Psyllid ID: psy11733

Local Sequence Feature Prediction

Prediction and (Method)	Result

Residue Number Marker

Protein Sequence

Secondary Structure (PSIPRED)

Secondary Structure Prediction (SSPRO)

Coil and Loop (DISEMBL)

Flexible Loop (DISEMBL)

Low Complexity Region (SEG)

Disordered region (IsUnstruct)

Disordered Region (DISOPRED)

Disordered Region (DISEMBL)

Disordered Region (DISPRO)

Transmembrane Helix (TMHMM)

Transmembrane Helix (HMMTOP)

Transmembrane Helix (MEMSAT)

TM Helix, Signal Peptide (MEMSAT_SVM)

TM Helix, Signal Peptide (Phobius)

Signal Peptide (SignalP HMM Mode)

Signal Peptide (SignalP NN Mode)

Coiled Coils (COILS)

Positional Conservation

--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------710-------720-------730-------740-------750-------760-------770-------780-------790-------800-------810-------820-------830-------840-------850-------860-------870-------880-------890-------900-------910-------920-------930-------940-------950-------960-------970-

MTLILDGQIQARIDSHNKILYAKQQDQRSTTFEKSLNVGKEYARKSNMLILRSAMIKHNICVKISIQYVMQTYNVNLYIQLHRKLSESLSSLKELFLVMFYLELYYFPHPIMENQLNFSFYLNSTGALPDVASSGNMGPQDIPTLDPLLIETKNKKAAMKLEKLDNDLKNYKSNSIKESIRRGHDDLGDHYLDCGDLSNALKCYSRARDYCTNGKHVVDMCLNVIRVSVYLQNWSHVLSYVNKAEATPDFAEGKDNNQAVFTKLKVAAGLAELATRKYKTAARFFLQAHFDYCDFPELLSPNNIATYGGLCALATFDRSELEKQVIFSSGFKLFLELEPQLRDILVQFYNSKYATCLNLLAQIMDNLLLDMYIAPHVNTLYTQIRNRALIQYFSPYLSADLNKMSVAFNTTIQALENELMTLILDGQIQARIDSHNKILYAKQQDQRSTTFEKSLNVGKEYARKSNMLILRSAMIKHNICVKDNLLLDMYIAPHVNTLYTQIRNRALIQYFSPYLSADLNKMSVAFNTTIQTHTRTNDFKVAAGLAELATRKYKTAARFFLQAHFDYCDFPELLSPNNIATYGGLCALATFDRSELEKQDLESYANSYTGLARLFRLIYVADHCPALRHEALRMAIQYVMQTYNVNLYIQLHRKLSESLSSLKELFLVMFYLELYYFPHPIMENQLNFSFYLNSTGALPDVASSGNMGPQDIPTLDPLLIETKNKKAAMKLEKLDNDLKNYKSNSIKESIRRGHDDLGDHYLDCGDLSNALKCYSRARDYCTNGKHVVDMCLNVIRVSVYLQNWSHVLSYVNKAEATPDFAEVIFSSGFKLFLELEPQLRDILVQFYNSKYATCLNLLAQIMALENELMTLILDGQIQARIDSHNKILYAKQQDQRSTTFEKSLNVGKEYARKSNMLILRSAMQVDVHMEDNDNNEQEMIIVENASLSPTISRSDENGRGSEMSVATGSEL

ccccccccccEEEcccccEEEEccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHcHHHHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHccccHHHHHHHHHccccccccccccHHHHHHHHHHHHccHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHcccccEEEHHHHHHHccccHHHHHHHHHHHHHcccccEEEEccccEEEEEccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHHHHHcccHHHHHcHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccHHHHHcccccccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHccccHHHHHHHHHHHHHHcccccHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccHHHHHccccccccccccccccccccEEEEcccccc

ccEEEcccEEEEEccccHEEEEccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHcccccHHHHHHHccccccccccccccHHHcHHHHcHHHcccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHEEEEEEEEEEEEEcccHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHcccHHHHHHHHHHHHHHHccHHHHHHHHcccHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHcccHHHHHHHHHHHHHcccEEEEEEccccEEEEccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHcHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccHHHHEHHHHHHHHHHccccccccccHHHHHHHcccHHHHHHHHHHHHcccHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHccccccccccccccHHcccccccccccccccHHHccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHEHHccHHHHHHHHHHHHccccHHHHHccHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccEEEEEccccHEEEEccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccEEEEEccccc

MTLILDGQIQARIDSHNKILYakqqdqrstTFEKSLNVGKEYARKSNMLILRSAMIKHNICVKISIQYVMQTYNVNLYIQLHRKLSESLSSLKELFLVMFYLElyyfphpimenqlnFSFYLnstgalpdvassgnmgpqdiptldplLIETKNKKAAMKLEKLDNDLKNYKSNSIKESIRRGHddlgdhyldcgdlsnalKCYSRArdyctngkHVVDMCLNVIRVSVYLQNWSHVLSYVNkaeatpdfaegkdnnQAVFTKLKVAAGLAELATRKYKTAARFFLQAHfdycdfpellspnniatygglcalatfdrselEKQVIFSSGFKLFLELEPQLRDILVQFYNSKYATCLNLLAQIMDNLLLDmyiaphvnTLYTQIRNRALIQYFSPYLSADLNKMSVAFNTTIQALENELMTLILDGQIQARIDSHNKILYakqqdqrstTFEKSLNVGKEYARKSNMLILRSAMIKHNicvkdnllldmyiaphvnTLYTQIRNRALIQYFSPYLSADLNKMSVAFNTTIQTHTRTNDFKVAAGLAELATRKYKTAARFFLQAHfdycdfpellspnniatygglcalatfdrseleKQDLESYANSYTGLARLFRLIYVADHCPALRHEALRMAIQYVMQTYNVNLYIQLHRKLSESLSSLKELFLVMFYLElyyfphpimenqlnFSFYLnstgalpdvassgnmgpqdiptldplLIETKNKKAAMKLEKLDNDLKNYKSNSIKESIRRGHddlgdhyldcgdlsnalKCYSRArdyctngkHVVDMCLNVIRVSVYLQNWSHVLSYVNkaeatpdfAEVIFSSGFKLFLELEPQLRDILVQFYNSKYATCLNLLAQIMALENELMTLILDGQIQARIDSHNKILYakqqdqrstTFEKSLNVGKEYARKSNMLILRSAMQVDvhmedndnneQEMIIVEnaslsptisrsdengrgsemsvatgsel

mtlildgqiqARIDSHNKIlyakqqdqrsttfekslnvgkeyaRKSNMLILRSAMIKHNICVKISIQYVMQTYNVNLYIQLHRKLSESLSSLKELFLVMFYLELYYFPHPIMENQLNFSFYLNSTGALPDVASSGNMGPQDIPTLDPLLIETKNKKAAMKLekldndlknyksNSIKESIRRGHDDLGDHYLDCGDLSNALKCYSRARDYCTNGKHVVDMCLNVIRVSVYLQNWSHVLSYVNKAEATPDFAEGKDNNQAVFTKLKVAAGLAELATRKYKTAARFFLQAHFDYCDFPELLSPNNIATYGGLCALATFDRSELEKQVIFSSGFKLFLELEPQLRDILVQFYNSKYATCLNLLAQIMDNLLLDMYIAPHVNTLYTQIRNRALIQYFSPYLSADLNKMSVAFNTTIQALENELMTLILDGQIQARIDSHNKILyakqqdqrsttfekslnvgkeyaRKSNMLILRSAMIKHNICVKDNLLLDMYIAPHVNTLYTQIRNRALIQYFSPYLSADLNKMSVAFNTTIqthtrtndFKVAAGLAELATRKYKTAARFFLQAHFDYCDFPELLSPNNIATYGGLCALATFDRSELEKQDLESYANSYTGLARLFRLIYVADHCPALRHEALRMAIQYVMQTYNVNLYIQLHRKLSESLSSLKELFLVMFYLELYYFPHPIMENQLNFSFYLNSTGALPDVASSGNMGPQDIPTLDPLLIETKNKKAAMKLekldndlknyksNSIKESIRRGHDDLGDHYLDCGDLSNALKCYSRARDYCTNGKHVVDMCLNVIRVSVYLQNWSHVLSYVNKAEATPDFAEVIFSSGFKLFLELEPQLRDILVQFYNSKYATCLNLLAQIMALENELMTLILDGQIQARIDSHNKILyakqqdqrsttfekslnvgkeyarkSNMLILRSAMQVDVHMEDNDNNEQEMIIVEnaslsptisrsdengrgsemsvatgsel

MTLILDGQIQARIDSHNKILYAKQQDQRSTTFEKSLNVGKEYARKSNMLILRSAMIKHNICVKISIQYVMQTYNVNLYIQLHRklseslsslkelFLVMFYLELYYFPHPIMENQLNFSFYLNSTGALPDVASSGNMGPQDIPTLDPLLIETKNKKAAMKLEKLDNDLKNYKSNSIKESIRRGHDDLGDHYLDCGDLSNALKCYSRARDYCTNGKHVVDMCLNVIRVSVYLQNWSHVLSYVNKAEATPDFAEGKDNNQAVFTKLKVAAGLAELATRKYKTAARFFLQAHFDYCDFPELLSPNNIATYGGLCALATFDRSELEKQVIFSSGFKLFLELEPQLRDILVQFYNSKYATCLNLLAQIMDNLLLDMYIAPHVNTLYTQIRNRALIQYFSPYLSADLNKMSVAFNTTIQALENELMTLILDGQIQARIDSHNKILYAKQQDQRSTTFEKSLNVGKEYARKSNMLILRSAMIKHNICVKDNLLLDMYIAPHVNTLYTQIRNRALIQYFSPYLSADLNKMSVAFNTTIQTHTRTNDFKVAAGLAELATRKYKTAARFFLQAHFDYCDFPELLSPNNIATYGGLCALATFDRSELEKQDLESYANSYTGLARLFRLIYVADHCPALRHEALRMAIQYVMQTYNVNLYIQLHRklseslsslkelFLVMFYLELYYFPHPIMENQLNFSFYLNSTGALPDVASSGNMGPQDIPTLDPLLIETKNKKAAMKLEKLDNDLKNYKSNSIKESIRRGHDDLGDHYLDCGDLSNALKCYSRARDYCTNGKHVVDMCLNVIRVSVYLQNWSHVLSYVNKAEATPDFAEVIFSSGFKLFLELEPQLRDILVQFYNSKYATCLNLLAQIMALENELMTLILDGQIQARIDSHNKILYAKQQDQRSTTFEKSLNVGKEYARKSNMLILRSAMQVDVHMEDNDNNEQEMIIVENASLSPTISRSDENGRGSEMSVATGSEL

********I*ARID*HNKILY***************NVGKEYARKSNMLILRSAMIKHNICVKISIQYVMQTYNVNLYIQLHRKLSESLSSLKELFLVMFYLELYYFPHPIMENQLNFSFYLNSTGAL********************************************************DDLGDHYLDCGDLSNALKCYSRARDYCTNGKHVVDMCLNVIRVSVYLQNWSHVLSYVNKAEATPDFAEGKDNNQAVFTKLKVAAGLAELATRKYKTAARFFLQAHFDYCDFPELLSPNNIATYGGLCALATFDRSELEKQVIFSSGFKLFLELEPQLRDILVQFYNSKYATCLNLLAQIMDNLLLDMYIAPHVNTLYTQIRNRALIQYFSPYLSADLNKMSVAFNTTIQALENELMTLILDGQIQARIDSHNKILYAK************LNVGKEYARKSNMLILRSAMIKHNICVKDNLLLDMYIAPHVNTLYTQIRNRALIQYFSPYLSADLNKMSVAFNTTIQTHTRTNDFKVAAGLAELATRKYKTAARFFLQAHFDYCDFPELLSPNNIATYGGLCALATFDRSELEKQDLESYANSYTGLARLFRLIYVADHCPALRHEALRMAIQYVMQTYNVNLYIQLHRKLSESLSSLKELFLVMFYLELYYFPHPIMENQLNFSFYLNSTGAL********************************************************DDLGDHYLDCGDLSNALKCYSRARDYCTNGKHVVDMCLNVIRVSVYLQNWSHVLSYVNKAEATPDFAEVIFSSGFKLFLELEPQLRDILVQFYNSKYATCLNLLAQIMALENELMTLILDGQIQARIDSHNKILYA*************************MLILR***************************************************

*TLI***QIQARIDSHNKILYAKQQDQRSTTFEKSLNVGKEYARKSNMLILRSAMIKHN************TYNVNLYIQLHRKLSESLSSLKELFLVMFYLELYYFPHPIM*******F*LNSTGALPDVAS*GNMGPQDIPTLDPLLIETKNKKAAMKLEKLDNDLKNYKSNSIKESIRRGHDDLGDHYLDCGDLSNALKCYSRARDYCTNGKHVVDMCLNVIRVSVYLQNWSHVLSYVNKAEAT******KDNNQAVFTKLKVAAGLAELATRKYKTAARFFLQAHFDYCDFPELLSPNNIATYGGLCALATFDRSELEKQVIFSSGFKLFLELEPQLRDILVQFYNSKYATCLNLLAQIMDNLLLDMYIAPHVNTLYTQIRNRALIQYFSPYLSADLNKMSVAFNTTIQALENELMTLILDGQIQARIDSHNKILYAKQQDQRSTTFEKSLNVGKEYARKSNMLILRSAMIKHNICVKDNLLLDMYIAPHVNTLYTQIRNRALIQYFSPYLSADLNKM**********HTRTNDFKVAAGLAELATRKYKTAARFFLQAHFDYCDFPELLSPNNIATYGGLCALATFDRSELEKQDLESYANSYTGLARLFRLIYVADHCPALRHEALRMAIQYVMQTYNVNLYIQLHRKLSESLS*****************************************************TLDPLLIETKNKKAAMKLEKLDNDLKNYKSNSIKESIRRGHDDLGDHYLDCGDLSNALKCYSRARDYCTNGKHVVDMCLNVIRVSVYLQNWSHVLSYVN***************GFKLFLELEPQLRDILVQFYNSKYATCLNLLAQIMALENELMTLILDGQIQARIDSHNKILYAKQQDQRSTTFEKSLNVGKEYARKSNMLILRSAM******************************************ATG***

*TLILDGQIQARIDSHNKILYAKQQDQRSTTFEKSLNVGKEYARKSNMLILRSAMIKHNICVKISIQYVMQTYNVNLYIQLHRKLSESLSSLKELFLVMFYLELYYFPHPIMENQLNFSFYLNSTGALPDVASSGNMGPQDIPTLDPLLIETKNKKAAMKLEKLDNDLKNYKSNSIKESIRRGHDDLGDHYLDCGDLSNALKCYSRARDYCTNGKHVVDMCLNVIRVSVYLQNWSHVLSYVNKAEATPDFAEGKDNNQAVFTKLKVAAGLAELATRKYKTAARFFLQAHFDYCDFPELLSPNNIATYGGLCALATFDRSELEKQVIFSSGFKLFLELEPQLRDILVQFYNSKYATCLNLLAQIMDNLLLDMYIAPHVNTLYTQIRNRALIQYFSPYLSADLNKMSVAFNTTIQALENELMTLILDGQIQARIDSHNKILYAKQQDQRSTTFEKSLNVGKEYARKSNMLILRSAMIKHNICVKDNLLLDMYIAPHVNTLYTQIRNRALIQYFSPYLSADLNKMSVAFNTTIQTHTRTNDFKVAAGLAELATRKYKTAARFFLQAHFDYCDFPELLSPNNIATYGGLCALATFDRSELEKQDLESYANSYTGLARLFRLIYVADHCPALRHEALRMAIQYVMQTYNVNLYIQLHRKLSESLSSL*********LELY********NQLNFSFYLNSTGALPDVASSGNMGPQDIPTLDPLLIETKNKKAAMKLEKLDNDLKNYKSNSIKESIRRGHDDLGDHYLDCGDLSNALKCYSRARDYCTNGKHVVDMCLNVIRVSVYLQNWSHVLSYVNKAEATPDFAEVIFSSGFKLFLELEPQLRDILVQFYNSKYATCLNLLAQIMALENELMTLILDGQIQARIDSHNKILYAKQQDQRSTTFEKSLNVGKEYARKSNMLILRSAMQVDVHM******************************************

ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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MTLILDGQIQARIDSHNKILYAKQQDQRSTTFEKSLNVGKEYARKSNMLILRSAMIKHNICVKISIQYVMQTYNVNLYIQLHRKLSESLSSLKELFLVMFYLELYYFPHPIMENQLNFSFYLNSTGALPDVASSGNMGPQDIPTLDPLLIETKxxxxxxxxxxxxxxxxxxxxxSIKESIRRGHDDLGDHYLDCGDLSNALKCYSRARDYCTNGKHVVDMCLNVIRVSVYLQNWSHVLSYVNKAEATPDFAEGKDNNQAVFTKLKVAAGLAELATRKYKTAARFFLQAHFDYCDFPELLSPNNIATYGGLCALATFDRSELEKQVIFSSGFKLFLELEPQLRDILVQFYNSKYATCLNLLAQIMDNLLLDMYIAPHVNTLYTQIRNRALIQYFSPYLSADLNKMSVAFNTTIQALENELMTLILDGQIQARIDSHNKILYAKQQDQRSTTFEKSLNVGKEYARKSNMLILRSAMIKHNICVKDNLLLDMYIAPHVNTLYTQIRNRALIQYFSPYLSADLNKMSVAFNTTIQTHTRTNDFKVAAGLAELATRKYKTAARFFLQAHFDYCDFPELLSPNNIATYGGLCALATFDRSELEKQDLESYANSYTGLARLFRLIYVADHCPALRHEALRMAIQYVMQTYNVNLYIQLHRKLSESLSSLKELFLVMFYLELYYFPHPIMENQLNFSFYLNSTGALPDVASSGNMGPQDIPTLDPLLIETKxxxxxxxxxxxxxxxxxxxxxSIKESIRRGHDDLGDHYLDCGDLSNALKCYSRARDYCTNGKHVVDMCLNVIRVSVYLQNWSHVLSYVNKAEATPDFAEVIFSSGFKLFLELEPQLRDILVQFYNSKYATCLNLLAQIMALENELMTLILDGQIQARIDSHNKILYAKQQDQRSTTFEKSLNVGKEYARKSNMLILRSAMQVDVHMEDNDNNEQEMIIVENASLSPTISRSDENGRGSEMSVATGSEL

no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Alignment graph	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query		971	2.2.26 [Sep-21-2011]
Q6NRT5		487	COP9 signalosome complex	N/A	N/A	0.396	0.790	0.623	1e-149
Q9VVU5		525	COP9 signalosome complex	yes	N/A	0.353	0.653	0.709	1e-149
Q99LD4		471	COP9 signalosome complex	no	N/A	0.396	0.817	0.625	1e-148
P97834		471	COP9 signalosome complex	yes	N/A	0.396	0.817	0.623	1e-148
Q13098		491	COP9 signalosome complex	yes	N/A	0.399	0.790	0.624	1e-148
Q54QX3		458	COP9 signalosome complex	yes	N/A	0.347	0.735	0.491	2e-91
P45432		441	COP9 signalosome complex	yes	N/A	0.337	0.743	0.5	2e-90
Q5BD89		498	COP9 signalosome complex	yes	N/A	0.364	0.710	0.358	6e-59
Q7RXQ1		425	COP9 signalosome complex	N/A	N/A	0.298	0.682	0.352	2e-49
O94308		422	COP9 signalosome complex	yes	N/A	0.328	0.755	0.301	3e-38

>sp\|Q6NRT5\|CSN1_XENLA COP9 signalosome complex subunit 1 OS=Xenopus laevis GN=csn1 PE=2 SV=1	Back alignment and function desciption

 Score =  528 bits (1361), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 265/425 (62%), Positives = 322/425 (75%), Gaps = 40/425 (9%)

Query: 62  VKISIQYVMQTYNVNLYIQLHRKLSESLSSLKELFLVMFYLELYYFPHPIMENQLNFSFY 121
           +K+++ +V +T+NV++Y  +HRKL+E+   ++                            
Sbjct: 75  LKMALSFVQRTFNVDVYEDIHRKLAEASREVQNA-------------------------- 108

Query: 122 LNSTGALPDVASSGNMGPQDIPTLDPLLIETKNKKAAMKLEKLDNDLKNYKSNSIKESIR 181
                  PD    G+M P   P LD   +E   KKA +KLEKLD DLKNYK NSIKESIR
Sbjct: 109 -------PDAVPEGSMEP---PALDTSWVEATRKKALLKLEKLDTDLKNYKGNSIKESIR 158

Query: 182 RGHDDLGDHYLDCGDLSNALKCYSRARDYCTNGKHVVDMCLNVIRVSVYLQNWSHVLSYV 241
           RGHDDLGDHYLDCGDLSNALKCYSRARDYCT+ KHV++MCLNVI+VSVYLQNWSHVLSYV
Sbjct: 159 RGHDDLGDHYLDCGDLSNALKCYSRARDYCTSAKHVINMCLNVIKVSVYLQNWSHVLSYV 218

Query: 242 NKAEATPDFAEGK----DNNQAVFTKLKVAAGLAELATRKYKTAARFFLQAHFDYCDFPE 297
           +KAE+TP+ AE +       QAV TKLK AAGLAELA RKYK AA+ FL A FD+CDFPE
Sbjct: 219 SKAESTPEIAEQRGERDSQTQAVLTKLKCAAGLAELAARKYKQAAKCFLLASFDHCDFPE 278

Query: 298 LLSPNNIATYGGLCALATFDRSELEKQVIFSSGFKLFLELEPQLRDILVQFYNSKYATCL 357
           LLSP+N+A YGGLCALATFDR EL++ VI SS FKLFLELEPQ+RDI+ +FY SKYA+CL
Sbjct: 279 LLSPSNVAVYGGLCALATFDRQELQRNVISSSSFKLFLELEPQVRDIIFKFYESKYASCL 338

Query: 358 NLLAQIMDNLLLDMYIAPHVNTLYTQIRNRALIQYFSPYLSADLNKMSVAFNTTIQALEN 417
            +L +I DNLLLDMY+APHV TLYTQIRNRALIQYFSPY+SAD+ KM+ AFNTT+ ALE+
Sbjct: 339 KMLDEIKDNLLLDMYLAPHVRTLYTQIRNRALIQYFSPYVSADMYKMATAFNTTVSALED 398

Query: 418 ELMTLILDGQIQARIDSHNKILYAKQQDQRSTTFEKSLNVGKEYARKSNMLILRSAMIKH 477
           EL  LIL+G I ARIDSH+KILYA+  DQRSTTFEKSL +G+E+ R++  +ILR+A++++
Sbjct: 399 ELTQLILEGLINARIDSHSKILYARDVDQRSTTFEKSLQMGREFQRRAKAMILRAAVLRN 458

Query: 478 NICVK 482
            I VK
Sbjct: 459 QIHVK 463

Essential component of the COP9 signalosome complex (CSN), a complex involved in various cellular and developmental processes. The CSN complex is an essential regulator of the ubiquitin (Ubl) conjugation pathway by mediating the deneddylation of the cullin subunits of E3 ligase complexes, leading to modify the Ubl ligase activity.
Xenopus laevis (taxid: 8355)

>sp\|Q9VVU5\|CSN1_DROME COP9 signalosome complex subunit 1b OS=Drosophila melanogaster GN=CSN1b PE=2 SV=1	Back alignment and function description

>sp\|Q99LD4\|CSN1_MOUSE COP9 signalosome complex subunit 1 OS=Mus musculus GN=Gps1 PE=1 SV=1	Back alignment and function description

>sp\|P97834\|CSN1_RAT COP9 signalosome complex subunit 1 OS=Rattus norvegicus GN=Gps1 PE=1 SV=1	Back alignment and function description

>sp\|Q13098\|CSN1_HUMAN COP9 signalosome complex subunit 1 OS=Homo sapiens GN=GPS1 PE=1 SV=4	Back alignment and function description

>sp\|Q54QX3\|CSN1_DICDI COP9 signalosome complex subunit 1 OS=Dictyostelium discoideum GN=csn1 PE=1 SV=1	Back alignment and function description

>sp\|P45432\|CSN1_ARATH COP9 signalosome complex subunit 1 OS=Arabidopsis thaliana GN=CSN1 PE=1 SV=2	Back alignment and function description

>sp\|Q5BD89\|CSN1_EMENI COP9 signalosome complex subunit 1 OS=Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) GN=csnA PE=1 SV=2	Back alignment and function description

>sp\|Q7RXQ1\|CSN1_NEUCR COP9 signalosome complex subunit 1 OS=Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) GN=csn-1 PE=1 SV=1	Back alignment and function description

>sp\|O94308\|CSN1_SCHPO COP9 signalosome complex subunit 1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=csn1 PE=1 SV=1	Back alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Alignment Graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		971
91078490		487	PREDICTED: similar to G protein pathway	0.396	0.790	0.692	1e-169
332024404		485	COP9 signalosome complex subunit 1 [Acro	0.397	0.795	0.695	1e-168
322802345		481	hypothetical protein SINV_15878 [Solenop	0.397	0.802	0.697	1e-168
307183984		635	COP9 signalosome complex subunit 1b [Cam	0.396	0.606	0.695	1e-168
307199090		484	COP9 signalosome complex subunit 1 [Harp	0.396	0.795	0.692	1e-167
380012325		468	PREDICTED: COP9 signalosome complex subu	0.396	0.822	0.685	1e-166
328787987		483	PREDICTED: LOW QUALITY PROTEIN: COP9 sig	0.396	0.797	0.685	1e-166
340718848		487	PREDICTED: LOW QUALITY PROTEIN: COP9 sig	0.396	0.790	0.687	1e-166
350419916		487	PREDICTED: LOW QUALITY PROTEIN: COP9 sig	0.396	0.790	0.685	1e-166
242019643		479	COP9 signalosome complex subunit, putati	0.416	0.843	0.659	1e-166

>gi\|91078490\|ref\|XP_968588.1\| PREDICTED: similar to G protein pathway suppressor 1 [Tribolium castaneum] gi\|270004016\|gb\|EFA00464.1\| hypothetical protein TcasGA2_TC003322 [Tribolium castaneum]	Back alignment and taxonomy information

 Score =  601 bits (1550), Expect = e-169,   Method: Compositional matrix adjust.
 Identities = 293/423 (69%), Positives = 345/423 (81%), Gaps = 38/423 (8%)

Query: 62  VKISIQYVMQTYNVNLYIQLHRKLSESLSSLKELFLVMFYLELYYFPHPIMENQLNFSFY 121
           +K++I YVM TYNVNLY  LH+KL+E  + +                             
Sbjct: 74  LKMAISYVMTTYNVNLYQVLHQKLAEVTTQM----------------------------- 104

Query: 122 LNSTGALPDVASSGNMGPQDIPTLDPLLIETKNKKAAMKLEKLDNDLKNYKSNSIKESIR 181
                ++PDVA++     QDIP +D L +ET++KKAA+KLEKLDNDLK+YKSNSIKESIR
Sbjct: 105 -----SVPDVAATST--SQDIPVIDNLWMETRSKKAALKLEKLDNDLKSYKSNSIKESIR 157

Query: 182 RGHDDLGDHYLDCGDLSNALKCYSRARDYCTNGKHVVDMCLNVIRVSVYLQNWSHVLSYV 241
           RGHDDLG+HYLDCGDLSNALKC+SRARDYCT+GKHVV+MCLNVI+VSVYLQNWSHVLSYV
Sbjct: 158 RGHDDLGEHYLDCGDLSNALKCFSRARDYCTSGKHVVNMCLNVIKVSVYLQNWSHVLSYV 217

Query: 242 NKAEATPDFAEG--KDNNQAVFTKLKVAAGLAELATRKYKTAARFFLQAHFDYCDFPELL 299
           +KAE+TPDF E   KD+NQ + TKLK AAGLAELAT+KYK+AA+ FLQA+ D+CDFPELL
Sbjct: 218 SKAESTPDFTEAQTKDSNQVIVTKLKCAAGLAELATKKYKSAAKHFLQANLDHCDFPELL 277

Query: 300 SPNNIATYGGLCALATFDRSELEKQVIFSSGFKLFLELEPQLRDILVQFYNSKYATCLNL 359
           SPNN+A YGGLCALATFDR EL+K VIFSS FKLFLELEPQLRDI+ +FY SKYA+CL L
Sbjct: 278 SPNNVAMYGGLCALATFDRHELQKNVIFSSSFKLFLELEPQLRDIIFKFYESKYASCLKL 337

Query: 360 LAQIMDNLLLDMYIAPHVNTLYTQIRNRALIQYFSPYLSADLNKMSVAFNTTIQALENEL 419
           L +I DNLLLDMYIAPH+NTLYTQIRNRALIQYFSPYLSAD++KM++AFN T+ ALE+EL
Sbjct: 338 LDEIKDNLLLDMYIAPHINTLYTQIRNRALIQYFSPYLSADMHKMAIAFNRTVPALEDEL 397

Query: 420 MTLILDGQIQARIDSHNKILYAKQQDQRSTTFEKSLNVGKEYARKSNMLILRSAMIKHNI 479
           M LILDGQIQARIDSHNKIL+AK  DQRSTTFE+SL +GKEY R++ MLILR+A++K  I
Sbjct: 398 MQLILDGQIQARIDSHNKILFAKDVDQRSTTFERSLLMGKEYQRRTRMLILRAAVLKSKI 457

Query: 480 CVK 482
            VK
Sbjct: 458 HVK 460

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi\|332024404\|gb\|EGI64602.1\| COP9 signalosome complex subunit 1 [Acromyrmex echinatior]	Back alignment and taxonomy information

>gi\|322802345\|gb\|EFZ22741.1\| hypothetical protein SINV_15878 [Solenopsis invicta]	Back alignment and taxonomy information

>gi\|307183984\|gb\|EFN70555.1\| COP9 signalosome complex subunit 1b [Camponotus floridanus]	Back alignment and taxonomy information

>gi\|307199090\|gb\|EFN79800.1\| COP9 signalosome complex subunit 1 [Harpegnathos saltator]	Back alignment and taxonomy information

>gi\|380012325\|ref\|XP_003690236.1\| PREDICTED: COP9 signalosome complex subunit 1-like [Apis florea]	Back alignment and taxonomy information

>gi\|328787987\|ref\|XP_392872.3\| PREDICTED: LOW QUALITY PROTEIN: COP9 signalosome complex subunit 1 isoform 1 [Apis mellifera]	Back alignment and taxonomy information

>gi\|340718848\|ref\|XP_003397875.1\| PREDICTED: LOW QUALITY PROTEIN: COP9 signalosome complex subunit 1-like [Bombus terrestris]	Back alignment and taxonomy information

>gi\|350419916\|ref\|XP_003492343.1\| PREDICTED: LOW QUALITY PROTEIN: COP9 signalosome complex subunit 1-like [Bombus impatiens]	Back alignment and taxonomy information

>gi\|242019643\|ref\|XP_002430269.1\| COP9 signalosome complex subunit, putative [Pediculus humanus corporis] gi\|212515376\|gb\|EEB17531.1\| COP9 signalosome complex subunit, putative [Pediculus humanus corporis]	Back alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Alignment graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		971
ZFIN\|ZDB-GENE-041111-240		490	gps1 "G protein pathway suppre	0.368	0.730	0.710	3.1e-140
FB\|FBgn0027057		525	CSN1b "COP9 complex homolog su	0.371	0.687	0.682	4.4e-139
UNIPROTKB\|F1NB10		487	GPS1 "Uncharacterized protein"	0.361	0.720	0.706	1.1e-137
UNIPROTKB\|F1NJQ7		491	GPS1 "Uncharacterized protein"	0.361	0.714	0.706	1.1e-137
MGI\|MGI:2384801		471	Gps1 "G protein pathway suppre	0.361	0.745	0.706	1.1e-137
UNIPROTKB\|F1P996		433	GPS1 "Uncharacterized protein"	0.361	0.810	0.706	1.1e-137
UNIPROTKB\|F1MP10		478	GPS1 "Uncharacterized protein"	0.361	0.734	0.706	1.7e-137
RGD\|621532		471	Gps1 "G protein pathway suppre	0.361	0.745	0.703	2.2e-137
UNIPROTKB\|C9JFE4		471	GPS1 "G protein pathway suppre	0.361	0.745	0.695	2.5e-136
UNIPROTKB\|Q13098		491	GPS1 "COP9 signalosome complex	0.361	0.714	0.695	2.5e-136

ZFIN\|ZDB-GENE-041111-240 gps1 "G protein pathway suppressor 1" [Danio rerio (taxid:7955)]	Back alignment and assigned GO terms

 Score = 1334 (474.7 bits), Expect = 3.1e-140, Sum P(2) = 3.1e-140
 Identities = 260/366 (71%), Positives = 307/366 (83%)

Query:   121 YLNSTGALPDVASSGNMGPQDIPTLDPLLIETKNKKAAMKLEKLDNDLKNYKSNSIKESI 180
             +L   G +PD    G + P   P LD    E+  KKA +KLEKLD DLKNYK NSIKESI
Sbjct:   105 FLEVQG-VPDAVPEGAVEP---PPLDTAWAESTRKKALLKLEKLDTDLKNYKGNSIKESI 160

Query:   181 RRGHDDLGDHYLDCGDLSNALKCYSRARDYCTNGKHVVDMCLNVIRVSVYLQNWSHVLSY 240
             RRGHDDLGDHYLDCGDLSNALKCYSRARDYCT+ KHV++MCLNVI+VSVYLQNWSHVLSY
Sbjct:   161 RRGHDDLGDHYLDCGDLSNALKCYSRARDYCTSAKHVINMCLNVIKVSVYLQNWSHVLSY 220

Query:   241 VNKAEATPDFAE--G-KDN-NQAVFTKLKVAAGLAELATRKYKTAARFFLQAHFDYCDFP 296
             V+KAE+TP+ AE  G +D+ NQAV TKLK AAG AELA+RKYK AA+ FLQA FD+CDFP
Sbjct:   221 VSKAESTPEIAEQRGERDSQNQAVLTKLKCAAGKAELASRKYKPAAKCFLQASFDHCDFP 280

Query:   297 ELLSPNNIATYGGLCALATFDRSELEKQVIFSSGFKLFLELEPQLRDILVQFYNSKYATC 356
             ELLSP+N+A YGGLCALATFDR EL++ VI SS FKLFLELEPQ+RDI+ +FY SKYA+C
Sbjct:   281 ELLSPSNVAVYGGLCALATFDRQELQRNVISSSSFKLFLELEPQVRDIIFKFYESKYASC 340

Query:   357 LNLLAQIMDNLLLDMYIAPHVNTLYTQIRNRALIQYFSPYLSADLNKMSVAFNTTIQALE 416
             L +L ++ DNLLLDMY+APHV TLYTQIRNRALIQYFSPY+SAD+NKM+VAFNTT+ ALE
Sbjct:   341 LKMLDEMKDNLLLDMYLAPHVRTLYTQIRNRALIQYFSPYVSADMNKMAVAFNTTVAALE 400

Query:   417 NELMTLILDGQIQARIDSHNKILYAKQQDQRSTTFEKSLNVGKEYARKSNMLILRSAMIK 476
             +EL  LIL+G I ARIDSH+KILYA+  DQRSTTFEKSL +GKE+ R++  +ILR+A+++
Sbjct:   401 DELTQLILEGLINARIDSHSKILYARDVDQRSTTFEKSLQMGKEFQRRAKAMILRAAVLR 460

Query:   477 HNICVK 482
             + I VK
Sbjct:   461 NQIHVK 466

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

FB\|FBgn0027057 CSN1b "COP9 complex homolog subunit 1 b" [Drosophila melanogaster (taxid:7227)]	Back alignment and assigned GO terms

UNIPROTKB\|F1NB10 GPS1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]	Back alignment and assigned GO terms

UNIPROTKB\|F1NJQ7 GPS1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]	Back alignment and assigned GO terms

MGI\|MGI:2384801 Gps1 "G protein pathway suppressor 1" [Mus musculus (taxid:10090)]	Back alignment and assigned GO terms

UNIPROTKB\|F1P996 GPS1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]	Back alignment and assigned GO terms

UNIPROTKB\|F1MP10 GPS1 "Uncharacterized protein" [Bos taurus (taxid:9913)]	Back alignment and assigned GO terms

RGD\|621532 Gps1 "G protein pathway suppressor 1" [Rattus norvegicus (taxid:10116)]	Back alignment and assigned GO terms

UNIPROTKB\|C9JFE4 GPS1 "G protein pathway suppressor 1, isoform CRA_b" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

UNIPROTKB\|Q13098 GPS1 "COP9 signalosome complex subunit 1" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9VVU5	CSN1_DROME	No assigned EC number	0.7093	0.3532	0.6533	yes	N/A
Q13098	CSN1_HUMAN	No assigned EC number	0.6244	0.3995	0.7902	yes	N/A
P97834	CSN1_RAT	No assigned EC number	0.6235	0.3964	0.8174	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Alignment Graph	Length	Definition	E-value
Query		971
pfam10602		174	pfam10602, RPN7, 26S proteasome subunit RPN7	9e-71
pfam10602		174	pfam10602, RPN7, 26S proteasome subunit RPN7	3e-44
pfam10602		174	pfam10602, RPN7, 26S proteasome subunit RPN7	6e-18
COG5187		412	COG5187, RPN7, 26S proteasome regulatory complex c	2e-16
pfam01399		100	pfam01399, PCI, PCI domain	3e-16
smart00753		88	smart00753, PAM, PCI/PINT associated module	5e-12
smart00088		88	smart00088, PINT, motif in proteasome subunits, In	5e-12
COG5187		412	COG5187, RPN7, 26S proteasome regulatory complex c	0.003
pfam01399		100	pfam01399, PCI, PCI domain	0.003

>gnl\|CDD\|220821 pfam10602, RPN7, 26S proteasome subunit RPN7	Back alignment and domain information

 Score =  231 bits (592), Expect = 9e-71
 Identities = 80/179 (44%), Positives = 110/179 (61%), Gaps = 5/179 (2%)

Query: 146 DPLLIETKNKKAAMKLEKLDNDLKNYKSNSIKESIRRGHDDLGDHYLDCGDLSNALKCYS 205
           D   +E   KK   +LE+LD +LK+ K N  KE IRR   DL +HY   GDL NALK YS
Sbjct: 1   DEAWVEELRKKNEEELEELDAELKDAKENLGKEEIRRALLDLAEHYAKIGDLENALKAYS 60

Query: 206 RARDYCTNGKHVVDMCLNVIRVSVYLQNWSHVLSYVNKAEATPDFAEGKDNNQAVFTKLK 265
           RAR+YCT+  H +DMCLN+IRV ++  +W HV  Y+ KA++  +     +       +LK
Sbjct: 61  RAREYCTSLGHKIDMCLNLIRVGIFFNDWDHVSKYIEKAKSLIEKGGDWERR----NRLK 116

Query: 266 VAAGLAELATRKYKTAARFFLQAHFDYCDFPELLSPNNIATYGGLCALATFDRSELEKQ 324
           V  GLA LA R +K AA+ FL +   +    EL+S  ++A YG LCALA+ DR +L+K+
Sbjct: 117 VYEGLALLAIRDFKEAAKLFLDSLSTFTS-TELISYEDVAIYGVLCALASLDRVDLKKK 174

RPN7 (known as the non ATPase regulatory subunit 6 in higher eukaryotes) is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae to be required for structural integrity. The 26S proteasome is is involved in the ATP-dependent degradation of ubiquitinated proteins. Length = 174

>gnl\|CDD\|220821 pfam10602, RPN7, 26S proteasome subunit RPN7	Back alignment and domain information

>gnl\|CDD\|220821 pfam10602, RPN7, 26S proteasome subunit RPN7	Back alignment and domain information

>gnl\|CDD\|227514 COG5187, RPN7, 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>gnl\|CDD\|216479 pfam01399, PCI, PCI domain	Back alignment and domain information

>gnl\|CDD\|214803 smart00753, PAM, PCI/PINT associated module	Back alignment and domain information

>gnl\|CDD\|214509 smart00088, PINT, motif in proteasome subunits, Int-6, Nip-1 and TRIP-15	Back alignment and domain information

>gnl\|CDD\|227514 COG5187, RPN7, 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>gnl\|CDD\|216479 pfam01399, PCI, PCI domain	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		971
KOG0686\|consensus		466		100.0
KOG0686\|consensus		466		100.0
KOG0687\|consensus		393		100.0
COG5187		412	RPN7 26S proteasome regulatory complex component,	100.0
KOG0687\|consensus		393		100.0
PF10602		177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	100.0
COG5187		412	RPN7 26S proteasome regulatory complex component,	100.0
KOG2758\|consensus		432		99.97
PF10602		177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	99.94
KOG1463\|consensus		411		99.94
KOG1464\|consensus		440		99.94
COG5159		421	RPN6 26S proteasome regulatory complex component [	99.9
PF01399		105	PCI: PCI domain; InterPro: IPR000717 A homology do	99.61
smart00088		88	PINT motif in proteasome subunits, Int-6, Nip-1 an	99.27
smart00753		88	PAM PCI/PINT associated module.	99.27
KOG2908\|consensus		380		98.92
KOG1498\|consensus		439		98.63
KOG2581\|consensus		493		98.37
COG5071		439	RPN5 26S proteasome regulatory complex component [	98.21
KOG1497\|consensus		399		97.82
KOG2582\|consensus		422		97.67
KOG1076\|consensus		843		97.47
KOG2753\|consensus		378		97.39
PF01399		105	PCI: PCI domain; InterPro: IPR000717 A homology do	97.17
PF14938		282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	96.69
PF09976		145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	95.84
KOG2758\|consensus		432		95.56
smart00088		88	PINT motif in proteasome subunits, Int-6, Nip-1 an	95.36
smart00753		88	PAM PCI/PINT associated module.	95.36
KOG2688\|consensus		394		95.04
PF10075		143	PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro	95.03
cd00189		100	TPR Tetratricopeptide repeat domain; typically con	94.88
TIGR02795		119	tol_pal_ybgF tol-pal system protein YbgF. Members	94.82
PF10255		404	Paf67: RNA polymerase I-associated factor PAF67; I	94.77
PF14938		282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	94.15
PF13424		78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	93.83
COG5600		413	Transcription-associated recombination protein [DN	93.44
PF09756		188	DDRGK: DDRGK domain; InterPro: IPR019153 This is a	93.25
KOG0548\|consensus		539		92.07
TIGR02552		135	LcrH_SycD type III secretion low calcium response	92.07
TIGR02521		234	type_IV_pilW type IV pilus biogenesis/stability pr	91.77
TIGR02521		234	type_IV_pilW type IV pilus biogenesis/stability pr	91.48
PF13414		69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	91.15
PF13424		78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	90.58
TIGR00990		615	3a0801s09 mitochondrial precursor proteins import	90.58
KOG1840\|consensus		508		90.41
PF12895		84	Apc3: Anaphase-promoting complex, cyclosome, subun	89.72
PF13176		36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	89.52
KOG2072\|consensus		988		89.12
KOG1125\|consensus		579		88.74
PF13176		36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	88.7
PRK11788		389	tetratricopeptide repeat protein; Provisional	88.26
PF09012		69	FeoC: FeoC like transcriptional regulator; InterPr	88.16
CHL00033		168	ycf3 photosystem I assembly protein Ycf3	87.96
PRK15363		157	pathogenicity island 2 chaperone protein SscA; Pro	87.89
PF13414		69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	87.79
TIGR00990		615	3a0801s09 mitochondrial precursor proteins import	87.45
PRK02603		172	photosystem I assembly protein Ycf3; Provisional	87.44
PRK11447		1157	cellulose synthase subunit BcsC; Provisional	86.62
PF13429		280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	86.53
KOG0547\|consensus		606		86.35
TIGR03302		235	OM_YfiO outer membrane assembly lipoprotein YfiO.	86.25
PRK11788		389	tetratricopeptide repeat protein; Provisional	86.16
PF12688		120	TPR_5: Tetratrico peptide repeat	85.87
PRK15359		144	type III secretion system chaperone protein SscB;	85.74
PRK15331		165	chaperone protein SicA; Provisional	85.72
KOG2908\|consensus		380		85.66
PF13432		65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	85.56
KOG0547\|consensus		606		85.48
PF03399		204	SAC3_GANP: SAC3/GANP/Nin1/mts3/eIF-3 p25 family; I	85.29
PF13429		280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	85.28
KOG2376\|consensus		652		85.14
PF08220		57	HTH_DeoR: DeoR-like helix-turn-helix domain; Inter	84.96
TIGR02795		119	tol_pal_ybgF tol-pal system protein YbgF. Members	84.79
COG3063		250	PilF Tfp pilus assembly protein PilF [Cell motilit	84.52
PF09976		145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	84.17
PRK10370		198	formate-dependent nitrite reductase complex subuni	84.03
smart00345		60	HTH_GNTR helix_turn_helix gluconate operon transcr	84.02
PF07719		34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	83.99
PLN03088		356	SGT1, suppressor of G2 allele of SKP1; Provisional	83.91
KOG3054\|consensus		299		83.73
KOG0624\|consensus		504		83.42
PF13181		34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	82.99
PRK10803		263	tol-pal system protein YbgF; Provisional	82.13
PF12569		517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	82.05
TIGR03302		235	OM_YfiO outer membrane assembly lipoprotein YfiO.	82.0
KOG1586\|consensus		288		81.59
cd00189		100	TPR Tetratricopeptide repeat domain; typically con	81.07
TIGR02917		899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	80.6
PRK10866		243	outer membrane biogenesis protein BamD; Provisiona	80.29

>KOG0686\|consensus	Back alignment and domain information

Probab=100.00  E-value=4.2e-88  Score=738.68  Aligned_cols=414  Identities=55%  Similarity=0.888  Sum_probs=390.0

Q ss_pred             hhHHHHHhhhhhHHhhhhHHHHhhhh-hchhHHHHHHHHHHHh-hcChHHHHHHHH--HHHHHhhhhHHHHHHHHHhhhc
Q psy11733         30 TTFEKSLNVGKEYARKSNMLILRSAM-IKHNICVKISIQYVMQ-TYNVNLYIQLHR--KLSESLSSLKELFLVMFYLELY  105 (971)
Q Consensus        30 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~al~~Ai~~~k~-~~nv~~Y~~~~~--~l~~~~~~~~~~~~~~~~~~~~  105 (971)
                      +|+|.|+..|.|..|+.|++|||+|| +++.+||+|||++||+ ||||++|+++|+  ++....                
T Consensus        34 idie~yA~~Y~g~~~i~RllfIA~~cp~Lr~~Al~~Ai~~vk~~t~nv~ly~~l~~~~k~~~~L----------------   97 (466)
T KOG0686|consen   34 IDIEAYAASYEGRNRILRLLFIARHCPDLRVEALRMAIDEVKEDTYNVDLYQELFNASKIQGEL----------------   97 (466)
T ss_pred             chHHHHHHhcccHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHhcchh----------------
Confidence            68999999999999999999999999 9999999999999999 999999999999  443221                


Q ss_pred             cCCCcccccccccccccccCCCCCCccCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhccchHHHHHHHH
Q psy11733        106 YFPHPIMENQLNFSFYLNSTGALPDVASSGNMGPQDIPTLDPLLIETKNKKAAMKLEKLDNDLKNYKSNSIKESIRRGHD  185 (971)
Q Consensus       106 ~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~g~~~~~~~D~~wie~~~~~n~~~le~Le~eLk~yk~NliKeSIR~~~~  185 (971)
                                          +.-|+..|..  | -+.+.+|.+|++...++...++++|+.|||.||+|+||||||+|++
T Consensus        98 --------------------~~~~~~~~~~--~-~e~~~~D~~WvE~~~~~a~~~le~L~~eLk~yK~n~iKEsiRra~~  154 (466)
T KOG0686|consen   98 --------------------GRAPFKNPQL--G-FEGYLLDEKWVETNNKKAVLKLEKLDNELKSYKDNLIKESIRRALE  154 (466)
T ss_pred             --------------------hcCCCCCccc--c-ccccccchHHHHHhhHHHHHHHHHHHHHHHHhhcchhhHHHHHHHH
Confidence                                1111112222  2 2468999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhhhcCCCchhhHHHHHHHHHHHhhcHHHHHHHHHHHhccCcccCCCCChhHHHHHHH
Q psy11733        186 DLGDHYLDCGDLSNALKCYSRARDYCTNGKHVVDMCLNVIRVSVYLQNWSHVLSYVNKAEATPDFAEGKDNNQAVFTKLK  265 (971)
Q Consensus       186 dLg~~y~~iGDl~~Alk~y~r~Rdycts~~h~idm~l~lIrv~I~~~dw~~V~~~v~KAk~~id~~~d~~r~~~l~~kLk  265 (971)
                      |+|+||++||++++|+++|.|+|||||+.+|+|+||+++|+|+|+++||.||.++++||+++++...  .-.+.+.+||+
T Consensus       155 Dl~dhy~~cG~l~~Alr~YsR~RdYCTs~khvInm~ln~i~VSI~~~nw~hv~sy~~~A~st~~~~~--~~~q~v~~kl~  232 (466)
T KOG0686|consen  155 DLGDHYLDCGQLDNALRCYSRARDYCTSAKHVINMCLNLILVSIYMGNWGHVLSYISKAESTPDANE--NLAQEVPAKLK  232 (466)
T ss_pred             HHHHHHHHhccHHHHHhhhhhhhhhhcchHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHhCchhhh--hHHHhcCcchH
Confidence            9999999999999999999999999999999999999999999999999999999999999984321  11456789999


Q ss_pred             HHHHHHHhhccCHHHHHHHHhhcccCCCCcccCCChhHHHHHHHHHhhhcCChHHHHHhccCChhhhhhhccchHHHHHH
Q psy11733        266 VAAGLAELATRKYKTAARFFLQAHFDYCDFPELLSPNNIATYGGLCALATFDRSELEKQVIFSSGFKLFLELEPQLRDIL  345 (971)
Q Consensus       266 ~~~GL~~L~~r~yk~AA~~FLea~f~~~~~~ells~~Dva~Y~~LcaLaS~dR~eLK~kVlds~efr~~Le~eP~lr~lI  345 (971)
                      |+.||++|..|+|+.|+.+|+.+.+++++|+|+++|.|+++||+|||||||||.+||..|++|.+|+.|++.+|.++++|
T Consensus       233 C~agLa~L~lkkyk~aa~~fL~~~~~~~d~~~ivtpsdv~iYggLcALAtfdr~~Lk~~vi~n~~Fk~flel~Pqlr~il  312 (466)
T KOG0686|consen  233 CAAGLANLLLKKYKSAAKYFLLAEFDHCDYPEIVTPSDVAIYGGLCALATFDRQDLKLNVIKNESFKLFLELEPQLREIL  312 (466)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCCccCccceecchhhHHHHhhHhhccCCHHHHHHHHHcchhhhhHHhcChHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhCCHHHHHHHHHHHHHhcccccchHHhHHHHHHHHHHHHHHHhccccceecHHhHHHHhCCChHHHHHHHHHHHHc
Q psy11733        346 VQFYNSKYATCLNLLAQIMDNLLLDMYIAPHVNTLYTQIRNRALIQYFSPYLSADLNKMSVAFNTTIQALENELMTLILD  425 (971)
Q Consensus       346 ~aF~~~~Y~~~l~~L~~~~~~LllD~yL~~Hv~~L~~~IR~kaliQYl~PYssV~L~~MA~aFgvsvd~lE~eLv~LI~d  425 (971)
                      .+||+++|..|+++|.+++++|++|+||+|||+.||+.||.|+++||+.||++++|+.||.+||+|+.++|++|.+||.+
T Consensus       313 ~~fy~sky~~cl~~L~~~k~~llLD~yLaphVd~Ly~~IR~r~llqy~~py~s~~m~~mA~af~~sv~~le~~l~~LI~~  392 (466)
T KOG0686|consen  313 FKFYSSKYASCLELLREIKPRLLLDMYLAPHVDNLYSLIRNRALLQYLSPYSSADMSKMAEAFNTSVAILESELLELILE  392 (466)
T ss_pred             HHHhhhhHHHHHHHHHHhccceeechhcchhHHHHHHHHHHhhHHHhcCccccchHHHHHHHhcccHHHHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CceeEEEcCCCCEEEEccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHhccceeccc
Q psy11733        426 GQIQARIDSHNKILYAKQQDQRSTTFEKSLNVGKEYARKSNMLILRSAMIKHNICVKDN  484 (971)
Q Consensus       426 grL~ARIDsvngiL~~~~~D~R~~~yq~alk~gd~l~~~a~~lllR~~~l~a~l~v~~~  484 (971)
                      |+|+||||+++|++++.+.|+++++|++++.+|+.+.+.++++++|+.++.+.+++++.
T Consensus       393 ~~i~~rIDs~~ki~~~~~~~~en~~fe~~~~~~~~~~~~~kal~lr~~~~~~~~ht~s~  451 (466)
T KOG0686|consen  393 GKISGRIDSHNKILYARDADSENATFERVLPMGKRSQLEAKALLLRAALLKNKIHTKSL  451 (466)
T ss_pred             cchheeeccccceeeecccccccchhhhcchhhHHHHHHHHHHHHHHHHHhccccCCCc
Confidence            99999999999999999999999999999999999999999999999999999999986

>KOG0686\|consensus	Back alignment and domain information

>KOG0687\|consensus	Back alignment and domain information

>COG5187 RPN7 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG0687\|consensus	Back alignment and domain information

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome	Back alignment and domain information

>COG5187 RPN7 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG2758\|consensus	Back alignment and domain information

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome	Back alignment and domain information

>KOG1463\|consensus	Back alignment and domain information

>KOG1464\|consensus	Back alignment and domain information

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PF01399 PCI: PCI domain; InterPro: IPR000717 A homology domain of unclear function, occurs in the C-terminal region of several regulatory components of the 26S proteasome as well as in other proteins	Back alignment and domain information

>smart00088 PINT motif in proteasome subunits, Int-6, Nip-1 and TRIP-15	Back alignment and domain information

>smart00753 PAM PCI/PINT associated module	Back alignment and domain information

>KOG2908\|consensus	Back alignment and domain information

>KOG1498\|consensus	Back alignment and domain information

>KOG2581\|consensus	Back alignment and domain information

>COG5071 RPN5 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG1497\|consensus	Back alignment and domain information

>KOG2582\|consensus	Back alignment and domain information

>KOG1076\|consensus	Back alignment and domain information

>KOG2753\|consensus	Back alignment and domain information

>PF01399 PCI: PCI domain; InterPro: IPR000717 A homology domain of unclear function, occurs in the C-terminal region of several regulatory components of the 26S proteasome as well as in other proteins	Back alignment and domain information

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A	Back alignment and domain information

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function	Back alignment and domain information

>KOG2758\|consensus	Back alignment and domain information

>smart00088 PINT motif in proteasome subunits, Int-6, Nip-1 and TRIP-15	Back alignment and domain information

>smart00753 PAM PCI/PINT associated module	Back alignment and domain information

>KOG2688\|consensus	Back alignment and domain information

>PF10075 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro: IPR019280 The photomorphogenic 9 (COP9) signalosome or CSN complex is composed of eight subunits: Cops1/GPS1, Cops2, Cops3, Cops4, Cops5, Cop6, Cops7 (Cops7A or Cops7B) and Cops8	Back alignment and domain information

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Back alignment and domain information

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF	Back alignment and domain information

>PF10255 Paf67: RNA polymerase I-associated factor PAF67; InterPro: IPR019382 RNA polymerase I is a multi-subunit enzyme and its transcription competence is dependent on the presence of PAF67 []	Back alignment and domain information

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A	Back alignment and domain information

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H	Back alignment and domain information

>COG5600 Transcription-associated recombination protein [DNA replication, recombination, and repair]	Back alignment and domain information

>PF09756 DDRGK: DDRGK domain; InterPro: IPR019153 This is a family of proteins of approximately 300 residues	Back alignment and domain information

>KOG0548\|consensus	Back alignment and domain information

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD	Back alignment and domain information

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW	Back alignment and domain information

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW	Back alignment and domain information

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A	Back alignment and domain information

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H	Back alignment and domain information

>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)	Back alignment and domain information

>KOG1840\|consensus	Back alignment and domain information

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A	Back alignment and domain information

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A	Back alignment and domain information

>KOG2072\|consensus	Back alignment and domain information

>KOG1125\|consensus	Back alignment and domain information

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A	Back alignment and domain information

>PRK11788 tetratricopeptide repeat protein; Provisional	Back alignment and domain information

>PF09012 FeoC: FeoC like transcriptional regulator; InterPro: IPR015102 This entry contains several transcriptional regulators, including FeoC, which contain a HTH motif	Back alignment and domain information

>CHL00033 ycf3 photosystem I assembly protein Ycf3	Back alignment and domain information

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional	Back alignment and domain information

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A	Back alignment and domain information

>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)	Back alignment and domain information

>PRK02603 photosystem I assembly protein Ycf3; Provisional	Back alignment and domain information

>PRK11447 cellulose synthase subunit BcsC; Provisional	Back alignment and domain information

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B	Back alignment and domain information

>KOG0547\|consensus	Back alignment and domain information

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO	Back alignment and domain information

>PRK11788 tetratricopeptide repeat protein; Provisional	Back alignment and domain information

>PF12688 TPR_5: Tetratrico peptide repeat	Back alignment and domain information

>PRK15359 type III secretion system chaperone protein SscB; Provisional	Back alignment and domain information

>PRK15331 chaperone protein SicA; Provisional	Back alignment and domain information

>KOG2908\|consensus	Back alignment and domain information

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B	Back alignment and domain information

>KOG0547\|consensus	Back alignment and domain information

>PF03399 SAC3_GANP: SAC3/GANP/Nin1/mts3/eIF-3 p25 family; InterPro: IPR005062 This large family includes diverse proteins involved in large complexes [, , ]	Back alignment and domain information

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B	Back alignment and domain information

>KOG2376\|consensus	Back alignment and domain information

>PF08220 HTH_DeoR: DeoR-like helix-turn-helix domain; InterPro: IPR001034 The deoR-type HTH domain is a DNA-binding, helix-turn-helix (HTH) domain of about 50-60 amino acids present in transcription regulators of the deoR family, involved in sugar catabolism	Back alignment and domain information

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF	Back alignment and domain information

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]	Back alignment and domain information

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function	Back alignment and domain information

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional	Back alignment and domain information

>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor	Back alignment and domain information

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]	Back alignment and domain information

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional	Back alignment and domain information

>KOG3054\|consensus	Back alignment and domain information

>KOG0624\|consensus	Back alignment and domain information

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A	Back alignment and domain information

>PRK10803 tol-pal system protein YbgF; Provisional	Back alignment and domain information

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala	Back alignment and domain information

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO	Back alignment and domain information

>KOG1586\|consensus	Back alignment and domain information

Back alignment and domain information

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein	Back alignment and domain information

>PRK10866 outer membrane biogenesis protein BamD; Provisional	Back alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Alignment Graph	Length	Definition	E-value
Query		971
4b4t_R		429	Near-Atomic Resolution Structural Model Of The Yeas		3e-15

>pdb|4B4T|R Chain R, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 429

Back alignment and structure

Iteration: 1

Score = 81.3 bits (199), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 67/270 (24%), Positives = 120/270 (44%), Gaps = 9/270 (3%) Query: 186 DLGDHYLDCGDLSNALKCYSRARDYCTNGKHVVDMCLNVIRVSVYLQNWSHVLSYVNKAE 245 +LG++Y GD NA K ++ + +D+ L + R+ + + +V K E Sbjct: 136 NLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYV---KEKLE 192 Query: 246 ATPDFAEGKDNNQAVFTKLKVAAGLAELATRKYKTAARFFLQAHFDYCDFPELLSPNNIA 305 A E K + + K G+ LA R +K AA+ + + + EL S +IA Sbjct: 193 AVNSMIE-KGGDWERRNRYKTYYGIHCLAVRNFKEAAKLLVDSLATFTSI-ELTSYESIA 250 Query: 306 TYGGLCALATFDRSELEKQVIFSSGFKLFLELEPQLRDI---LVQFYNSKYATCLNLLAQ 362 TY + L T +R++L+ +VI S + L+ I + Y S YA+ L + Sbjct: 251 TYASVTGLFTLERTDLKSKVIDSPELLSLISTTAALQSISSLTISLYASDYASYFPYLLE 310 Query: 363 IMDNLLLD-MYIAPHVNTLYTQIRNRALIQYFSPYLSADLNKMSVAFNTTIQALENELMT 421 N+L+ Y+ H + ++R + Q Y + L M+ AF ++ L+N+L Sbjct: 311 TYANVLIPCKYLNRHADFFVREMRRKVYAQLLESYKTLSLKSMASAFGVSVAFLDNDLGK 370 Query: 422 LILDGQIQARIDSHNKILYAKQQDQRSTTF 451 I + Q+ ID N I+ + D ++ + Sbjct: 371 FIPNKQLNCVIDRVNGIVETNRPDNKNAQY 400

PyMOL of 4b4t

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Alignment Graph	Length	Definition	E-value
Query		971
3txn_A		394	26S proteasome regulatory complex subunit P42B; PC	2e-42
3txn_A		394	26S proteasome regulatory complex subunit P42B; PC	1e-05
3txn_A		394	26S proteasome regulatory complex subunit P42B; PC	2e-05
3txn_A		394	26S proteasome regulatory complex subunit P42B; PC	5e-04
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-14
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-12
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-07
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-07
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-06
1qzv_F		154	Plant photosystem I: subunit PSAF; photosynthesis,	4e-05

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A Length = 394	Back alignment and structure

 Score =  158 bits (401), Expect = 2e-42
 Identities = 48/318 (15%), Positives = 106/318 (33%), Gaps = 9/318 (2%)

Query: 161 LEKLDNDLKNYKSNSIKESIRRGHDDLGDHYLDCGDLSNALKCYSRARDYCTN---GKHV 217
            +      K  K   +++S+      L   Y D    + AL   ++             +
Sbjct: 82  CKDCIEWAKQEKRTFLRQSLEA---RLIALYFDTALYTEALALGAQLLRELKKLDDKNLL 138

Query: 218 VDMCLNVIRVSVYLQNWSHVLSYVNKAEATPDFAEGKDNNQAVFTKLKVAAGLAELATRK 277
           V++ L   +    L N     + +  A  T +        Q        +  L     R 
Sbjct: 139 VEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQGAL--DLQSGILHAADERD 196

Query: 278 YKTAARFFLQAHFDYCDFPELLSPNNIATYGGLCALATFDRSELEKQVIFSSGFKLFLEL 337
           +KTA  +F +A   +    + +       Y  LC +      ++ + V            
Sbjct: 197 FKTAFSYFYEAFEGFDSV-DSVKALTSLKYMLLCKIMLGQSDDVNQLVSGKLAITYSGRD 255

Query: 338 EPQLRDILVQFYNSKYATCLNLLAQIMDNLLLDMYIAPHVNTLYTQIRNRALIQYFSPYL 397
              ++ +    +    A     L +    L  D+ +  H+ TLY  +  + L +   PY 
Sbjct: 256 IDAMKSVAEASHKRSLADFQAALKEYKKELAEDVIVQAHLGTLYDTMLEQNLCRIIEPYS 315

Query: 398 SADLNKMSVAFNTTIQALENELMTLILDGQIQARIDSHNKILYAKQQDQRSTTFEKSLNV 457
              +  ++ +    +  +E +L  +ILD +    +D    +L   ++     T+E+ L  
Sbjct: 316 RVQVAHVAESIQLPMPQVEKKLSQMILDKKFSGILDQGEGVLIVFEETPVDKTYERVLET 375

Query: 458 GKEYARKSNMLILRSAMI 475
            +   +  + L  ++  +
Sbjct: 376 IQSMGKVVDTLYQKAKKL 393

PyMOL of 3txn

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A Length = 394	Back alignment and structure

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A Length = 394	Back alignment and structure

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A Length = 394	Back alignment and structure

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221	Back alignment and structure

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221	Back alignment and structure

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221	Back alignment and structure

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221	Back alignment and structure

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221	Back alignment and structure

>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant photosynthetic reaction center, peripheral antenna; HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1 Length = 154	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		971
4b4t_R		429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	100.0
3txn_A		394	26S proteasome regulatory complex subunit P42B; PC	100.0
4b4t_R		429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	100.0
4b4t_Q		434	26S proteasome regulatory subunit RPN6; hydrolase,	99.94
4b4t_P		445	26S proteasome regulatory subunit RPN5; hydrolase,	99.89
4b4t_O		393	26S proteasome regulatory subunit RPN9; hydrolase,	99.68
3txn_A		394	26S proteasome regulatory complex subunit P42B; PC	99.52
3t5x_A		203	PCI domain-containing protein 2; PCI, mRNA nuclear	99.24
1ufm_A		84	COP9 complex subunit 4; helix-turn-helix, structur	99.17
4b4t_S		523	RPN3, 26S proteasome regulatory subunit RPN3; hydr	99.12
3t5v_B		455	Nuclear mRNA export protein THP1; PCI, mRNA nuclea	98.84
4b4t_Q		434	26S proteasome regulatory subunit RPN6; hydrolase,	98.79
4b4t_P		445	26S proteasome regulatory subunit RPN5; hydrolase,	98.44
3chm_A		169	COP9 signalosome complex subunit 7; heat/ARM repea	97.78
4b4t_O		393	26S proteasome regulatory subunit RPN9; hydrolase,	97.45
1qqe_A		292	Vesicular transport protein SEC17; helix-turn-heli	97.18
4gco_A		126	Protein STI-1; structural genomics, PSI-biology, m	96.91
4gcn_A		127	Protein STI-1; structural genomics, PSI-biology, m	96.91
3ro3_A		164	PINS homolog, G-protein-signaling modulator 2; asy	96.88
3gw4_A		203	Uncharacterized protein; structural genomics, PSI-	96.84
4b0z_A		229	RPN12, 26S proteasome regulatory subunit RPN12; pr	96.66
1ufm_A		84	COP9 complex subunit 4; helix-turn-helix, structur	96.65
2ifu_A		307	Gamma-SNAP; membrane fusion, snare complex disasse	96.55
3ro2_A		338	PINS homolog, G-protein-signaling modulator 2; TPR	96.51
3ro2_A		338	PINS homolog, G-protein-signaling modulator 2; TPR	96.47
3ro3_A		164	PINS homolog, G-protein-signaling modulator 2; asy	96.37
3sf4_A		406	G-protein-signaling modulator 2; tetratricopeptide	96.37
3qky_A		261	Outer membrane assembly lipoprotein YFIO; membrane	96.33
3sf4_A		406	G-protein-signaling modulator 2; tetratricopeptide	96.28
2xev_A		129	YBGF; tetratricopeptide, alpha-helical, metal bind	96.15
3rkv_A		162	Putative peptidylprolyl isomerase; structural geno	96.14
1elr_A		131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	96.08
3vtx_A		184	MAMA; tetratricopeptide repeats (TPR) containing p	96.03
4a1s_A		411	PINS, partner of inscuteable; cell cycle, LGN, mit	95.96
3upv_A		126	Heat shock protein STI1; TPR-fold, adaptor protein	95.94
2dba_A		148	Smooth muscle cell associated protein-1, isoform 2	95.94
3nf1_A		311	KLC 1, kinesin light chain 1; TPR, structural geno	95.9
2ifu_A		307	Gamma-SNAP; membrane fusion, snare complex disasse	95.85
4ga2_A		150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	95.82
3edt_B		283	KLC 2, kinesin light chain 2; superhelical, struct	95.77
3uq3_A		258	Heat shock protein STI1; HSP90, peptide binding, c	95.77
1wi9_A		72	Protein C20ORF116 homolog; helix-turn-helix motif,	95.73
3gyz_A		151	Chaperone protein IPGC; asymmetric homodimer, tetr	95.72
3q49_B		137	STIP1 homology and U box-containing protein 1; E3	95.7
3ulq_A		383	Response regulator aspartate phosphatase F; tetrat	95.69
1elw_A		118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	95.68
4a1s_A		411	PINS, partner of inscuteable; cell cycle, LGN, mit	95.67
3u4t_A		272	TPR repeat-containing protein; structural genomics	95.65
3sz7_A		164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	95.65
3ulq_A		383	Response regulator aspartate phosphatase F; tetrat	95.64
3q15_A		378	PSP28, response regulator aspartate phosphatase H;	95.58
1qqe_A		292	Vesicular transport protein SEC17; helix-turn-heli	95.57
1a17_A		166	Serine/threonine protein phosphatase 5; hydrolase,	95.57
2lni_A		133	Stress-induced-phosphoprotein 1; structural genomi	95.56
2vyi_A		131	SGTA protein; chaperone, TPR repeat, phosphoprotei	95.52
2qfc_A		293	PLCR protein; TPR, HTH, transcription regulation;	95.5
3gw4_A		203	Uncharacterized protein; structural genomics, PSI-	95.46
3edt_B		283	KLC 2, kinesin light chain 2; superhelical, struct	95.4
4i17_A		228	Hypothetical protein; TPR repeats protein, structu	95.36
3ieg_A		359	DNAJ homolog subfamily C member 3; TPR motif, chap	95.32
2fbn_A		198	70 kDa peptidylprolyl isomerase, putative; sulfur	95.31
2ho1_A		252	Type 4 fimbrial biogenesis protein PILF; type IV p	95.2
2qfc_A		293	PLCR protein; TPR, HTH, transcription regulation;	95.19
2vq2_A		225	PILW, putative fimbrial biogenesis and twitching m	95.19
3u3w_A		293	Transcriptional activator PLCR protein; ternary co	95.16
3q15_A		378	PSP28, response regulator aspartate phosphatase H;	95.15
2fo7_A		136	Synthetic consensus TPR protein; tetratricopeptide	95.12
3nf1_A		311	KLC 1, kinesin light chain 1; TPR, structural geno	95.08
2vgx_A		148	Chaperone SYCD; alternative dimer assembly, tetrat	94.95
4g1t_A		472	Interferon-induced protein with tetratricopeptide	94.94
2c2l_A		281	CHIP, carboxy terminus of HSP70-interacting protei	94.93
2kck_A		112	TPR repeat; tetratricopeptide repeat, structural g	94.92
1na0_A		125	Designed protein CTPR3; de novo protein; HET: IPT;	94.88
2xcb_A		142	PCRH, regulatory protein PCRH; protein transport,	94.76
2ho1_A		252	Type 4 fimbrial biogenesis protein PILF; type IV p	94.71
3qky_A		261	Outer membrane assembly lipoprotein YFIO; membrane	94.69
2l6j_A		111	TPR repeat-containing protein associated with HSP;	94.65
3u3w_A		293	Transcriptional activator PLCR protein; ternary co	94.6
3uq3_A		258	Heat shock protein STI1; HSP90, peptide binding, c	94.51
4i17_A		228	Hypothetical protein; TPR repeats protein, structu	94.34
1hh8_A		213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	94.25
2fo7_A		136	Synthetic consensus TPR protein; tetratricopeptide	94.08
3u4t_A		272	TPR repeat-containing protein; structural genomics	93.98
3as5_A		186	MAMA; tetratricopeptide repeats (TPR) containing p	93.96
1kt0_A		457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	93.89
2q7f_A		243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	93.8
2e2e_A		177	Formate-dependent nitrite reductase complex NRFG;	93.69
2vq2_A		225	PILW, putative fimbrial biogenesis and twitching m	93.66
2hr2_A		159	Hypothetical protein; alpha-alpha superhelix fold,	93.65
2y4t_A		450	DNAJ homolog subfamily C member 3; chaperone, endo	93.63
1p5q_A		336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	93.61
3t5x_A		203	PCI domain-containing protein 2; PCI, mRNA nuclear	93.58
1xnf_A		275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	93.54
4abn_A		474	Tetratricopeptide repeat protein 5; P53 cofactor,	93.47
1a17_A		166	Serine/threonine protein phosphatase 5; hydrolase,	93.41
1hz4_A		373	MALT regulatory protein; two-helix bundles, helix	93.22
3hym_B		330	Cell division cycle protein 16 homolog; APC, anaph	93.2
3ieg_A		359	DNAJ homolog subfamily C member 3; TPR motif, chap	93.16
3as5_A		186	MAMA; tetratricopeptide repeats (TPR) containing p	93.09
1ihg_A		370	Cyclophilin 40; ppiase immunophilin tetratricopept	92.92
2q7f_A		243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	92.87
3vtx_A		184	MAMA; tetratricopeptide repeats (TPR) containing p	92.65
2gw1_A		514	Mitochondrial precursor proteins import receptor;	92.57
4gco_A		126	Protein STI-1; structural genomics, PSI-biology, m	92.57
3hym_B		330	Cell division cycle protein 16 homolog; APC, anaph	92.51
3cv0_A		327	Peroxisome targeting signal 1 receptor PEX5; TPR m	92.32
2yhc_A		225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	92.07
1hz4_A		373	MALT regulatory protein; two-helix bundles, helix	92.02
2xev_A		129	YBGF; tetratricopeptide, alpha-helical, metal bind	92.0
2if4_A		338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	91.97
2yhc_A		225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	91.91
1hxi_A		121	PEX5, peroxisome targeting signal 1 receptor PEX5;	91.84
1hh8_A		213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	91.65
2pl2_A		217	Hypothetical conserved protein TTC0263; TPR, prote	91.58
1fch_A		368	Peroxisomal targeting signal 1 receptor; protein-p	91.56
3urz_A		208	Uncharacterized protein; tetratricopeptide repeats	91.28
4eqf_A		365	PEX5-related protein; accessory protein, tetratric	91.21
2pl2_A		217	Hypothetical conserved protein TTC0263; TPR, prote	91.14
1fch_A		368	Peroxisomal targeting signal 1 receptor; protein-p	91.03
3cv0_A		327	Peroxisome targeting signal 1 receptor PEX5; TPR m	90.92
2gw1_A		514	Mitochondrial precursor proteins import receptor;	90.08
2y4t_A		450	DNAJ homolog subfamily C member 3; chaperone, endo	90.05
3fp2_A		537	TPR repeat-containing protein YHR117W; TOM71, mito	89.89
4eqf_A		365	PEX5-related protein; accessory protein, tetratric	89.45
4ga2_A		150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	89.27
4f3v_A		282	ESX-1 secretion system protein ECCA1; tetratricope	88.92
3n71_A		490	Histone lysine methyltransferase SMYD1; heart deve	88.89
2xpi_A		597	Anaphase-promoting complex subunit CUT9; cell cycl	88.81
4gyw_A		723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	88.72
4gcn_A		127	Protein STI-1; structural genomics, PSI-biology, m	88.66
1na3_A		91	Designed protein CTPR2; de novo protein; HET: IPT;	88.63
3k9i_A		117	BH0479 protein; putative protein binding protein,	88.61
3mkr_A		291	Coatomer subunit epsilon; tetratricopeptide repeat	88.55
1xnf_A		275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	88.44
3ma5_A		100	Tetratricopeptide repeat domain protein; NESG, str	88.25
2vyi_A		131	SGTA protein; chaperone, TPR repeat, phosphoprotei	88.18
3fp2_A		537	TPR repeat-containing protein YHR117W; TOM71, mito	87.94
1elr_A		131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	87.69
4b4t_T		274	26S proteasome regulatory subunit RPN12; hydrolase	87.52
1w3b_A		388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	87.18
4gyw_A		723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	87.16
2kck_A		112	TPR repeat; tetratricopeptide repeat, structural g	87.12
2v5f_A		104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	87.04
1rz4_A		226	Eukaryotic translation initiation factor 3 subuni;	86.96
3urz_A		208	Uncharacterized protein; tetratricopeptide repeats	86.86
2dba_A		148	Smooth muscle cell associated protein-1, isoform 2	86.7
1w3b_A		388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	86.58
1xn7_A		78	Hypothetical protein YHGG; alpha+beta, GFT structu	86.53
1ouv_A		273	Conserved hypothetical secreted protein; TPR repea	86.21
3k9i_A		117	BH0479 protein; putative protein binding protein,	86.14
2vsy_A		568	XCC0866; transferase, glycosyl transferase, GT-B,	85.92
2h6f_A		382	Protein farnesyltransferase/geranylgeranyltransfer	85.91
3mkr_A		291	Coatomer subunit epsilon; tetratricopeptide repeat	85.76
4abn_A		474	Tetratricopeptide repeat protein 5; P53 cofactor,	85.72
2kat_A		115	Uncharacterized protein; NESG, structure, structur	85.22
2lni_A		133	Stress-induced-phosphoprotein 1; structural genomi	84.96
3rkv_A		162	Putative peptidylprolyl isomerase; structural geno	84.68
2l6j_A		111	TPR repeat-containing protein associated with HSP;	84.51
1p5q_A		336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	84.5
1na3_A		91	Designed protein CTPR2; de novo protein; HET: IPT;	84.34
2k02_A		87	Ferrous iron transport protein C; FEOC, iron-sulfu	84.06
3upv_A		126	Heat shock protein STI1; TPR-fold, adaptor protein	83.31
1wao_1		477	Serine/threonine protein phosphatase 5; hydrolase,	83.3
3sz7_A		164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	82.68
1kt0_A		457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	82.62
1na0_A		125	Designed protein CTPR3; de novo protein; HET: IPT;	82.62
1elw_A		118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	82.18
2vsy_A		568	XCC0866; transferase, glycosyl transferase, GT-B,	81.99
2xcb_A		142	PCRH, regulatory protein PCRH; protein transport,	81.62
1xi4_A		1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	81.62
2jt1_A		77	PEFI protein; solution structure, winged helix-tur	81.51
3mv2_B		310	Coatomer subunit epsilon; vesicular membrane coat	81.12
2xpi_A		597	Anaphase-promoting complex subunit CUT9; cell cycl	81.1
3q49_B		137	STIP1 homology and U box-containing protein 1; E3	81.08
4b4t_S		523	RPN3, 26S proteasome regulatory subunit RPN3; hydr	81.06
3gyz_A		151	Chaperone protein IPGC; asymmetric homodimer, tetr	80.84
1ouv_A		273	Conserved hypothetical secreted protein; TPR repea	80.02
2pzi_A		681	Probable serine/threonine-protein kinase PKNG; ATP	80.01

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}	Back alignment and structure

Probab=100.00  E-value=3.3e-59  Score=535.06  Aligned_cols=372  Identities=19%  Similarity=0.287  Sum_probs=310.9

Q ss_pred             hchhHHHHHHHHHHHhhcChHHHHHHHHHHHHHhhhhHHHHHHHHHhhhccCCCcccccccccccccccCCCCCCccCCC
Q psy11733         56 IKHNICVKISIQYVMQTYNVNLYIQLHRKLSESLSSLKELFLVMFYLELYYFPHPIMENQLNFSFYLNSTGALPDVASSG  135 (971)
Q Consensus        56 ~~~~~al~~Ai~~~k~~~nv~~Y~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  135 (971)
                      .++.+|++..++.+|++.....|+.+++.+.....                .                  ...+..++..
T Consensus        41 ~~~~~~~~~l~~~ik~~~ma~~y~~l~~~l~~~~~----------------~------------------~~~~~~~~~~   86 (429)
T 4b4t_R           41 EQRKEAAEFVLAKIKEEEMAPYYKYLCEEYLVNNG----------------Q------------------SDLEHDEKSD   86 (429)
T ss_dssp             -CHHHHHHHHHHHHHHTCCHHHHHHHHHHSCCCCS----------------C------------------CSSCSHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhCCHHHHHHHHHHHhhccc----------------c------------------hhhhhhhhhh
Confidence            78999999999999999999999999875521100                0                  0000000000


Q ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhh-ccchHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhhcCC
Q psy11733        136 NMGPQDIPTLDPLLIETKNKKAAMKLEKLDNDLKNYKS-NSIKESIRRGHDDLGDHYLDCGDLSNALKCYSRARDYCTNG  214 (971)
Q Consensus       136 ~~g~~~~~~~D~~wie~~~~~n~~~le~Le~eLk~yk~-NliKeSIR~~~~dLg~~y~~iGDl~~Alk~y~r~Rdycts~  214 (971)
                      .  .....++|+.|++.+.++|+.++++|++.++.+++ |.++.++|+++.+||+||+++||+++|+++|.++|++|+++
T Consensus        87 ~--~~~~~~~d~~~~~~~~~~n~~~l~~l~~~~~~~~~~~~~e~e~~~~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~  164 (429)
T 4b4t_R           87 S--LNEWIKFDQELYNELCKKNESKIKELNEKIQKLEEDDEGELEQAQAWINLGEYYAQIGDKDNAEKTLGKSLSKAIST  164 (429)
T ss_dssp             H--HHHTTTTCCSSCTTTTCCSSCCHHHHHHHHHHHHHCCSCCCCCSSCCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCC
T ss_pred             h--hhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCh
Confidence            0  00135789999999999999999999999999977 66777799999999999999999999999999999999999


Q ss_pred             CchhhHHHHHHHHHHHhhcHHHHHHHHHHHhccCcccCCCCChhHHHHHHHHHHHHHHhhccCHHHHHHHHhhcccCCCC
Q psy11733        215 KHVVDMCLNVIRVSVYLQNWSHVLSYVNKAEATPDFAEGKDNNQAVFTKLKVAAGLAELATRKYKTAARFFLQAHFDYCD  294 (971)
Q Consensus       215 ~h~idm~l~lIrv~I~~~dw~~V~~~v~KAk~~id~~~d~~r~~~l~~kLk~~~GL~~L~~r~yk~AA~~FLea~f~~~~  294 (971)
                      +|+++++|++||++++.+||.+|..++.||+..++.+++|+    .++++++|.|++++..|+|++|+++|+++ +++|+
T Consensus       165 ~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~----~~~~lk~~~gl~~l~~r~f~~Aa~~f~e~-~~t~~  239 (429)
T 4b4t_R          165 GAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWE----RRNRYKTYYGIHCLAVRNFKEAAKLLVDS-LATFT  239 (429)
T ss_dssp             CSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTH----HHHHHHHHHHHGGGGTSCHHHHHHHHHHH-HHHSC
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHH----HHHHHHHHHHHHHHHhChHHHHHHHHHHH-hccCC
Confidence            99999999999999999999999999999999998888764    48999999999999999999999999998 78899


Q ss_pred             cccCCChhHHHHHHHHHhhhcCChHHHHHhccCChhhhhhhccchHHH---HHHHHHHhCCHHHHHHHH-HHHHHhcccc
Q psy11733        295 FPELLSPNNIATYGGLCALATFDRSELEKQVIFSSGFKLFLELEPQLR---DILVQFYNSKYATCLNLL-AQIMDNLLLD  370 (971)
Q Consensus       295 ~~ells~~Dva~Y~~LcaLaS~dR~eLK~kVlds~efr~~Le~eP~lr---~lI~aF~~~~Y~~~l~~L-~~~~~~LllD  370 (971)
                      +.+++++.++++|++||++++++|.+++.+|+++++|+.+++.+|+++   +++.+|++++|..|++.+ ..+...+..|
T Consensus       240 ~~e~~~~~~~~~y~~l~al~~~~r~~l~~~v~~~~~~~~~l~~~p~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~d  319 (429)
T 4b4t_R          240 SIELTSYESIATYASVTGLFTLERTDLKSKVIDSPELLSLISTTAALQSISSLTISLYASDYASYFPYLLETYANVLIPC  319 (429)
T ss_dssp             CSCHHHHHHHHHHHHHHHHHTTCHHHHHHSSSSSHHHHHGGGSHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHSTTTTTC
T ss_pred             ccchhhHHHHHHHHHHHHHhcCCHHHHHHHHhcCHHHHhhccCChhHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhccC
Confidence            999999999999999999999999999999999999999999988754   568999999999998865 5566789999


Q ss_pred             cchHHhHHHHHHHHHHHHHHHhccccceecHHhHHHHhCCChHHHHHHHHHHHHcCceeEEEcCCCCEEEEccCCCcchH
Q psy11733        371 MYIAPHVNTLYTQIRNRALIQYFSPYLSADLNKMSVAFNTTIQALENELMTLILDGQIQARIDSHNKILYAKQQDQRSTT  450 (971)
Q Consensus       371 ~yL~~Hv~~L~~~IR~kaliQYl~PYssV~L~~MA~aFgvsvd~lE~eLv~LI~dgrL~ARIDsvngiL~~~~~D~R~~~  450 (971)
                      +||++|++.|+++||.+++.||++||++|+|++||++||+|++++|++|++||.+|+|+||||+++|+|++++||+|+++
T Consensus       320 ~~l~~h~~~l~~~ir~~~l~q~~~~Ys~I~l~~mA~~l~~s~~~~E~~L~~lI~~g~l~akID~~~giv~~~~~d~~~~~  399 (429)
T 4b4t_R          320 KYLNRHADFFVREMRRKVYAQLLESYKTLSLKSMASAFGVSVAFLDNDLGKFIPNKQLNCVIDRVNGIVETNRPDNKNAQ  399 (429)
T ss_dssp             TTSTTTHHHHHHHHHHHHHHHHHHTCSEEEHHHHHHHHTSCHHHHHHHHHHHHHHTSSCEEEETTTTEEEECC-------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcCHHHHHHHHHHHHHcCCeEEEEcCCCCEEEECCCCchhHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHH
Q psy11733        451 FEKSLNVGKEYARKSNML  468 (971)
Q Consensus       451 yq~alk~gd~l~~~a~~l  468 (971)
                      |++++++||.++++.+.+
T Consensus       400 y~~~i~~gd~Ll~riqkl  417 (429)
T 4b4t_R          400 YHLLVKQGDGLLTKLQKY  417 (429)
T ss_dssp             ------------------
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            999999999999887765

PyMOL of 4b4t

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A	Back alignment and structure

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}	Back alignment and structure

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}	Back alignment and structure

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}	Back alignment and structure

>4b4t_O 26S proteasome regulatory subunit RPN9; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}	Back alignment and structure

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A	Back alignment and structure

>3t5x_A PCI domain-containing protein 2; PCI, mRNA nuclear export, transcription; 2.12A {Homo sapiens}	Back alignment and structure

>1ufm_A COP9 complex subunit 4; helix-turn-helix, structural genomics, riken structural genomics/proteomics initiative, RSGI, signaling protein; NMR {Mus musculus} SCOP: a.4.5.47	Back alignment and structure

>4b4t_S RPN3, 26S proteasome regulatory subunit RPN3; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}	Back alignment and structure

>3t5v_B Nuclear mRNA export protein THP1; PCI, mRNA nuclear export, mRNA, nuclear, transcription; 2.90A {Saccharomyces cerevisiae}	Back alignment and structure

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}	Back alignment and structure

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}	Back alignment and structure

>3chm_A COP9 signalosome complex subunit 7; heat/ARM repeats, winged helix motif, developmental protein, phosphoprotein; 1.50A {Arabidopsis thaliana}	Back alignment and structure

>4b4t_O 26S proteasome regulatory subunit RPN9; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}	Back alignment and structure

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1	Back alignment and structure

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}	Back alignment and structure

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}	Back alignment and structure

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}	Back alignment and structure

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}	Back alignment and structure

>4b0z_A RPN12, 26S proteasome regulatory subunit RPN12; protein binding, proteasome ubitquitin; HET: SGM GOL; 1.58A {Schizosaccharomyces pombe}	Back alignment and structure

>1ufm_A COP9 complex subunit 4; helix-turn-helix, structural genomics, riken structural genomics/proteomics initiative, RSGI, signaling protein; NMR {Mus musculus} SCOP: a.4.5.47	Back alignment and structure

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}	Back alignment and structure

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}	Back alignment and structure

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}	Back alignment and structure

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}	Back alignment and structure

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}	Back alignment and structure

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}	Back alignment and structure

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}	Back alignment and structure

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}	Back alignment and structure

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}	Back alignment and structure

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A	Back alignment and structure

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A	Back alignment and structure

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}	Back alignment and structure

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}	Back alignment and structure

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}	Back alignment and structure

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}	Back alignment and structure

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*	Back alignment and structure

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A	Back alignment and structure

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}	Back alignment and structure

>1wi9_A Protein C20ORF116 homolog; helix-turn-helix motif, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: a.4.5.47	Back alignment and structure

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A	Back alignment and structure

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*	Back alignment and structure

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}	Back alignment and structure

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1	Back alignment and structure

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}	Back alignment and structure

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}	Back alignment and structure

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}	Back alignment and structure

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}	Back alignment and structure

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}	Back alignment and structure

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1	Back alignment and structure

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A	Back alignment and structure

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}	Back alignment and structure

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1	Back alignment and structure

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}	Back alignment and structure

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}	Back alignment and structure

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A	Back alignment and structure

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}	Back alignment and structure

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}	Back alignment and structure

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1	Back alignment and structure

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A	Back alignment and structure

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}	Back alignment and structure

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}	Back alignment and structure

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A	Back alignment and structure

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}	Back alignment and structure

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A	Back alignment and structure

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}	Back alignment and structure

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*	Back alignment and structure

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}	Back alignment and structure

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2	Back alignment and structure

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}	Back alignment and structure

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A	Back alignment and structure

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A	Back alignment and structure

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A	Back alignment and structure

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}	Back alignment and structure

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}	Back alignment and structure

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A	Back alignment and structure

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}	Back alignment and structure

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}	Back alignment and structure

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*	Back alignment and structure

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A	Back alignment and structure

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}	Back alignment and structure

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A	Back alignment and structure

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A	Back alignment and structure

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1	Back alignment and structure

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}	Back alignment and structure

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}	Back alignment and structure

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8	Back alignment and structure

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A	Back alignment and structure

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A	Back alignment and structure

>3t5x_A PCI domain-containing protein 2; PCI, mRNA nuclear export, transcription; 2.12A {Homo sapiens}	Back alignment and structure

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1	Back alignment and structure

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}	Back alignment and structure

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A	Back alignment and structure

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2	Back alignment and structure

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}	Back alignment and structure

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}	Back alignment and structure

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A	Back alignment and structure

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A	Back alignment and structure

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1	Back alignment and structure

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A	Back alignment and structure

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}	Back alignment and structure

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}	Back alignment and structure

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}	Back alignment and structure

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A	Back alignment and structure

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A	Back alignment and structure

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2	Back alignment and structure

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}	Back alignment and structure

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}	Back alignment and structure

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A	Back alignment and structure

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1	Back alignment and structure

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*	Back alignment and structure

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}	Back alignment and structure

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A	Back alignment and structure

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}	Back alignment and structure

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}	Back alignment and structure

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}	Back alignment and structure

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A	Back alignment and structure

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A	Back alignment and structure

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}	Back alignment and structure

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A	Back alignment and structure

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A	Back alignment and structure

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}	Back alignment and structure

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*	Back alignment and structure

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}	Back alignment and structure

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}	Back alignment and structure

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}	Back alignment and structure

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*	Back alignment and structure

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}	Back alignment and structure

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A	Back alignment and structure

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}	Back alignment and structure

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}	Back alignment and structure

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1	Back alignment and structure

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A	Back alignment and structure

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1	Back alignment and structure

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A	Back alignment and structure

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A	Back alignment and structure

>4b4t_T 26S proteasome regulatory subunit RPN12; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}	Back alignment and structure

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1	Back alignment and structure

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*	Back alignment and structure

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}	Back alignment and structure

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A	Back alignment and structure

>1rz4_A Eukaryotic translation initiation factor 3 subuni; heat analogous motif, winged-helix, biosynthetic protein; 2.10A {Homo sapiens} SCOP: a.4.5.53 a.118.1.18	Back alignment and structure

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}	Back alignment and structure

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1	Back alignment and structure

>1xn7_A Hypothetical protein YHGG; alpha+beta, GFT structural genomics, protein structure initiative, PSI, NESG; NMR {Escherichia coli} SCOP: a.4.5.62	Back alignment and structure

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1	Back alignment and structure

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}	Back alignment and structure

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*	Back alignment and structure

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Back alignment and structure

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}	Back alignment and structure

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}	Back alignment and structure

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}	Back alignment and structure

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}	Back alignment and structure

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}	Back alignment and structure

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}	Back alignment and structure

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A	Back alignment and structure

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A	Back alignment and structure

>2k02_A Ferrous iron transport protein C; FEOC, iron-sulfur, metal-binding, metal binding protein; NMR {Klebsiella pneumoniae subsp}	Back alignment and structure

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}	Back alignment and structure

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3	Back alignment and structure

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}	Back alignment and structure

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A	Back alignment and structure

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A	Back alignment and structure

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1	Back alignment and structure

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*	Back alignment and structure

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A	Back alignment and structure

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A	Back alignment and structure

>2jt1_A PEFI protein; solution structure, winged helix-turn-helix, transcripti regulatory protein, structural genomics, PSI-2; NMR {Salmonella typhimurium LT2}	Back alignment and structure

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B	Back alignment and structure

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}	Back alignment and structure

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*	Back alignment and structure

>4b4t_S RPN3, 26S proteasome regulatory subunit RPN3; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}	Back alignment and structure

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A	Back alignment and structure

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1	Back alignment and structure

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}	Back alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Alignment Graph	Length	Definition	E-value
Query		971
d1ufma_		84	a.4.5.47 (A:) COP9 signalosome complex subunit 4,	3e-09

>d1ufma_ a.4.5.47 (A:) COP9 signalosome complex subunit 4, GSN4 {Mouse (Mus musculus) [TaxId: 10090]} Length = 84	Back information, alignment and structure


class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: PCI domain (PINT motif)
domain: COP9 signalosome complex subunit 4, GSN4
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 52.5 bits (126), Expect = 3e-09
 Identities = 9/78 (11%), Positives = 27/78 (34%)

Query: 374 APHVNTLYTQIRNRALIQYFSPYLSADLNKMSVAFNTTIQALENELMTLILDGQIQARID 433
           +   + L   +    L+     Y +    ++           E     +I +G++   ID
Sbjct: 6   SGGSSILDRAVIEHNLLSASKLYNNITFEELGALLEIPAAKAEKIASQMITEGRMNGFID 65

Query: 434 SHNKILYAKQQDQRSTTF 451
             + I++ + ++    + 
Sbjct: 66  QIDGIVHFETREASGPSS 83

PyMOL of d1ufma_

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Alignment Graph	Length	Definition	Probability
Query		971
d1ufma_		84	COP9 signalosome complex subunit 4, GSN4 {Mouse (M	99.12
d1qqea_		290	Vesicular transport protein sec17 {Baker's yeast (	97.51
d1elra_		128	Hop {Human (Homo sapiens) [TaxId: 9606]}	96.61
d1ufma_		84	COP9 signalosome complex subunit 4, GSN4 {Mouse (M	95.95
d1xnfa_		259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	95.72
d1w3ba_		388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	95.63
d1a17a_		159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	95.24
d2c2la1		201	STIP1 homology and U box-containing protein 1, STU	95.0
d1kt1a1		168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	94.89
d1wi9a_		72	Hypothetical protein C20orf116 homolog {Mouse (Mus	94.86
d2hr2a1		156	Hypothetical protein CT2138 {Chlorobium tepidum [T	94.82
d1elwa_		117	Hop {Human (Homo sapiens) [TaxId: 9606]}	94.45
d2fbna1		153	Putative 70 kda peptidylprolyl isomerase PFL2275c	94.34
d1p5qa1		170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	94.3
d1hxia_		112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	93.91
d1qqea_		290	Vesicular transport protein sec17 {Baker's yeast (	93.6
d1ihga1		169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	92.97
d1fcha_		323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	92.64
d1hh8a_		192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	91.32
d1a17a_		159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	90.27
d1w3ba_		388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	89.92
d1hh8a_		192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	89.69
d1tjca_		95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	89.33
d1fcha_		323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	89.32
d1hz4a_		366	Transcription factor MalT domain III {Escherichia	88.54
d1elra_		128	Hop {Human (Homo sapiens) [TaxId: 9606]}	86.99
d2ff4a2		179	Probable regulatory protein EmbR, middle domain {M	86.95
d1nzna_		122	Mitochondria fission protein Fis1 {Human (Homo sap	84.42
d2c2la1		201	STIP1 homology and U box-containing protein 1, STU	83.59
d1kt1a1		168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	83.1
d1hxia_		112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	82.97
d2hs5a1		69	Putative transcriptional regulator RHA1_ro03477 {R	82.82
d3bwga1		78	Transcriptional regulator YydK {Bacillus subtilis	82.48
d1xnfa_		259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	81.45
d1elwa_		117	Hop {Human (Homo sapiens) [TaxId: 9606]}	81.18
d2ff4a2		179	Probable regulatory protein EmbR, middle domain {M	80.95

>d1ufma_ a.4.5.47 (A:) COP9 signalosome complex subunit 4, GSN4 {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: PCI domain (PINT motif)
domain: COP9 signalosome complex subunit 4, GSN4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.12  E-value=3.6e-11  Score=106.28  Aligned_cols=67  Identities=13%  Similarity=0.219  Sum_probs=63.0

Q ss_pred             HHHHHHHHHHHHhccccceecHHhHHHHhCCChHHHHHHHHHHHHcCceeEEEcCCCCEEEEccCCC
Q psy11733        380 LYTQIRNRALIQYFSPYLSADLNKMSVAFNTTIQALENELMTLILDGQIQARIDSHNKILYAKQQDQ  446 (971)
Q Consensus       380 L~~~IR~kaliQYl~PYssV~L~~MA~aFgvsvd~lE~eLv~LI~dgrL~ARIDsvngiL~~~~~D~  446 (971)
                      |++.++...+..+-+||++|+|+.||+.|+++++++|.+|++||.+|+|+||||+++|+|+..+++.
T Consensus        12 L~~~i~Ehni~~is~~Y~~Isl~~la~~l~l~~~evE~~l~~mI~~~~i~akIDq~~g~V~F~~~e~   78 (84)
T d1ufma_          12 LDRAVIEHNLLSASKLYNNITFEELGALLEIPAAKAEKIASQMITEGRMNGFIDQIDGIVHFETREA   78 (84)
T ss_dssp             CCHHHHHHHHHHHHHSCSEEEHHHHHHHTTSCHHHHHHHHHHHHHTTSSCEEEETTTTEEEECCSSC
T ss_pred             HHHHHHHHHHHHHHHhhceeeHHHHHHHHCCCHHHHHHHHHHHHhcCeEEEEEeCCCCEEEECCCCc
Confidence            5678899999999999999999999999999999999999999999999999999999999877643

PyMOL of d1ufma_

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}	Back information, alignment and structure

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1ufma_ a.4.5.47 (A:) COP9 signalosome complex subunit 4, GSN4 {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}	Back information, alignment and structure

>d1wi9a_ a.4.5.47 (A:) Hypothetical protein C20orf116 homolog {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}	Back information, alignment and structure

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}	Back information, alignment and structure

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}	Back information, alignment and structure

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}	Back information, alignment and structure

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	Back information, alignment and structure

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}	Back information, alignment and structure

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}	Back information, alignment and structure

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}	Back information, alignment and structure

>d2hs5a1 a.4.5.6 (A:25-93) Putative transcriptional regulator RHA1_ro03477 {Rhodococcus sp. RHA1 [TaxId: 101510]}	Back information, alignment and structure

>d3bwga1 a.4.5.6 (A:5-82) Transcriptional regulator YydK {Bacillus subtilis [TaxId: 1423]}	Back information, alignment and structure

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}	Back information, alignment and structure