Contacts of the helix formed by residues 84 - 114 (chain A) in PDB entry 4Q94
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 VAL 84 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A VAL* 3.5 35.4 - - + +
42A SER* 5.7 2.0 - - - +
44A TRP* 3.9 23.8 - - + -
45A HIS* 3.7 31.9 + - + +
81A PHE* 2.9 15.9 + - + +
83A SER* 1.3 86.7 + - - +
85A LEU* 1.3 61.5 + - - +
86A VAL 3.4 2.7 - - - -
87A ASP* 3.3 10.9 + - - +
88A ALA* 3.0 23.9 + - - +
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Residues in contact with LEU 85 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A TRP* 4.2 24.5 - - + -
60A LEU* 4.6 2.2 - - + -
63A ALA* 4.6 4.0 - - + -
67A ILE* 3.9 2.0 - - + -
81A PHE* 3.1 32.5 + - + +
82A GLU 3.9 1.6 + - - -
83A SER 3.7 0.4 - - - -
84A VAL* 1.3 76.0 - - - +
86A VAL* 1.3 60.8 + - - +
88A ALA* 3.9 2.9 - - + -
89A PHE* 2.9 53.5 + - + -
111B TRP* 3.8 18.6 - - + -
117B TYR* 3.6 40.2 - - + +
121B PHE* 4.1 8.3 - - + -
125B LEU* 3.7 13.5 - - + -
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Residues in contact with VAL 86 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82A GLU 4.9 1.5 + - - +
83A SER 5.5 1.1 - - - +
84A VAL 3.4 0.8 - - - -
85A LEU* 1.3 75.9 - - - +
87A ASP* 1.3 63.9 + - - +
90A SER* 3.0 25.5 + - - -
121B PHE* 4.0 19.4 - - + -
124B GLN* 4.3 23.1 - - + +
125B LEU* 3.9 18.6 - - + -
128B SER* 3.6 20.0 + - - -
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Residues in contact with ASP 87 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A HIS* 2.7 32.7 + - + +
49A ARG* 3.1 33.2 + - - -
83A SER 5.9 0.2 - - - +
84A VAL* 3.3 11.2 + - - +
85A LEU 3.3 0.2 - - - -
86A VAL* 1.3 81.9 - - - +
88A ALA* 1.3 57.0 + - - +
90A SER* 3.6 5.8 - - - -
91A HIS* 2.9 29.5 + - - +
94A ARG* 4.9 2.8 + - - -
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Residues in contact with ALA 88 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A TRP* 3.8 19.1 - - + -
45A HIS* 4.5 2.0 + - + -
48A LEU* 3.7 27.4 - - + -
60A LEU* 4.1 7.9 - - + -
84A VAL 3.0 15.1 + - - +
85A LEU* 3.2 12.5 + - + +
87A ASP* 1.3 79.4 + - - +
89A PHE* 1.3 57.7 + - - +
91A HIS* 3.6 3.0 - - - +
92A VAL* 2.9 35.5 + - - +
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Residues in contact with PHE 89 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A LEU* 4.1 23.6 - - + -
85A LEU* 2.9 36.0 + - + +
88A ALA* 1.3 73.9 - - - +
90A SER* 1.3 57.5 + - - +
92A VAL* 4.1 4.6 - - - +
93A ALA* 2.8 37.1 + - - +
104B LEU* 4.0 17.8 - - + +
107B LEU* 3.9 22.2 - - + -
108B LEU* 3.5 35.0 - - + -
111B TRP* 3.8 26.7 - + - -
125B LEU* 4.1 12.3 - - + +
128B SER* 3.7 14.6 - - - +
129B MET* 4.0 23.6 - - + +
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Residues in contact with SER 90 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86A VAL* 3.0 20.2 + - - -
87A ASP* 3.6 8.1 - - - -
89A PHE* 1.3 77.3 - - - +
91A HIS* 1.3 62.4 + - - +
93A ALA* 3.3 1.9 + - - +
94A ARG* 2.9 36.2 + - - +
128B SER* 3.4 29.9 + - - +
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Residues in contact with HIS 91 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A LEU* 4.3 12.8 - - + -
49A ARG* 3.7 42.4 + - + +
56A LYS* 3.0 40.0 + - + -
87A ASP* 2.9 20.2 + - - +
88A ALA* 3.6 3.8 - - - +
90A SER* 1.3 78.2 + - - +
92A VAL* 1.3 66.1 + - + +
94A ARG* 3.4 32.0 + - - +
95A GLU* 2.9 45.4 + - + +
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Residues in contact with VAL 92 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A LEU* 3.8 29.4 - - + -
56A LYS* 4.0 18.6 - - + -
57A LEU* 4.5 8.1 - - + +
60A LEU* 4.0 19.3 - - + -
88A ALA 2.9 22.9 + - - +
89A PHE 4.1 2.2 - - - +
91A HIS* 1.3 76.9 - - + +
93A ALA* 1.3 61.4 + - - +
95A GLU* 3.3 5.0 + - + +
96A ALA* 2.8 30.9 + - + +
104B LEU* 3.9 24.7 - - + -
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Residues in contact with ALA 93 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89A PHE 2.8 19.4 + - - +
90A SER 3.6 3.8 - - - +
92A VAL* 1.3 77.1 - - - +
94A ARG* 1.3 57.5 + - - +
96A ALA* 3.3 3.4 + - - +
97A ASP* 3.0 34.8 + - - +
101B LYS* 4.3 12.8 - - + -
104B LEU* 3.7 12.2 - - + +
128B SER 4.7 0.2 - - - +
129B MET* 3.7 35.7 - - + +
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Residues in contact with ARG 94 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A ARG* 3.4 39.4 - - - +
87A ASP* 4.9 2.4 + - - -
90A SER* 2.9 22.1 + - - +
91A HIS* 3.5 31.9 + - - +
93A ALA* 1.3 74.4 - - - +
95A GLU* 1.3 67.4 + - + +
97A ASP* 3.4 8.4 + - - +
98A GLU* 3.0 31.4 + - - +
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Residues in contact with GLU 95 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A SER* 3.8 22.1 + - - +
56A LYS* 3.8 21.3 - - + -
91A HIS* 2.9 45.9 + - + +
92A VAL 3.8 3.6 - - - +
94A ARG* 1.3 82.4 - - + +
96A ALA* 1.3 55.7 + - - +
98A GLU* 4.8 3.4 - - - -
99A GLY* 2.9 28.1 + - - -
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Residues in contact with ALA 96 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A SER* 5.3 0.9 - - - -
92A VAL* 2.8 21.4 + - + +
93A ALA* 3.6 7.4 - - - +
95A GLU* 1.3 74.1 - - - +
97A ASP* 1.3 59.0 + - - +
99A GLY* 5.0 0.4 - - - -
100A CYS* 2.9 38.2 + - - +
100B CYS* 3.5 31.7 - - + +
101B LYS* 4.7 3.4 - - + +
104B LEU* 5.6 1.8 - - + -
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Residues in contact with ASP 97 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93A ALA 3.0 26.9 + - - +
94A ARG* 3.6 8.1 - - - +
96A ALA* 1.3 74.3 - - - +
98A GLU* 1.3 60.2 + - - +
100A CYS* 3.2 2.8 + - - +
101A LYS* 3.0 38.8 + - + +
97B ASP* 3.0 38.4 - - + +
101B LYS* 3.2 25.4 - - - +
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Residues in contact with GLU 98 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94A ARG* 3.0 16.8 + - + +
95A GLU* 4.3 3.6 - - - +
97A ASP* 1.3 75.8 - - - +
99A GLY* 1.3 57.7 + - - +
101A LYS* 3.3 8.6 + - - +
102A LYS* 2.9 29.6 + - - +
105A GLU* 4.6 2.4 - - - +
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Residues in contact with GLY 99 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A SER* 5.1 6.5 - - - -
95A GLU 2.9 18.4 + - - -
96A ALA* 4.0 1.1 - - - -
98A GLU* 1.3 78.2 - - - +
100A CYS* 1.3 62.9 + - - +
102A LYS* 3.4 22.5 + - - +
103A PRO* 3.5 6.6 - - - +
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Residues in contact with CYS 100 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96A ALA* 2.9 23.7 + - - +
97A ASP 3.2 3.1 + - - +
99A GLY* 1.3 77.3 - - - +
101A LYS* 1.3 60.8 + - - +
102A LYS 3.4 0.2 - - - -
103A PRO* 3.5 12.2 - - - +
104A LEU* 4.6 5.9 - - - +
57B LEU* 5.8 1.2 - - - +
96B ALA* 3.6 31.7 - - + +
100B CYS* 2.0 45.5 - - - -
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Residues in contact with LYS 101 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A ASP* 3.0 26.2 + - + +
98A GLU* 3.3 6.7 + - - +
100A CYS* 1.3 76.2 - - - +
102A LYS* 1.3 66.3 + - - +
103A PRO* 3.4 1.6 - - - -
104A LEU* 2.9 24.9 + - + +
105A GLU* 3.0 28.1 + - + +
129A MET* 4.6 22.0 - - + +
93B ALA* 4.5 29.4 - - + +
96B ALA* 6.0 0.4 - - + -
97B ASP* 5.6 4.9 - - + +
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Residues in contact with LYS 102 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98A GLU 2.9 11.9 + - - +
99A GLY* 3.4 17.9 + - - +
101A LYS* 1.3 75.6 - - - +
103A PRO* 1.4 60.5 - - + +
105A GLU* 3.2 16.7 + - + +
106A ARG* 2.9 29.1 + - + +
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Residues in contact with PRO 103 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99A GLY 3.5 10.5 - - - +
100A CYS* 3.5 10.1 - - - +
101A LYS 3.4 4.3 - - - -
102A LYS* 1.4 94.6 - - + +
104A LEU* 1.3 54.9 + - - +
106A ARG* 3.7 9.7 - - + +
107A LEU* 3.0 29.8 + - - +
57B LEU* 3.7 25.0 - - + +
61B TYR* 3.6 25.1 + - - +
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Residues in contact with LEU 104 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A CYS 4.6 5.4 - - - +
101A LYS* 2.9 20.7 + - + +
103A PRO* 1.3 73.5 - - - +
105A GLU* 1.3 65.7 + - - +
107A LEU* 3.3 8.0 + - + +
108A LEU* 3.1 26.9 + - - +
129A MET* 3.7 30.1 - - - -
57B LEU* 3.7 17.0 - - + -
60B LEU* 3.2 33.7 - - + -
89B PHE* 3.9 11.3 - - + +
92B VAL* 3.9 10.5 - - + -
93B ALA* 3.7 31.9 - - + +
96B ALA* 5.6 0.7 - - + -
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Residues in contact with GLU 105 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98A GLU 4.6 2.4 - - - +
101A LYS* 3.0 25.8 + - + +
102A LYS* 3.6 24.0 + - - +
104A LEU* 1.3 75.5 - - - +
106A ARG* 1.3 63.3 + - - +
108A LEU* 3.2 8.5 + - - +
109A ASN* 3.0 32.4 + - - +
126A LYS* 6.4 1.6 - - + -
129A MET* 4.0 19.5 - - + +
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Residues in contact with ARG 106 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A LYS* 2.9 18.1 + - + +
103A PRO* 3.7 10.3 - - + +
104A LEU 3.2 0.2 - - - -
105A GLU* 1.3 75.1 - - - +
107A LEU* 1.3 58.7 + - - +
109A ASN* 3.1 12.0 + - + +
110A ILE* 2.9 44.2 + - + +
61B TYR* 5.7 1.2 + - - -
1623D SEP 2.7 45.7 + - - -
1624D PRO* 3.8 17.2 - - + +
1625D THR* 3.7 12.5 - - - +
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Residues in contact with LEU 107 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103A PRO 3.0 16.8 + - - +
104A LEU* 3.4 7.2 - - - +
106A ARG* 1.3 77.7 - - - +
108A LEU* 1.3 56.6 + - - +
110A ILE* 3.3 6.5 + - + +
111A TRP* 3.0 47.2 + - + +
57B LEU* 5.2 2.0 - - + -
60B LEU* 4.0 33.0 - - + +
61B TYR* 4.4 11.0 - - + -
64B ASN* 3.7 23.3 - - + +
89B PHE* 3.9 22.9 - - + -
1624D PRO* 3.6 31.6 - - + +
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Residues in contact with LEU 108 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104A LEU 3.1 12.0 + - - +
105A GLU* 3.2 8.9 + - - +
107A LEU* 1.3 76.0 - - - +
109A ASN* 1.3 59.1 + - - +
111A TRP* 3.3 11.8 + - + +
112A GLN* 2.9 28.6 + - - +
122A ILE* 4.0 18.1 - - + +
125A LEU* 3.5 33.2 - - + -
126A LYS* 3.7 29.8 - - + +
129A MET* 3.5 30.3 - - + -
89B PHE* 3.6 19.7 - - + -
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Residues in contact with ASN 109 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A GLU* 3.0 25.8 + - - +
106A ARG* 3.1 11.8 + - + +
108A LEU* 1.3 74.6 - - - +
110A ILE* 1.3 61.7 + - + +
112A GLN* 3.3 7.2 + - - +
113A GLU* 2.9 39.1 + - + +
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Residues in contact with ILE 110 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106A ARG* 2.9 33.5 + - + +
107A LEU* 3.6 8.1 - - + +
109A ASN* 1.3 74.3 - - + +
111A TRP* 1.3 68.2 + - + +
113A GLU* 3.3 16.6 + - - +
114A ARG* 2.9 51.5 + - - +
64B ASN* 4.8 0.7 - - - +
68B GLN* 3.9 16.8 - - - +
1624D PRO* 3.7 32.1 - - + +
1625D THR* 3.6 27.1 - - + -
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Residues in contact with TRP 111 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107A LEU* 3.0 35.2 + - + +
108A LEU* 3.6 8.1 - - + +
110A ILE* 1.3 81.6 - - + +
112A GLN* 1.3 58.8 + - - +
115A SER* 3.0 8.0 + - - -
116A VAL* 2.9 58.8 + - + +
117A TYR* 3.8 16.3 + + - +
122A ILE* 3.5 15.3 - - + -
125A LEU* 3.7 28.5 - - + -
60B LEU* 4.8 1.6 - - + -
63B ALA* 5.2 1.1 - - + -
64B ASN* 2.8 48.9 + - + +
67B ILE* 4.3 9.0 - - + -
68B GLN* 4.9 0.2 - - - +
85B LEU* 3.7 32.1 - - + -
89B PHE* 3.8 20.4 - + - -
----------------------------------------------------------
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Residues in contact with GLN 112 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108A LEU 2.9 17.4 + - - +
109A ASN* 3.6 7.9 - - - +
111A TRP* 1.3 74.5 - - - +
113A GLU* 1.3 65.5 + - - +
115A SER* 3.2 15.2 + - - -
117A TYR 4.9 2.5 - - - -
119A GLY* 5.8 5.8 - - - -
122A ILE* 4.1 23.9 - - + +
----------------------------------------------------------
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Residues in contact with GLU 113 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A ASN* 2.9 24.2 + - + +
110A ILE* 3.7 25.9 + - - +
112A GLN* 1.3 73.6 - - - +
114A ARG* 1.3 65.9 + - + +
115A SER* 3.6 2.8 + - - -
1625D THR* 5.7 1.7 - - - +
1630D SER 4.3 3.8 - - - +
----------------------------------------------------------
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Residues in contact with ARG 114 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A ILE* 2.9 30.1 + - + +
113A GLU* 1.3 84.0 + - + +
115A SER* 1.3 70.9 + - - +
116A VAL* 4.1 11.0 - - + -
68B GLN* 2.9 29.2 + - - +
1625D THR* 2.8 39.1 + - - +
1627D PRO 2.9 24.2 + - - -
1628D SER 5.5 0.2 - - - -
1629D TYR* 3.2 23.4 + - + -
1630D SER* 3.4 17.4 - - - +
1631D NH2 3.0 23.1 + - - +
1701D UNX 3.6 19.4 - - - -
----------------------------------------------------------
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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