DynDom - Protein Domain Motions

Penicillin-Binding Protein 2

(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	Penicillin-Binding Protein 2
Conformer 1 (PDB)	2olu (A)
Conformer 2 (PDB)	2olv (B)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	410	0.56	70 - 91 293 - 690
2	182	2.88	92 - 292

Sequence

`______________________90________________________________________________________________________________________________` `2olu(A) : *KLQDPIPAKIYDKNGELVKTLDNGQRHEHVNLKDVPKSkDAVLATEDNRFYEHGALDY-----gFGSEGASTLTQQVVKDAFLs----IGRKAQEAYLSYRLEQEYSKDDIFQVYLNKI` `:` `2olv(B) : AKLQDPIPAKIYDKNGELVKTLDNGQRHEHVNLKDVPKSkDAVLATEDNRFYEHGALDYKRLFGAIGKNgASTLTQQVVKDAFLSQHKSIGRKAQEAYLSYRLEQEYSKDDIFQVYLNKI` `______________________90________________________________________________________________________________________________` `_____________________________________________________________________________________________292________________________` `2olu(A) : YYSDGVTGIKAAAKYYFNKDLKDLNLAEEAYLAGLPQVPNNYNIYDHPKAAEDRKNTVLYLhYHKRITDKQWEDAKKIDLKANLVNRTPEERQNIDTNQDSEYNSYVNFVKSELnNKAFK` `:` `2olv(B) : YYSDGVTGIKAAAKYYFNKDLKDLNLAEEAYLAGLPQVPNNYNIYDHPKAAEDRKNTVLYLhYHKRITDKQWEDAKKIDLKANLVNRTPEERQNIDTNQDSEYNSYVNFVKSELnNKAFK` `_____________________________________________________________________________________________292________________________` `________________________________________________________________________________________________________________________` `2olu(A) : DENLGNVLQSGIKIYTNdKDVQKTLQNDVDNGSFYKNKDQQVGATILDSKTGGLVAISGGRDFKDVVNRNQATDPHPTGSSLKPFLAYGPAIENkWATNHAIQDESSYQVDGSTFRNYDT` `:` `2olv(B) : DENLGNVLQSGIKIYTNdKDVQKTLQNDVDNGSFYKNKDQQVGATILDSKTGGLVAISGGRDFKDVVNRNQATDPHPTGSSLKPFLAYGPAIENkWATNHAIQDESSYQVDGSTFRNYDT` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `2olu(A) : KSHGTVSIYDALRQSFNIPALKAWQSVKQNAGNDAPKKFAAKLGLNYEGDIGPSEVLGGSASEFSPTQLASAFAAIANGGTYNNAHSIQKVVTRDGETIEYDHTSHKAsDYTAYlAElKG` `:` `2olv(B) : KSHGTVSIYDALRQSFNIPALKAWQSVKQNAGNDAPKKFAAKLGLNYEGDIGPSEVLGGSASEFSPTQLASAFAAIANGGTYNNAHSIQKVVTRDGETIEYDHTSHKAsDYTAYlAElKG` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `2olu(A) : TFKPYGSAYGHGVSGVNgAKTGTGTYGAETYSQYNLPDNAAKDVWINGFTPQYTsVWgFSKVKQYGENSFVGHSQQEYPQFLYENVsKISSRDGEDFKRPSSVSGSIPSINVSGSQDNNT` `:` `2olv(B) : TFKPYGSAYGHGVSGVNgAKTGTGTYGAETYSQYNLPDNAAKDVWINGFTPQYTsVWgFSKVKQYGENSFVGHSQQEYPQFLYENVsKISSRDGEDFKRPSSVSGSIPSINVSGSQDNNT` `________________________________________________________________________________________________________________________` `______` `2olu(A) : TNRSTH` `:` `2olv(B) : TNRSTH` `______`

Morph

This morph was created using the MorphIt_Pro protein morphing technique.
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Domain Pairs

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( red )	2
Rotation Angle (deg)	31.6
Translation (A)	-0.7
Closure (%)	75.8
Bending Residues ( green )	90 - 92 292 - 293
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Hinge

PyMOL Script

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