Contacts of the helix formed by residues 98 - 120 (chain A) in PDB entry 1ORZ
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 98 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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97A GLY* 1.4 70.8 - - - -
99A GLN* 1.3 58.5 + - - +
100A ASP* 2.7 23.0 - - - +
101A SER* 2.6 31.1 + - - -
102A ILE* 2.9 25.6 + - - +
378A THR 5.6 0.2 - - - +
409A VAL* 3.1 5.4 - - - +
410A SER* 2.5 44.0 + - - +
596A THR* 3.5 11.5 + - + +
598A ASP* 2.9 37.9 - - + +
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Residues in contact with GLN 99 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86A MET* 5.4 3.3 - - - +
90A VAL* 2.7 42.1 - - - +
95A TRP* 3.7 13.1 - - - +
97A GLY 4.3 5.4 + - - +
98A ASP* 1.3 71.2 - - - +
100A ASP* 1.3 62.2 + - - +
102A ILE* 3.8 2.9 - - - +
103A HIS* 2.8 33.1 + - - +
598A ASP 3.6 7.1 + - - +
599A GLU* 3.6 16.8 - - - +
600A LYS 3.7 4.0 - - - +
601A GLU* 2.8 34.8 - - + +
605A VAL* 2.9 32.0 + - + +
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Residues in contact with ASP 100 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98A ASP* 2.7 19.8 - - - +
99A GLN* 1.3 75.4 - - - +
101A SER* 1.3 69.1 + - - -
103A HIS* 3.4 6.2 + - - +
104A TYR* 3.0 22.7 + - - +
380A TRP* 5.5 9.7 + - - +
598A ASP* 2.6 34.9 + - - +
600A LYS 3.8 6.8 + - - +
601A GLU* 4.9 5.8 - - - +
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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
----------------------------------------------------------
98A ASP* 2.6 37.3 + - - -
100A ASP* 1.3 82.7 + - - +
102A ILE* 1.3 75.5 + - - +
104A TYR* 3.0 9.2 + - - +
105A MET 2.9 18.4 + - - -
380A TRP* 5.5 6.7 - - - -
409A VAL* 4.0 25.6 - - - -
410A SER 3.5 5.7 + - - -
411A VAL* 3.9 5.5 - - - -
428A PHE* 3.8 12.4 - - - -
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Residues in contact with ILE 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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86A MET* 4.2 14.6 - - + +
89A THR* 3.7 31.0 - - + +
90A VAL* 4.1 15.5 - - + -
93A SER* 4.9 0.7 - - - +
97A GLY 4.7 1.6 - - - -
98A ASP 2.9 24.6 + - - +
99A GLN* 3.8 6.3 - - - +
101A SER* 1.3 81.8 + - - +
103A HIS* 1.3 67.1 + - - +
105A MET* 3.0 8.3 + - + +
106A THR* 2.8 35.5 + - - +
411A VAL* 2.7 49.6 - - + +
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Residues in contact with HIS 103 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82A TRP* 3.7 21.0 - + - -
86A MET* 3.6 28.2 - - - -
99A GLN 2.8 20.1 + - - +
100A ASP* 3.6 6.1 - - - +
102A ILE* 1.3 80.2 - - - +
104A TYR* 1.3 66.1 + - - +
106A THR* 3.9 0.4 - - - -
107A ARG* 2.9 64.7 + - + +
601A GLU* 5.4 3.4 - - + -
602A CYS* 5.0 13.8 - - - +
603A PRO* 4.1 26.7 - - + +
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Residues in contact with TYR 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 ASP 3.0 12.8 + - - +
101A SER* 3.0 10.7 + - - +
103A HIS* 1.3 81.6 - - - +
105A MET* 1.3 65.5 + - - +
107A ARG* 4.2 1.7 - - - +
108A GLU* 3.0 62.6 + - + +
380A TRP* 4.2 34.1 - + + -
427A VAL* 3.3 29.6 + - + +
428A PHE* 4.1 12.8 - + - -
430A ARG* 5.7 3.3 + - - -
431A ALA* 3.6 29.2 - - + +
434A HIS* 6.1 0.2 - - - -
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Residues in contact with MET 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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85A HIS* 5.1 5.2 - - + -
89A THR* 6.3 1.1 - - + -
101A SER 2.9 8.4 + - - +
102A ILE* 3.7 9.0 - - + +
104A TYR* 1.3 84.4 - - - +
106A THR* 1.3 54.9 + - - +
108A GLU* 3.5 1.2 - - - +
109A ALA* 2.7 33.1 + - - +
411A VAL* 3.7 24.9 - - + -
420A ASN* 4.2 22.9 - - + +
423A LEU* 3.5 21.1 - - + +
424A ASP* 3.3 37.0 - - + +
427A VAL* 3.7 14.5 - - + +
428A PHE* 3.3 26.0 - - + -
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Residues in contact with THR 106 (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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73A ALA* 5.7 2.6 + - + +
82A TRP* 3.0 43.9 - - + +
85A HIS* 3.1 39.1 + - + +
86A MET* 4.2 7.7 + - - -
89A THR* 4.5 0.2 - - - +
102A ILE* 2.8 34.3 + - - +
103A HIS 4.0 2.7 - - - -
105A MET* 1.3 74.5 - - - +
107A ARG* 1.3 64.5 + - - +
109A ALA* 3.1 18.7 + - + +
110A PRO* 3.4 5.7 - - - +
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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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82A TRP* 3.5 57.5 - - + +
103A HIS* 2.9 47.0 + - + +
104A TYR* 4.2 2.5 - - - +
106A THR* 1.3 78.5 - - - +
108A GLU* 1.3 65.6 + - + +
109A ALA 3.1 0.7 + - - -
110A PRO* 3.6 9.5 - - - +
111A LYS* 4.9 6.5 + - - +
602A CYS* 6.2 1.0 - - - +
603A PRO* 5.9 0.8 - - - +
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Residues in contact with GLU 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 TYR* 3.0 64.3 + - + +
105A MET 3.7 2.5 - - - +
107A ARG* 1.3 78.9 - - + +
109A ALA* 1.3 65.8 + - - +
110A PRO 3.4 1.1 - - - -
111A LYS* 3.4 24.0 + - - +
112A SER* 3.3 20.4 + - - +
427A VAL* 3.9 15.1 - - + +
430A ARG* 3.1 27.2 + - - -
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Residues in contact with ALA 109 (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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72A ALA* 3.9 10.3 - - + -
73A ALA 5.0 0.7 - - - +
85A HIS* 5.5 0.2 - - - +
105A MET 2.7 8.5 + - - +
106A THR* 3.1 13.6 + - + +
108A GLU* 1.3 75.8 - - - +
110A PRO* 1.3 74.6 - - + +
112A SER* 3.2 4.2 + - - -
113A ILE* 3.1 22.5 + - - +
423A LEU* 3.3 42.1 - - + +
427A VAL* 4.4 3.4 - - - -
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Residues in contact with PRO 110 (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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72A ALA* 4.9 0.2 - - + -
73A ALA* 3.0 37.2 - - + +
74A LEU* 4.2 10.8 - - + -
82A TRP* 5.8 6.5 - - + -
106A THR 3.4 9.2 - - - +
107A ARG 3.6 9.0 - - - +
109A ALA* 1.3 99.3 - - + +
111A LYS* 1.3 62.3 + - - +
113A ILE* 3.0 25.8 - - + +
114A ILE* 3.0 17.7 + - + +
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Residues in contact with LYS 111 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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107A ARG* 4.9 5.4 + - - +
108A GLU* 3.4 33.9 + - - +
109A ALA 3.3 0.4 - - - -
110A PRO* 1.3 78.0 - - - +
112A SER* 1.3 62.7 + - - +
114A ILE* 3.5 11.5 + - - +
115A GLU* 3.2 23.9 + - - +
430A ARG* 4.2 23.8 - - - +
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Residues in contact with SER 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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38A ARG* 6.1 0.4 - - - -
108A GLU* 3.3 10.0 + - - -
109A ALA 3.2 7.8 + - - -
110A PRO 3.2 0.4 - - - -
111A LYS* 1.3 79.6 - - - +
113A ILE* 1.3 60.1 + - - +
115A GLU* 3.1 19.7 - - - +
116A LEU* 3.0 25.7 - - - +
423A LEU* 5.3 0.2 - - - -
426A VAL* 4.4 13.2 - - - -
427A VAL* 4.0 24.0 - - - +
430A ARG* 3.2 28.4 + - - +
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Residues in contact with ILE 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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70A ILE* 3.4 40.8 - - + -
72A ALA* 4.7 6.7 - - + -
74A LEU* 3.4 30.7 - - + -
109A ALA 3.1 8.4 + - - +
110A PRO* 3.0 19.3 - - + +
112A SER* 1.3 73.4 - - - +
114A ILE* 1.3 72.8 + - + +
115A GLU 3.0 2.0 - - - -
116A LEU* 2.8 25.1 + - + +
117A GLU* 3.2 8.8 + - - +
123A PHE* 3.8 21.6 - - + -
153A CYS* 4.0 13.5 - - - -
423A LEU* 5.3 4.3 - - + -
426A VAL* 5.6 5.4 - - + -
142B GLU* 5.5 1.1 - - - +
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Residues in contact with ILE 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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74A LEU* 5.1 3.6 - - + -
110A PRO* 3.0 24.8 + - + +
111A LYS* 3.8 9.0 - - + +
113A ILE* 1.3 86.4 - - + +
115A GLU* 1.3 56.3 + - - +
117A GLU* 2.8 25.3 + - + +
118A HIS* 2.8 32.7 + - + +
140B GLY 5.0 2.5 - - - +
141B THR* 2.7 42.6 - - - +
142B GLU* 4.2 18.2 - - + +
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Residues in contact with GLU 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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38A ARG* 3.0 36.6 + - - -
111A LYS* 3.2 10.4 + - - +
112A SER* 3.1 25.0 - - - +
114A ILE* 1.3 79.6 - - - +
116A LEU* 1.3 53.0 + - - +
118A HIS* 3.1 26.0 + - - +
119A TYR* 2.7 48.9 + - + +
430A ARG* 4.1 17.2 + - - -
434A HIS* 5.3 0.7 + - - -
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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
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38A ARG* 4.8 5.6 - - - +
112A SER 3.0 24.5 - - - +
113A ILE* 2.8 16.1 + - + +
115A GLU* 1.3 82.7 - - + +
117A GLU* 1.3 57.2 + - - +
119A TYR* 2.8 45.7 + - + +
120A GLY 3.1 3.5 + - - -
121A VAL* 3.1 25.8 - - + +
123A PHE* 4.5 7.4 - - + -
163A LEU* 3.7 26.7 - - + -
166A THR* 5.1 0.7 - - + -
167A LEU* 3.4 33.2 - - + -
426A VAL* 4.3 18.4 - - + -
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Residues in contact with GLU 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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113A ILE 3.2 2.4 + - - -
114A ILE* 2.8 20.7 + - + +
116A LEU* 1.3 74.6 - - - +
118A HIS* 1.3 60.7 + - + +
120A GLY* 2.7 23.2 + - - -
121A VAL 4.1 3.8 - - - +
123A PHE* 3.5 24.4 - - + -
125A ARG* 2.7 36.8 + - - +
133B ARG* 4.5 0.3 + - - -
142B GLU* 4.5 10.1 - - + +
143B VAL* 2.8 40.7 + - - +
196B ARG* 2.7 25.8 + - - -
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Residues in contact with HIS 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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114A ILE* 2.8 52.1 + - + +
115A GLU* 3.1 15.6 + - + +
117A GLU* 1.3 83.1 - - - +
119A TYR* 1.3 64.1 + - + +
120A GLY 3.2 0.7 + - - -
131B LEU* 3.4 18.0 - - - +
133B ARG* 3.8 21.8 + - - +
138B LYS* 3.9 34.9 - - + +
139B ASP* 6.2 0.8 - - - +
140B GLY 4.8 3.7 + - - -
141B THR 3.6 7.2 + - - -
142B GLU* 4.8 2.3 - - - -
143B VAL* 5.1 2.2 - - + -
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Residues in contact with TYR 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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38A ARG* 4.7 3.5 + - - -
41A PHE* 3.5 27.9 - + - -
115A GLU* 2.7 55.9 + - + +
116A LEU* 2.8 32.9 + - + +
118A HIS* 1.3 81.3 - - + +
120A GLY* 1.3 56.3 + - - +
166A THR* 3.6 14.9 - - + +
167A LEU* 5.3 0.7 - - + -
170A GLN* 2.9 46.1 + - + +
173A ARG* 5.4 11.2 - - - -
174A HIS* 5.6 0.2 - + - -
130B TYR* 5.7 1.0 - - - +
131B LEU* 3.5 18.6 + - - +
191B TRP* 4.8 2.3 - - - -
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Residues in contact with GLY 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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117A GLU 2.7 11.6 + - - -
118A HIS 3.1 0.6 - - - -
119A TYR* 1.3 81.4 - - - +
121A VAL* 1.3 66.3 + - - +
122A PRO* 3.2 7.6 - - - +
166A THR* 4.2 5.5 + - - +
131B LEU* 4.0 19.1 - - - -
190B ARG* 4.0 10.6 + - - -
191B TRP* 4.6 6.1 - - - -
196B ARG* 3.0 18.1 + - - -
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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
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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