Udp-N-Acetylmuramate-L-Alanine Ligase

(All numbering and residues are taken from first PDB file)

Run Details Domains Sequence Morph Domain Pairs Contact Graph

DynDom run details

  Property   Value
  Name Udp-N-Acetylmuramate-L-Alanine Ligase
  Conformer 1
(PDB) 		1gqq (A)
  Conformer 2
(PDB) 		1p3d (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)		 Residues
1 169 1.13   117 - 321
2 94 0.55   20 - 116
3 148 0.79   322 - 471

Sequence


           ___________________________________________________________________________________________________113__________________ 
 1gqq(A) : ******VQQIHFIGIGGAGMSGIAEILLNEGYQISGSDIADGVVTQRLAQAGAKIYIGHAEEHIEGASVVVVSSAIKDDNPELVTSKQKRIPVIQRAQMLAEIMRFRHGIAVAGTHGKTT 
         :                                                                                                                          
 1p3d(A) : IIPErRVQQIHFIGIGGAG-sGIAEILLNEGYQISGSDIADGVVTQRLAQAGAKIYIGHAEEHIEGASVVVVSSAIKDDNPELVTSKQKRIPVIQRAQ-lAEI-rFRHGIAVAGTHGKTT 
           ___________________________________________________________________________________________________113__________________ 

           ________________________________________________________________________________________________________________________ 
 1gqq(A) : TTAMISMIYTQAKLDPTFV----------------sRYLIAEADE----fLHLQPMVSVVTNM--------EfEKMKATYVKFLHNLPFYGLAVMCADDPVLMELVPKVGRQVITYGFSE 
         :                                                                                                                          
 1p3d(A) : TTA-iS-iYTQAKLDPTFVNGGLVKSAGKNAHLGASRYLIAEADESDASFLHLQP-vSVVTNePDHdTYEGDFEK-kATYVKFLHNLPFYGLAV-cADDPVL-eLVPKVGRQVITYGFSE 
           ________________________________________________________________________________________________________________________ 

           _______________________________________________________________319______________________________________________________ 
 1gqq(A) : QADYRIEDYEQTGFQGHYTVICPNNERINVLLNVPGKHNALNATAALAVAKEEGIANEAILEALADFQGAGRRFDQLGEFIRPNGKVRLVDDYGHHPTEVGVTIKAAREGWGDKRIVMIF 
         :                                                                                                                          
 1p3d(A) : QADYRIEDYEQTGFQGHYTVICPNNERINVLLNVPGKHNALNATAALAVAKEEGIANEAILEALADFQGAGRRFDQLGEFIRPNGKVRLVDDYGHHPTEVGVTIKAAREGWGDKRIV-iF 
           _______________________________________________________________319______________________________________________________ 

           ______________________________________________________________________________________________________                   
 1gqq(A) : QPHRYSRTRDLFDDFVQVLSQVDALIMLDVYAAGEAPIVGADSKSLCRSIRNLGKVDPILVSDTSQLGDVLDQIIQDGDLILAQGAGSVSKISRGLAESWKN                   
         :                                                                                                                          
 1p3d(A) : QPHRYSRTRDLFDDFVQVLSQVDALI-lDVYAAGEAPIVGADSKSLCRSIRNLGKVDPILVSDTSQLGDVLDQIIQDGDLILAQGAGSVSKISRGLAESW**                   
           ______________________________________________________________________________________________________                   

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue ) 		1
Moving Domain
( red ) 		2
Rotation Angle
(deg) 		22.5
Translation
(A) 		2.1
Closure
(%) 		91.3
Bending Residues
( green ) 		  113 - 118
Bending Region Analysis
Property Value
Fixed Domain
( blue ) 		1
Moving Domain
( yellow ) 		3
Rotation Angle
(deg) 		43.8
Translation
(A) 		-0.3
Closure
(%) 		77.7
Bending Residues
( green ) 		  319 - 327
Bending Region Analysis

Dynamic Contact Graph

Conformer 1 Contact:
Residue 1 ———› Residue 2

Conformer 2 Contact:
Residue 2 ———› Residue 1

Movement classification: Hinge

Conformer 1 Contact:
Residue 1 ———› Residue 3

Conformer 2 Contact:
Residue 3 ———› Residue 1

Movement classification: Hinge

PyMOL Script

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