1CFZ


Conserved Protein Domain Family
H2MP_MemB-H2up

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cd06062: H2MP_MemB-H2up 
Click on image for an interactive view with Cn3D
Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD from E. coli is well studied in this group. Maturation of [NiFe] hydrogenases include proteolytic processing of large subunit, assembly with other subunits, and formation of the nickel metallocenter. Hydrogenase maturation endopeptidase (HybD) cleaves a short C-terminal peptide after a His or an Arg residue in the large subunit (pre-HybC) of hydrogenase 2 (hyb operon) in E. coli. This cleavage is nickel dependent. A variety of endopeptidases belong to this group that are similar in function and sequence homology. They include such proteins as HynC, HoxM, and HupD.
Statistics
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PSSM-Id: 99873
View PSSM: cd06062
Aligned: 62 rows
Threshold Bit Score: 141.053
Threshold Setting Gi: 74317398
Created: 10-Dec-2007
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
nickel bindingputative
Conserved site includes 3 residues -Click on image for an interactive view with Cn3D
Feature 1:nickel binding site [ion binding site]
Evidence:
  • Structure:1CFZ_A; E. coli Hydrogenase Maturating Endopeptidase HybD bound to Cd; contact residues defined by 3.5 A.
    View structure with Cn3D
  • Comment:Cd-binding site in this structure is predicted to be the same as the actual Ni-binding site
  • Comment:Replacement of the homologous metal binding residues in HycI (hydrogenase 3 processing endopeptidase) by site-directed mutagenesis suggest a role in catalysis.

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                     #                                                #                 
1CFZ_A         3 ILVLGVGNILlTDEAIGVRIVEALEqry---ilPDYVEILDGGTaGMELLGDMANrDHLIIADAIvsk-knAPGTMMILR 78  Escherichia coli
YP_001490349   9 ILILGIGNILfQDEGIGAHFIHYLDekyefisqENSVSLVDGGTlAQRLIPEIIKyDEVLIIDCIdai-nsKAGDVFFFD 87  Arcobacter butz...
NP_907811      3 ILVLGIGNILfGDEGIGVHLSNLLKvnyr-fegPHQVDVIDGGTlAQLLIPLITSyDYVIVIDCVdag-ggKIGEVYFFD 80  Wolinella succi...
ZP_01871476    3 ILVLGIGNILfGDEGIGVHLVNFLEekye-fngPHKIDFVDGGTlAQRLIPIIVEyDKVFIFDTVdvd-daKIGDVYFFD 80  Caminibacter me...
NP_717699      3 ILLLGIGNVLyADEGIGVHFVNYITenyqftheSHQLEMLDGGTlAQGLIPIICQyDYLIVVDTVnan-gvDAGEVYFFD 81  Shewanella onei...
NP_223295      5 ILILGIGNILfGDEGIGVHLAHYLKrnf---sfFPSVDIVDGGTmAQQLIPLITSyEKVLILDCVsak-gvEIGSVYAFD 80  Helicobacter py...
ZP_02180128    4 IAIIGVGNILfKDEGIGVFIVKYLQeny---ifKPTIDLIDAGTlGFRLMEYLEDyDYIILVDTIsi--kdKPGSVFRLT 78  Hydrogenivirga ...
YP_001356433   3 TAIIGIGNILfMDEGIGVYASKYLEenf---vfDKDVEIVDGGTlGFKLMRYYQEyDKVIILDTVsi--edAPGSIYNLP 77  Nitratiruptor s...
YP_001490356   4 NIIVGVGNMLfKDEGIGIYASEYIRqny--efdDENLEIIDGGTlGFKLMAYFQEyDNVIILDTVsi--edTAGSIYRLP 79  Arcobacter butz...
YP_392300     13 IAIMGVGNILfTDEGIGIYATEFLKqny---qfSPTIDLIDGGTlGMNLIHYYQSyDHLLLLDTIsvgdanTPGEVYSLN 89  Thiomicrospira ...
Feature 1                      #                                                          
1CFZ_A        79 dEEVPALftnkiSPHQLGLADVLSALRFTGefpKKLTLVGVIPESLe--pHIGLTPTVEAMIEPALEQVLAAL 149 Escherichia coli
YP_001490349  88 fKKVPSNinwqgSAHEVEMLQTLNMIDMNKd-lPTTHILGVIPKRVaddtTFELSSEIIQASKTMQMVVVDYL 159 Arcobacter butzleri RM...
NP_907811     81 fDNVPNVitwqgSAHEVEMLQTLRMTEVNGd-lPPVKIVGVIPSIIgsetAFDLSKEVAEASVTMEKIVLNHL 152 Wolinella succinogenes...
ZP_01871476   81 fLDVPECvswqgSAHEVEMLQTLEMIHMMGd-lPETKIIGVVPYVIgedtTFSITKPVLEASKLMEKILLTEL 152 Caminibacter mediatlan...
NP_717699     82 fDKAPQEidwqgSAHEVEMLQTLNMMEMVGd-rPKTFVLGVTPTVLep-mTLGLTSKVASAVPLMERTLLSHL 152 Shewanella oneidensis ...
NP_223295     81 fKDAPKEitwagSAHEVEMLHTLRLTEFLGd-lPKTFIVGLVPFVIgsetTFKLSSEMLNALETALKAIETQL 152 Helicobacter pylori J99
ZP_02180128   79 aEDLAGIgsyhqTAHEVEVLQMLELTALKGk-rAETIIIGIVPENIctseIGLTKPLENEGFKTATYQVLKEL 150 Hydrogenivirga sp. 128...
YP_001356433  78 sEVLLGLgeyrkTAHEVEVVEMLEICSMLEs-iAQVNIIGIVPKDIes-vGIGLTDTMRESFASYIQTLLQEL 148 Nitratiruptor sp. SB155-2
YP_001490356  80 sEVLLGLgnyrkTAHEVEIVEMLEIVSVLDs-hANVTIMGIIPEDIis-vEIGLTKKMEEKFEEYILNIIKEI 150 Arcobacter butzleri RM...
YP_392300     90 sDVLQGMgqyrqTAHEVEVLQTLELGALAGe-iAQVQIIAMVPQDIet-vAFELTRPIRQNIGLFINSVIQQL 160 Thiomicrospira crunoge...

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