Ubuntu – clear command – terminals database is inaccessible

I am using Ubuntu 16.04 while using clear in terminal, it produces error
terminals database is inaccessible

But when I use sudo clear it works as intended. I have removed some files in /var/www/ and this problem started. I checked this question "clear" command in GNOME terminal returns "terminals database is inaccessible" but that did not help in any way

Edit: Output of strace -etrace=open clear

open("/home/user/anaconda3/bin/../lib/tls/x86_64/libncursesw.so.5", O_RDONLY|O_CLOEXEC) = -1 ENOENT (No such file or directory)

open("/home/user/anaconda3/bin/../lib/tls/libncursesw.so.5", O_RDONLY|O_CLOEXEC) = -1 ENOENT (No such file or directory)

open("/home/user/anaconda3/bin/../lib/x86_64/libncursesw.so.5", O_RDONLY|O_CLOEXEC) = -1 ENOENT (No such file or directory)

open("/home/user/anaconda3/bin/../lib/libncursesw.so.5", O_RDONLY|O_CLOEXEC) = 3

open("/home/user/anaconda3/bin/../lib/libc.so.6", O_RDONLY|O_CLOEXEC) = -1 ENOENT (No such file or directory)

open("/etc/ld.so.cache", O_RDONLY|O_CLOEXEC) = 3
open("/lib/x86_64-linux-gnu/libc.so.6", O_RDONLY|O_CLOEXEC) = 3

terminals database is inaccessible

+++ exited with 1 +++