DynDom - Protein Domain Motions

Complement Factor B

(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	Complement Factor B
Conformer 1 (PDB)	2ok5 (A)
Conformer 2 (PDB)	3hrz (D)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	301	1.17	77 - 252 271 - 306 311 - 311 313 - 314 316 - 316 320 - 429
2	64	0.5	13 - 76
3	310	1.21	260 - 270 307 - 310 312 - 312 315 - 315 317 - 319 430 - 738

Sequence

`__________________________________________________________________76____________________________________________________` `2ok5(A) : QGSCSLEGVEIKGGSFRLLQEGQALEYVCPSGFYPYPVQTRTCRSTGSWSTLKTQDQKTVRKAECRAIHCPRPHDFENGEYWPRSPYYNVSDEISFHCYDGYTLRGSANRTCQVNGRWSG` `:` `3hrz(D) : SCSLEGVEIKGGSFRLLQEGQALEYVCPSGFYPYPVQTRTCRSTGSWSTLKTQDQKTVRKAECRAIHCPRPHDFENGEYWPRSPYYNVSDEISFHCYDGYTLRGSANRTCQVNGRWSG` `__________________________________________________________________76____________________________________________________` `__________________________________________________________________________________________________________252___________` `2ok5(A) : QTAICDNGAGYCSNPGIPIGTRKVGSQYRLEDSVTYHCSRGLTLRGSQRRTCQEGGSWSGTEPSCQDSFMYDTPQEVAEAFLSSLTETIkRKIVLDPSGSMNIYLVLDGSDSIGASNFTG` `:` `3hrz(D) : QTAICDNGAGYCSNPGIPIGTRKVGSQYRLEDSVTYHCSRGLTLRGSQRRTCQEGGSWSGTEPSCQDSFMYDTPQEVAEAFLSSLTET-kRKIVLDPSGSMNIYLVLDGSGSIGASDFTG` `__________________________________________________________________________________________________________252___________` `____270_________________________________306_310_________________________________________________________________________` `2ok5(A) : AKKCLVNLIEKVASYGVKPRYGLVTYATYPKIWVKVSEADSSNADWVTKQLNEINYE------gTNTKKALQAVYSMMSW-vPPEGWNRTRHVIILMTDGLHNMGGDPITVIDEIRDLLY` `:` `3hrz(D) : AKKCLVNLIEKVASYGVKPRYGLVTYATYPKIWVKVSEADSSNADWVTKQLNEINYEDHKLKSGTNTKKALQAVYSMMSWPvPPEGWNRTRHVIILMTDGLHNMGGDPITVIDEIRDLLY` `____270_________________________________306_310_________________________________________________________________________` `_________________________________________429____________________________________________________________________________` `2ok5(A) : IGKDRKNPREDYLDVYVFGVGPLVNQVNINALASKKDNEQHVFKVKDMENLEDVFYQMIDESQSLSLCGMVWEHRKGTDYHKQPWQAKISVIRPSKGHESCMGAVVSEYFVLTAAHCFTV` `:` `3hrz(D) : IGKDRKNPREDYLDVYVFGVGPLVNQVNINALASKKDNEQHVFKVKDMENLEDVFYQMIDESQSLSLCGMVWEH---tDYHKQPWQAKISVIRPs-----CMGAVVSEYFVLTAAHCFT-` `_________________________________________429____________________________________________________________________________` `________________________________________________________________________________________________________________________` `2ok5(A) :` `DDKEHSIKVSVGGEKRDLEIEVVLFHPNYNINGKKEAGIPEFYDYDVALIKLKNKLKYGQTIRPICLPCTEGTTRALRLPPTTTCQQQKEELLPAQDIKALFVSEEEKKLTRKEVYIKNG` `:` `3hrz(D) :` `----hSIKVSVGGEKRDLEIEVVLFHPNYNINGKKEAGIPEFYDYDVALIKLKNKLKYGQTIRPICLPCTEGTTRALRLPPTTTCQQQKEELLPAQDIKALFVSEEEKKLTRKEVYIKNG` `________________________________________________________________________________________________________________________` `_____________________________________________________________________________________________________________________` `2ok5(A) : DKKGSCERDAQYAPGYDKVKDISEVVTPRFLCTGGVSPYADPNTCRGDSGGPLIVHKRSRFIQVGVISWGVVDVCKNQKRQKQVPAHARDFHINLFQVLPWLKEKLQDEDLGFLAAA` `:` `3hrz(D) : DKKGSCERDAQYAPGYDKVKDISEVVTPRFLCTGGVSPYADPNTCRGDSGGPLIVHKRSRFIQVGVISWGVVDVC------kQVPAHARDFHINLFQVLPWLKEKLQDEDLGFLA` `_____________________________________________________________________________________________________________________`

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)	26.6
Translation (A)	-1.8
Closure (%)	75.7
Bending Residues ( green )	76 - 77
Bending Region Analysis

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( yellow )	3
Rotation Angle (deg)	11.7
Translation (A)	-0.4
Closure (%)	20.9
Bending Residues ( green )	252 - 262 270 - 271 306 - 307 310 - 320 429 - 430
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: Shear

PyMOL Script

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