + - - +
108A ARG* 1.4 66.4 + - - +
110A VAL* 3.2 37.1 + - - +
111A ARG* 3.4 20.0 - - + +
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Residues in contact with ARG 108 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104A THR 3.2 6.4 + - - +
105A PHE* 3.1 12.5 + - + +
107A ARG* 1.4 78.5 - - - +
109A ILE* 1.3 70.9 + - - +
111A ARG* 3.0 64.8 + - - +
112A TYR* 3.4 36.6 - - - +
174A GLU* 5.6 4.5 - - - -
178A ASN* 4.0 24.5 + - - +
182A VAL* 4.8 5.5 - - - +
186A MET* 4.6 9.3 - - - +
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Residues in contact with ILE 109 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A LEU* 5.3 7.4 - - + -
66A VAL* 6.4 2.0 - - + -
67A LEU* 4.6 27.6 - - + -
105A PHE* 3.1 22.4 + - + +
106A SER* 3.6 13.0 - - - +
108A ARG* 1.3 96.2 - - + +
110A VAL* 1.3 64.6 + - + +
112A TYR* 3.1 14.2 + - + +
113A GLY* 3.1 10.9 + - - -
170A ILE* 5.0 17.9 - - + -
174A GLU* 5.3 16.2 - - + +
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Residues in contact with VAL 110 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91A GLU* 5.9 1.6 - - - +
96A LYS* 4.7 12.1 - - + +
106A SER* 3.0 24.6 + - - +
107A ARG* 3.3 34.8 - - - +
108A ARG 3.2 0.2 - - - -
109A ILE* 1.3 75.5 - - + +
111A ARG* 1.4 59.2 + - + +
113A GLY* 3.2 3.4 + - - -
114A LYS* 3.0 37.1 + - + +
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Residues in contact with ARG 111 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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107A ARG* 3.4 23.3 - - - +
108A ARG* 3.2 56.8 + - - +
110A VAL* 1.4 58.9 - - + +
112A TYR* 1.3 66.1 + - - +
114A LYS* 3.3 11.8 - - + +
115A GLN* 3.2 24.1 + - - +
186A MET* 5.2 10.7 - - - +
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Residues in contact with TYR 112 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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108A ARG* 3.4 29.7 - - - +
109A ILE* 3.1 7.7 + - + +
111A ARG* 1.3 79.9 - - - +
113A GLY* 1.3 65.5 + - - +
115A GLN* 3.2 8.4 + - + -
116A TYR* 3.1 38.7 + + + +
119A LEU* 5.9 1.2 - - - +
146A LEU* 4.6 12.3 - - - +
150A TYR* 4.0 32.2 - + - -
178A ASN* 4.6 3.1 - - - +
181A GLU* 3.3 48.7 - - + +
182A VAL* 4.0 19.5 - - + -
185A GLN* 5.6 5.0 - - + +
186A MET* 4.1 11.4 - - + -
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Residues in contact with GLY 113 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109A ILE 3.1 12.1 + - - -
110A VAL* 3.2 3.8 + - - -
112A TYR* 1.3 78.9 - - - +
114A LYS* 1.4 55.7 + - - +
116A TYR* 3.2 24.8 + - - -
117A MET* 3.1 38.0 + - - +
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Residues in contact with LYS 114 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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90A ILE* 3.9 21.6 + - - +
91A GLU* 2.9 47.9 + - - +
110A VAL* 3.0 24.0 + - + +
111A ARG* 3.3 11.7 - - - +
113A GLY* 1.4 69.4 - - - +
115A GLN* 1.3 71.4 + - - +
116A TYR 3.4 0.2 + - - -
117A MET* 3.4 6.6 + - - +
118A ILE* 3.0 40.8 + - + +
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Residues in contact with GLN 115 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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111A ARG 3.2 8.8 + - - +
112A TYR* 3.2 13.8 + - + +
114A LYS* 1.3 84.3 - - - +
116A TYR* 1.3 57.1 + - - +
118A ILE* 3.2 15.6 + - - +
119A LEU* 2.8 31.9 + - - +
185A GLN* 6.3 1.8 - - + -
186A MET* 3.8 35.0 - - + -
189A LEU* 3.3 27.7 - - + +
190A TYR* 3.6 31.0 + - - +
193A TYR* 3.5 14.7 + - - -
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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
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67A LEU 5.6 2.5 - - - -
68A ILE 3.2 25.8 + - - -
69A GLY* 3.3 14.1 + - - -
70A LEU* 6.0 0.3 - - - +
112A TYR* 3.1 33.5 + + + +
113A GLY* 3.2 24.3 + - - +
115A GLN* 1.3 75.1 - - - +
117A MET* 1.3 84.7 + - + +
119A LEU* 3.3 11.8 + - + +
120A THR* 3.2 35.3 + - + +
146A LEU* 6.1 2.9 - - + -
150A TYR* 4.4 27.8 - + + -
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Residues in contact with MET 117 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69A GLY* 4.1 19.3 - - - +
75A ILE* 5.8 5.6 - - + -
91A GLU* 5.2 13.0 - - + +
92A PHE* 4.4 31.6 - - + +
113A GLY* 3.1 21.8 + - - +
114A LYS* 3.7 9.9 - - - +
116A TYR* 1.3 103.6 - - + +
118A ILE* 1.3 65.8 + - + +
120A THR* 2.8 21.3 + - - -
121A ARG* 3.3 10.9 + - - +
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Residues in contact with ILE 118 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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90A ILE 5.8 0.4 - - - +
91A GLU* 3.9 19.1 - - - +
114A LYS* 3.0 39.7 + - + +
115A GLN* 3.8 14.4 - - - +
117A MET* 1.3 73.8 - - + +
119A LEU* 1.4 66.5 + - - +
121A ARG* 3.1 12.2 + - + +
122A ALA* 2.9 21.8 + - + +
193A TYR* 3.3 37.0 - - + +
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Residues in contact with LEU 119 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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112A TYR* 5.9 1.6 - - - +
115A GLN 2.8 17.3 + - - +
116A TYR* 3.4 10.1 - - - +
118A ILE* 1.4 76.7 - - - +
120A THR* 1.3 62.5 + - + +
122A ALA* 3.1 7.2 + - - +
123A TYR* 2.8 29.6 + - + +
126A TRP* 4.6 10.5 - - + -
142A ILE* 5.2 5.8 - - + -
143A ARG* 5.4 9.2 - - - -
146A LEU* 3.7 29.8 - - + -
185A GLN* 3.5 34.3 - - + +
189A LEU* 3.8 30.0 - - + +
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Residues in contact with THR 120 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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116A TYR* 3.2 20.5 + - + +
117A MET* 2.8 23.7 + - - -
119A LEU* 1.3 80.4 - - + +
121A ARG* 1.4 60.3 + - - +
123A TYR* 3.2 10.4 + - - +
124A GLU* 3.3 20.5 + - - +
143A ARG* 3.4 38.7 + - - +
146A LEU* 6.2 2.5 - - + -
147A GLU* 5.7 1.8 - - - +
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Residues in contact with ARG 121 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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77A TYR* 4.1 10.2 + - - -
79A ASN* 3.3 28.7 + - - -
80A ASP* 3.7 26.1 + - - +
117A MET 3.3 13.5 + - - +
118A ILE* 3.1 17.8 + - + +
120A THR* 1.4 76.0 + - - +
122A ALA* 1.3 62.5 + - - +
124A GLU* 3.3 19.5 + - + +
125A LYS* 3.4 15.1 + - - +
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Residues in contact with ALA 122 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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118A ILE* 2.9 16.0 + - + +
119A LEU 3.3 9.4 - - - +
121A ARG* 1.3 73.2 - - - +
123A TYR* 1.4 64.3 + - - +
125A LYS* 3.2 29.5 + - - +
126A TRP* 3.1 43.6 + - + +
189A LEU* 3.8 13.7 - - + -
193A TYR* 5.2 4.9 - - + -
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Residues in contact with TYR 123 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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119A LEU* 2.8 17.7 + - + +
120A THR 3.5 4.7 - - - +
121A ARG 3.2 0.2 - - - -
122A ALA* 1.4 79.0 - - - +
124A GLU* 1.4 77.7 + - - +
126A TRP* 3.3 13.1 + + + +
127A SER* 3.1 47.4 + - - +
139A ALA* 3.6 25.6 - - + -
140A TYR* 3.9 16.8 - - - -
143A ARG* 3.4 57.4 - - + +
292B ILE* 4.8 17.0 - - + +
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Residues in contact with GLU 124 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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120A THR* 3.3 15.4 + - - +
121A ARG* 3.3 11.4 + - + +
123A TYR* 1.4 90.7 - - + +
125A LYS* 1.4 62.9 + - - +
127A SER 2.7 25.9 - - - +
128A ASP* 3.4 18.5 - - + +
143A ARG* 5.2 1.5 + - - +
295B ARG* 4.5 15.7 + - - -
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Residues in contact with LYS 125 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A ARG* 3.4 8.2 + - - +
122A ALA* 3.2 24.2 + - - +
124A GLU* 1.4 65.4 - - - +
126A TRP* 1.4 58.9 + - + +
128A ASP* 5.1 1.4 - - - +
130A SER* 2.8 23.7 + - - -
193A TYR* 6.0 3.6 - - - -
196A ILE* 3.8 32.6 - - + +
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Residues in contact with TRP 126 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119A LEU* 4.6 8.7 - - + -
122A ALA* 3.1 29.0 + - + -
123A TYR* 3.7 20.9 - + + +
125A LYS* 1.4 85.8 - - + +
127A SER* 1.3 58.5 + - - +
130A SER* 2.8 13.0 + - - -
135A LEU* 3.7 29.8 - - + +
136A GLN* 3.3 17.0 - - - +
138A PHE* 4.1 17.4 - + - -
139A ALA* 3.5 33.9 - - + -
142A ILE* 5.6 9.0 - - + -
188A LEU* 6.3 1.3 - - + -
189A LEU* 3.5 26.5 - - + -
192A ILE* 3.7 39.3 - - + +
193A TYR* 6.0 0.9 - + - -
196A ILE* 4.3 12.7 - - + +
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Residues in contact with SER 127 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123A TYR* 3.1 34.9 + - - +
124A GLU* 2.7 26.0 - - - +
126A TRP* 1.3 77.5 + - - +
128A ASP* 1.4 56.3 + - - +
130A SER* 3.7 0.7 - - - -
136A GLN* 3.5 25.2 + - - -
139A ALA* 3.3 25.3 - - - +
140A TYR* 4.1 2.9 + - - -
324B ASP* 5.7 1.1 - - - -
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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