Contacts of the helix formed by residues 103 - 131 (chain K) in PDB entry 6FF7
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 TRP 103 (chain K).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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97K LYS* 5.1 2.2 - - - -
99K ASP 3.1 22.2 + - - +
100K ILE* 3.9 10.0 + - - +
101K THR 3.8 2.2 - - - -
102K ALA* 1.3 73.9 - - - +
104K GLN* 1.3 66.2 + - - +
105K GLU 3.3 0.4 - - - -
106K CYS* 3.3 6.3 + - - +
107K VAL* 3.2 22.2 + - - +
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Residues in contact with GLN 104 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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102K ALA* 4.4 0.6 - - - +
103K TRP* 1.3 75.7 - - - +
105K GLU* 1.3 59.1 - - - +
107K VAL* 3.4 7.0 + - - +
108K ASN* 2.8 31.3 + - - +
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Residues in contact with GLU 105 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102K ALA* 3.8 22.5 - - + +
103K TRP 3.3 1.0 - - - +
104K GLN* 1.3 80.3 - - - +
106K CYS* 1.3 56.8 + - - +
108K ASN* 3.5 6.9 - - - +
109K ASN* 2.8 34.1 + - - +
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Residues in contact with CYS 106 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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97K LYS* 3.4 33.2 - - + -
102K ALA* 4.0 4.6 + - - +
103K TRP* 3.3 10.1 + - - +
104K GLN 3.2 0.6 - - - -
105K GLU* 1.3 78.1 - - - +
107K VAL* 1.3 63.8 + - - +
109K ASN* 4.4 1.9 - - - +
110K SER* 3.0 30.2 + - - -
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Residues in contact with VAL 107 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103K TRP 3.2 9.9 + - - +
104K GLN* 3.9 9.0 - - - +
106K CYS* 1.3 79.4 - - - +
108K ASN* 1.3 56.5 + - - +
110K SER* 4.5 3.4 - - - -
111K MET* 2.9 32.7 + - - +
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Residues in contact with ASN 108 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104K GLN 2.8 18.7 + - - +
105K GLU* 3.5 9.0 - - - +
106K CYS 3.1 0.2 - - - -
107K VAL* 1.3 75.5 - - - +
109K ASN* 1.3 67.2 + - - +
111K MET* 3.3 3.1 + - - +
112K ALA* 2.9 25.3 + - - +
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Residues in contact with ASN 109 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105K GLU* 2.8 20.0 + - + +
106K CYS* 4.4 2.0 - - - +
108K ASN* 1.3 74.0 - - - +
110K SER* 1.3 62.2 + - - +
112K ALA* 3.3 7.6 + - - +
113K GLN* 3.0 21.7 + - - +
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Residues in contact with SER 110 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106K CYS 3.0 20.8 + - - -
107K VAL* 4.2 3.4 - - - -
109K ASN* 1.3 77.6 - - - +
111K MET* 1.3 63.7 + - - +
113K GLN* 3.0 18.2 + - - +
114K LEU* 3.0 11.8 + - - +
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Residues in contact with MET 111 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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84H ALA* 5.1 1.7 - - - +
88H HIS* 4.3 23.6 - - + +
107K VAL 2.9 22.5 + - - +
108K ASN* 3.9 2.9 - - - +
110K SER* 1.3 76.4 - - - +
112K ALA* 1.3 63.2 + - - +
114K LEU* 3.1 10.8 + - - +
115K GLU* 3.0 23.9 + - - +
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Residues in contact with ALA 112 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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81H GLU* 6.3 1.3 - - - -
84H ALA* 4.1 22.6 - - + +
108K ASN 2.9 13.9 + - - +
109K ASN* 3.3 12.8 - - - +
110K SER 3.1 0.2 - - - -
111K MET* 1.3 76.8 - - - +
113K GLN* 1.3 62.6 + - - +
114K LEU 3.2 0.2 + - - -
115K GLU* 3.3 1.0 + - - +
116K HIS* 3.0 27.4 + - - +
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Residues in contact with GLN 113 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109K ASN 3.0 11.6 + - - +
110K SER* 3.0 12.6 + - - +
112K ALA* 1.3 75.3 - - - +
114K LEU* 1.3 63.0 + - - +
116K HIS* 4.1 4.3 - - - +
117K GLN* 2.9 26.8 + - - +
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Residues in contact with LEU 114 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110K SER 3.0 11.3 + - - +
111K MET* 3.1 13.6 + - - +
113K GLN* 1.3 75.7 - - - +
115K GLU* 1.3 64.0 + - - +
117K GLN* 3.0 7.6 + - - +
118K ALA* 3.0 23.3 + - - +
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Residues in contact with GLU 115 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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84H ALA* 3.9 20.9 - - + +
87H LEU* 3.6 31.7 - - + +
88H HIS* 4.8 3.1 - - + +
111K MET 3.0 14.0 + - - +
112K ALA 4.0 1.8 - - - +
114K LEU* 1.3 76.2 - - - +
116K HIS* 1.3 57.3 - - - +
118K ALA* 3.2 7.8 + - - +
119K VAL* 3.0 28.6 + - - +
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Residues in contact with HIS 116 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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84H ALA* 5.4 2.4 - - + +
112K ALA 3.0 17.0 + - - +
113K GLN* 4.1 4.3 - - - +
115K GLU* 1.3 77.5 - - - +
117K GLN* 1.3 56.0 + - - +
119K VAL* 3.6 6.7 + - - +
120K ARG* 2.9 28.1 + - - +
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Residues in contact with GLN 117 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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113K GLN 2.9 19.9 + - - +
114K LEU* 3.5 5.8 - - - +
116K HIS* 1.3 75.3 - - - +
118K ALA* 1.3 60.8 + - - +
120K ARG* 3.2 7.2 + - - +
121K ILE* 2.9 28.2 + - - +
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Residues in contact with ALA 118 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114K LEU 3.0 12.6 + - - +
115K GLU* 3.6 9.9 - - - +
117K GLN* 1.3 73.1 - - - +
119K VAL* 1.3 67.1 + - - +
121K ILE* 3.2 7.0 + - - +
122K GLU* 3.0 22.7 + - - +
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Residues in contact with VAL 119 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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81G GLU* 6.3 2.7 - - + -
85G VAL* 6.3 2.7 - - + -
115K GLU 3.0 16.0 + - - +
116K HIS* 4.0 7.2 - - - +
118K ALA* 1.3 76.0 - - - +
120K ARG* 1.3 57.4 + - - +
122K GLU* 3.4 7.8 + - - +
123K ASN* 2.9 28.8 + - - +
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Residues in contact with ARG 120 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68I ALA 6.0 2.2 - - - +
116K HIS 2.9 19.7 + - - +
117K GLN* 3.3 9.2 - - - +
118K ALA 3.1 0.2 - - - -
119K VAL* 1.3 75.4 - - - +
121K ILE* 1.3 65.2 + - - +
123K ASN* 3.2 7.1 + - - +
124K LEU* 2.9 24.5 + - - +
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Residues in contact with ILE 121 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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117K GLN 2.9 13.5 + - - +
118K ALA* 3.7 8.5 - - - +
120K ARG* 1.3 75.6 - - - +
122K GLU* 1.3 57.9 + - - +
124K LEU* 3.5 6.6 + - - +
125K GLU* 2.9 26.5 + - - +
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Residues in contact with GLU 122 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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118K ALA 3.0 15.4 + - - +
119K VAL* 3.7 8.3 - - - +
121K ILE* 1.3 75.0 - - - +
123K ASN* 1.3 66.2 + - - +
125K GLU* 2.9 18.9 + - - +
126K LEU* 3.0 14.0 + - - +
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Residues in contact with ASN 123 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67I SER* 6.3 2.2 - - - -
68I ALA* 5.7 7.9 - - + +
119K VAL 2.9 17.8 + - - +
120K ARG* 3.2 6.9 + - - +
122K GLU* 1.3 77.5 - - - +
124K LEU* 1.3 63.2 + - - +
125K GLU 3.2 0.2 + - - -
126K LEU* 3.3 5.6 + - - +
127K MET* 3.0 23.8 + - - +
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Residues in contact with LEU 124 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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120K ARG 2.9 16.0 + - - +
121K ILE* 3.8 7.9 - - - +
123K ASN* 1.3 76.2 - - - +
125K GLU* 1.3 56.4 + - - +
127K MET* 3.7 6.9 - - - +
128K SER* 2.9 32.1 + - - -
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Residues in contact with GLU 125 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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121K ILE 2.9 14.3 + - - +
122K GLU* 2.9 16.9 + - - +
124K LEU* 1.3 77.5 - - - +
126K LEU* 1.3 57.3 + - - +
128K SER* 3.8 3.1 - - - -
129K GLN* 2.9 28.5 + - - +
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Residues in contact with LEU 126 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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122K GLU 3.0 10.2 + - - +
123K ASN* 3.9 7.4 - - - +
125K GLU* 1.3 74.8 - - - +
127K MET* 1.3 64.5 + - - +
129K GLN* 2.9 18.8 + - - +
130K HIS* 3.1 13.3 + - - +
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Residues in contact with MET 127 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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66I PRO* 5.9 7.4 - - + -
123K ASN 3.0 17.2 + - - +
124K LEU* 3.7 7.9 - - - +
126K LEU* 1.3 77.3 - - - +
128K SER* 1.3 61.2 + - - +
130K HIS* 3.2 11.4 + - - +
131K GLY* 3.4 16.1 + - - +
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Residues in contact with SER 128 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124K LEU 2.9 18.1 + - - -
125K GLU* 3.9 4.0 - - - -
127K MET* 1.3 73.4 - - - +
129K GLN* 1.3 66.7 + - - +
130K HIS 3.3 5.7 + - - +
131K GLY* 4.0 4.3 + - - +
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Residues in contact with GLN 129 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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125K GLU 2.9 14.5 + - - +
126K LEU* 3.2 14.1 - - - +
128K SER* 1.3 78.4 - - - +
130K HIS* 1.3 65.3 + - - +
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Residues in contact with HIS 130 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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126K LEU 3.1 11.4 + - - +
127K MET* 3.2 5.8 + - - +
128K SER 3.2 1.8 - - - +
129K GLN* 1.3 83.2 - - - +
131K GLY* 1.3 62.9 + - - +
132K CYS 5.9 0.4 - - - +
133K ASN* 6.5 0.2 - - - -
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Residues in contact with GLY 131 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127K MET 3.4 11.8 + - - +
128K SER* 4.0 5.1 + - - -
130K HIS* 1.3 83.7 - - - +
132K CYS* 1.3 68.0 + - - +
133K ASN* 5.2 1.6 - - - -
134K ALA* 5.5 0.2 - - - +
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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) + - + + + + + -
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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