INPUT Reading model from /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/5ooc_3836/12_2022/5ooc_3836.pdb Reading option "hydrogens=False" from command line Writing effective parameters to 5ooc_3836.eff Ligand restraint generation using eLBOW, phenix.elbow Attempting to download Chemical Components file for 9ZK Running eLBOW on 9ZK.cif Processing a loop 9ZK O47 C36 double 1.322 0.020 1.322 9ZK C40 C41 aromatic 1.329 0.020 1.329 9ZK C40 C39 aromatic 1.522 0.020 1.522 9ZK O05 C04 double 1.516 0.020 1.516 9ZK C38 C46 single 1.941 0.020 1.941 9ZK C38 C39 single 1.585 0.020 1.585 9ZK C38 N37 single 1.456 0.020 1.456 9ZK N21 C20 single 1.551 0.020 1.551 9ZK C02 C01 single 1.803 0.020 1.803 9ZK C02 O03 single 1.171 0.020 1.171 9ZK C02 C06 single 1.356 0.020 1.356 9ZK C46 C04 single 1.479 0.020 1.479 9ZK C04 O03 single 1.170 0.020 1.170 9ZK C26 C25 single 1.441 0.020 1.441 9ZK C26 C27 single 1.317 0.020 1.317 9ZK C41 C42 aromatic 1.453 0.020 1.453 9ZK C24 N23 single 1.650 0.020 1.650 9ZK C17 C16 single 1.619 0.020 1.619 9ZK C17 C18 single 1.572 0.020 1.572 9ZK C16 C22 single 1.387 0.020 1.387 9ZK C16 N15 single 1.337 0.020 1.337 9ZK C36 N37 single 1.195 0.020 1.195 9ZK C36 C25 single 1.517 0.020 1.517 9ZK C39 C45 aromatic 1.298 0.020 1.298 9ZK C10 C09 single 1.388 0.020 1.388 9ZK N23 C22 single 1.900 0.020 1.900 9ZK N23 C25 single 1.385 0.020 1.385 9ZK C22 O48 double 1.224 0.020 1.224 9ZK C07 C06 single 1.105 0.020 1.105 9ZK C07 C08 single 1.075 0.020 1.075 9ZK C28 C27 aromatic 1.594 0.020 1.594 9ZK C28 N29 aromatic 1.342 0.020 1.342 9ZK C20 C19 single 1.592 0.020 1.592 9ZK C27 C31 aromatic 1.446 0.020 1.446 9ZK N15 C14 single 1.649 0.020 1.649 9ZK C42 O43 single 1.746 0.020 1.746 9ZK C42 C44 aromatic 1.374 0.020 1.374 9ZK C45 C44 aromatic 1.484 0.020 1.484 9ZK C18 C19 single 1.681 0.020 1.681 9ZK N29 C30 aromatic 1.584 0.020 1.584 9ZK C09 C08 double 0.746 0.020 0.746 9ZK C09 C11 single 3.208 0.020 3.208 1.527126 Sorry: Bond length too long : 3.21