VTR

33 main matches found (46 matches in total )

Execution time: 45.0 seconds

Match RMSD = 0.65

VTR = 0.03

Average AVD = 0.57 Å

Parameters

Chains(7ND5.pdb ): B versus L

Chains(7ND5_uk_mut.pdb ) B versus L

Cutoff: 2 Å

Detection of structural contacts in α-helices OFF

Contacts found Number of residues Hydrophobic Attractive Hydrogen Bonds Disulphide Bonds Repulsive Aromatic Stacking Total
A7ND5 3406 13 10 24 0 2 1 50
B7ND5_uk_mut 3405 20 10 31 0 2 1 64

Matches

(Conservatives hydrophobic matches are hidden by default)

Chains Residues Contact types
A B A1 A2 B1 B2 A [1-2] B [1-2] AVD Contact
B-L B-L R403 D92 R403 D92 Hydrogen Bonds Hydrogen Bonds 0.33 View
B-L B-L G496 S30 G496 S30 Hydrogen Bonds Hydrogen Bonds 0.59 View
B-L B-L Y505 D92 Y505 D92 Hydrogen Bonds Hydrogen Bonds 0.57 View
B-L B-L Q498 S30 Q498 S30 Hydrogen Bonds Hydrogen Bonds 0.59 View
B-L B-L R408 Y94 R408 Y94 Hydrogen Bonds Hydrogen Bonds 0.54 View
B-L B-L Y505 I2 Y505 I2 Hydrophobic Hydrophobic 0.73 View
B-L B-L G502 G28 G502 G28 Hydrogen Bonds Hydrogen Bonds 1.02 View
B-L B-L R403 D92 R403 D92 Attractive Attractive 0.48 View
B-L B-L Y505 Y32 Y505 Y32 Hydrophobic Hydrophobic 0.54 View
B-L B-L E406 D92 E406 D92 Repulsive Repulsive 0.57 View
B-L B-L Y505 Y32 Y505 Y32 Hydrophobic Hydrophobic 0.56 View
B-L B-L T500 G28 T500 G28 Hydrogen Bonds Hydrogen Bonds 0.48 View
B-L B-L R408 Y94 R408 Y94 Hydrogen Bonds Hydrogen Bonds 0.29 View
B-L B-L Y495 Y32 Y495 Y32 Hydrogen Bonds Hydrogen Bonds 0.38 View
B-L B-L Q498 G68 Q498 G68 Hydrogen Bonds Hydrogen Bonds 0.31 View
B-L B-L K417 D92 K417 D92 Attractive Hydrogen Bonds Attractive Hydrogen Bonds 0.77 View
B-L B-L N501 S30 Q498 S30 Hydrogen Bonds Hydrogen Bonds 1.84 View
B-L B-L Y505 Q90 Y505 Q90 Hydrogen Bonds Hydrogen Bonds 0.61 View
B-L B-L Q498 S30 Q498 S30 Hydrogen Bonds Hydrogen Bonds 0.66 View
B-L B-L R403 D92 R403 D92 Attractive Hydrogen Bonds Attractive Hydrogen Bonds 0.4 View
B-L B-L R403 D92 R403 D92 Attractive Attractive 0.4 View
B-L B-L Y505 Y32 Y505 Y32 Hydrophobic Hydrophobic 0.6 View
B-L B-L R403 D92 R403 D92 Attractive Attractive 0.37 View
B-L B-L Y505 Y32 Y505 Y32 Hydrophobic Hydrophobic 0.55 View
B-L B-L Y505 I29 Y505 I29 Hydrophobic Hydrophobic 0.66 View
B-L B-L Y453 Y32 Y453 Y32 Hydrogen Bonds Hydrogen Bonds 0.37 View
B-L B-L Y505 Y32 Y505 Y32 Hydrophobic Hydrophobic 0.49 View
B-L B-L Y505 Y32 Y505 Y32 Hydrophobic Hydrophobic 0.5 View
B-L B-L K417 D92 K417 D92 Attractive Hydrogen Bonds Attractive Hydrogen Bonds 0.77 View
B-L B-L Y505 Y32 Y505 Y32 Hydrophobic Hydrophobic 0.66 View
B-L B-L Q498 S67 Q498 S67 Hydrogen Bonds Hydrogen Bonds 0.36 View
B-L B-L Q498 S67 Q498 S67 Hydrogen Bonds Hydrogen Bonds 0.52 View
B-L B-L Y505 I2 Y505 I2 Hydrophobic Hydrophobic 0.67 View
B-L B-L D405 Y94 D405 Y94 Hydrophobic Hydrophobic 0.21 View
B-L B-L Y505 L91 Y505 L91 Hydrogen Bonds Hydrogen Bonds 0.51 View
B-L B-L R403 D92 R403 D92 Attractive Attractive 0.4 View
B-L B-L Y505 S93 Y505 S93 Hydrogen Bonds Hydrogen Bonds 0.54 View
B-L B-L Y505 Y32 Y505 Y32 Aromatic Stacking Aromatic Stacking 0.5 View
B-L B-L E406 D92 E406 D92 Repulsive Repulsive 0.57 View
B-L B-L R403 D92 R403 D92 Attractive Attractive Hydrogen Bonds 0.4 View
B-L B-L N501 S30 T500 S30 Hydrogen Bonds Hydrogen Bonds 1.89 View
B-L B-L R403 D92 R403 D92 Attractive Attractive 0.37 View
B-L B-L D405 Y94 D405 Y94 Hydrophobic Hydrophobic 0.2 View
B-L B-L R403 D92 R403 D92 Attractive Attractive 0.48 View
B-L B-L R403 D92 R403 D92 Hydrogen Bonds Hydrogen Bonds 0.25 View
B-L B-L Y505 Y32 Y505 Y32 Hydrophobic Hydrophobic 0.51 View

Colorscheme: Purple/Yellow | Cyan/Green

Contacts: 7ND5 | 7ND5_uk_mut | All matches | Unmatched
Download Pymol files

Unmatched Contacts

Protein Chains Residue1 Residue2 Contact types Distance Contact
7ND5 B-L N501 S30 Hydrogen Bonds 3.33 View
7ND5_uk_mut B-L S494 Y32 Hydrogen Bonds 3.55 View
7ND5_uk_mut B-L T500 G28 Hydrogen Bonds 3.77 View
7ND5_uk_mut B-L Y501 I2 Hydrophobic 4.15 View
7ND5_uk_mut B-L Y501 I2 Hydrophobic 3.24 View
7ND5_uk_mut B-L Y501 Q27 Hydrophobic 3.94 View
7ND5_uk_mut B-L Y501 Q27 Hydrophobic 4.37 View
7ND5_uk_mut B-L Y501 Q27 Hydrophobic 3.28 View
7ND5_uk_mut B-L Y501 Q27 Hydrogen Bonds 3.29 View
7ND5_uk_mut B-L Y501 Q27 Hydrogen Bonds 2.87 View
7ND5_uk_mut B-L Y501 G28 Hydrogen Bonds 3.26 View
7ND5_uk_mut B-L Y501 I29 Hydrophobic 4.49 View
7ND5_uk_mut B-L Y501 I29 Hydrophobic 4.23 View
7ND5_uk_mut B-L G502 Q27 Hydrogen Bonds 3.09 View
7ND5_uk_mut B-L V503 Q27 Hydrogen Bonds 3.67 View

Contact Maps

AVD Frequency

Detailed Graphs

Residue Match Frequency View
GLU
ALA
TYR
THR
LEU
SER
PHE
GLY
MET
PRO
LYS
VAL
HIS
ILE
CYS
ARG
GLN
ASP
ASN
TRP

Graph