Psyllid ID: psy4542

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Local Sequence Feature Prediction

Residue Number Marker
--------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---
Protein Sequence
MSLNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSIKQGAVQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQFETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLLTSL
Secondary Structure (PSIPRED)
cccccEEEEEcHHHHHHHHHHHHccccccEEEEEEEEEEEccEEEEEEEEEcccccccccHHHHHHHHHHHHHHHHHcccccccEEEEccccccccccHHHHHHHHHHccccEEEEEEcccccccccccEEEEEEccccccccccEEEEEccEEEEcccHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccc
Secondary Structure Prediction (SSPRO)
cccccEEEEEEEEEEEEEcccccccccccEEEEEEEEEccccEEEEEEcEEEccccccccEEEcHHHHHHHHHHHHHcccccEEEEEEcccccccHcHHHHHHHHHHHccccEEEEEEcccccccccEEEEEEEEEcccccccEEEEEEccEEEEEccHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccc
Coil and Loop (DISEMBL)
mslnvsikVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVtncfcvphkeYDEMVEAELNYAQDMFEmnqkvnpselIVGWWatgdevtsqssvihdyyirecknpvhmtldtnlkgpnmgikgyvhvpigvpggksgimftQIPAEVICYNSEVTGLRLLHKSIKqgavqplseltlVSEAADKLTVLIDHVLRYVDEVLanritpdnsigRQLLDmvnsvpsmtQEQFETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLLTSL
Flexible Loop (DISEMBL)
mslnvsikvhpVVLFQIVDAFERRNLDSHRVIGTllgtvdkgvvEVTNCFCVPHKEYDEMVEAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSIKQGAVQPLSELTLVSEAADKLTVLIDHVLRYVDEVLanritpdnsigrQLLDMVNSVPSMTQEQFETMFNSNIKDLLMIMTLSQLTKtqlllnekltlltsl
Low Complexity Region (SEG)
MSLNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSIKQGAVQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQFETMFNSNIKDLLMIMtlsqltktqlllnekltlltsl
Disordered region (IsUnstruct)
****VSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSIKQGAVQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQFETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTL****
Disordered Region (DISOPRED)
***NVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSIKQGAVQPL***TLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQFETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLLTSL
Disordered Region (DISEMBL)
MSLNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSIKQGAVQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQFETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLLTSL
Disordered Region (DISPRO)
**LNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSIKQGAVQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQFETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLLTS*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSLNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSIKQGAVQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQFETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLLTSL
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	273	2.2.26 [Sep-21-2011]
B4NJR8	280	Eukaryotic translation in	N/A	N/A	0.992	0.967	0.628	1e-105
B4JGX4	280	Eukaryotic translation in	N/A	N/A	0.992	0.967	0.624	1e-105
B3M123	280	Eukaryotic translation in	N/A	N/A	0.992	0.967	0.620	1e-105
B4LZ60	280	Eukaryotic translation in	N/A	N/A	0.992	0.967	0.620	1e-105
B4KBI4	280	Eukaryotic translation in	N/A	N/A	0.981	0.957	0.627	1e-105
B4PUG5	280	Eukaryotic translation in	N/A	N/A	0.992	0.967	0.617	1e-104
B4QVL3	280	Eukaryotic translation in	N/A	N/A	0.992	0.967	0.617	1e-104
B4I3S1	280	Eukaryotic translation in	N/A	N/A	0.992	0.967	0.617	1e-104
Q9VN50	280	Eukaryotic translation in	yes	N/A	0.992	0.967	0.617	1e-104
B3P239	280	Eukaryotic translation in	N/A	N/A	0.992	0.967	0.617	1e-104

>sp|B4NJR8|EI3F1_DROWI Eukaryotic translation initiation factor 3 subunit F-1 OS=Drosophila willistoni GN=eIF3-S5-1 PE=3 SV=1

 Score =  382 bits (982), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 174/277 (62%), Positives = 229/277 (82%), Gaps = 6/277 (2%)

Query: 2   SLNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMV 61
           +LN++++VHPVVLFQ+VDAFERRN DSHRVIGTLLG+VDKGVVEVTNCFCVPHKE+D+ V
Sbjct: 3   ALNLTVRVHPVVLFQVVDAFERRNADSHRVIGTLLGSVDKGVVEVTNCFCVPHKEHDDQV 62

Query: 62  EAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNL 121
           EAEL+YA DM+E+N+KVN +E +VGWWATG+EVT+ SSVIH+YY REC NPVH+T+DT+L
Sbjct: 63  EAELSYALDMYELNRKVNSNESVVGWWATGNEVTNHSSVIHEYYARECNNPVHVTVDTSL 122

Query: 122 KGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSI------KQGA 175
           +G  MG++ YV + +GVPGGKSG MFT IP E+  Y  E  GL+LL K++      +   
Sbjct: 123 QGGRMGLRAYVCIQLGVPGGKSGCMFTPIPVELTSYEPETFGLKLLQKTVGVSPAHRPKT 182

Query: 176 VQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQ 235
           V P+ +L  +SEA+ KL  L+D +L+YVD+V+A+++TPDN++GRQLLD++++VP MT EQ
Sbjct: 183 VPPMLDLAQISEASTKLQSLLDLILKYVDDVIAHKVTPDNAVGRQLLDLIHAVPHMTHEQ 242

Query: 236 FETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLLTS 272
           F  MFN+N++DLLM++TLSQL KTQL LNEKLT L +
Sbjct: 243 FTQMFNANVRDLLMVITLSQLIKTQLQLNEKLTFLPT 279

Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is involved in protein synthesis and, together with other initiation factors, stimulates binding of mRNA and methionyl-tRNAi to the 40S ribosome.
Drosophila willistoni (taxid: 7260)

>sp|B4JGX4|EI3F1_DROGR Eukaryotic translation initiation factor 3 subunit F-1 OS=Drosophila grimshawi GN=eIF3-S5-1 PE=3 SV=1

 Score =  382 bits (981), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 173/277 (62%), Positives = 229/277 (82%), Gaps = 6/277 (2%)

Query: 2   SLNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMV 61
           +LN++++VHPVVLFQ+VDAFERRN DSHRVIGTLLG+VDKGVVEVTNCFCVPHKE+D+ V
Sbjct: 3   ALNLTVRVHPVVLFQVVDAFERRNADSHRVIGTLLGSVDKGVVEVTNCFCVPHKEHDDQV 62

Query: 62  EAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNL 121
           EAEL+YA DM+++N+KVN +E +VGWWATG+EVT+ SSVIH+YY REC NPVH+T+DT+L
Sbjct: 63  EAELSYALDMYDLNRKVNSNESVVGWWATGNEVTNHSSVIHEYYARECNNPVHLTVDTSL 122

Query: 122 KGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSI------KQGA 175
           +G  MG++ YV + +GVPGGK+G MFT IP E+  Y  E  GL+LL K++      +   
Sbjct: 123 QGGRMGLRAYVCIQLGVPGGKTGCMFTPIPVELTSYEPETFGLKLLQKTVGVSPAQRPKT 182

Query: 176 VQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQ 235
           V P+ +L  +SEA+ KL  L+D +L+YVD+V+A+++TPDN++GRQLLD+++SVP MT EQ
Sbjct: 183 VPPMLDLAQISEASQKLQSLLDLILKYVDDVIAHKVTPDNAVGRQLLDLIHSVPHMTHEQ 242

Query: 236 FETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLLTS 272
           F  MFN+N++DLLM++TLSQL KTQL LNEKLT L +
Sbjct: 243 FTQMFNANVRDLLMVITLSQLIKTQLQLNEKLTFLPT 279

Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is involved in protein synthesis and, together with other initiation factors, stimulates binding of mRNA and methionyl-tRNAi to the 40S ribosome.

Drosophila grimshawi (taxid: 7222)

>sp|B3M123|EI3F1_DROAN Eukaryotic translation initiation factor 3 subunit F-1 OS=Drosophila ananassae GN=eIF3-S5-1 PE=3 SV=1

 Score =  381 bits (978), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 172/277 (62%), Positives = 230/277 (83%), Gaps = 6/277 (2%)

Query: 2   SLNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMV 61
           +LN++++VHPVVLFQ+VDA+ERRN DSHRVIGTLLG+VDKGVVEVTNCFCVPHKE+D+ V
Sbjct: 3   ALNLTVRVHPVVLFQVVDAYERRNADSHRVIGTLLGSVDKGVVEVTNCFCVPHKEHDDQV 62

Query: 62  EAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNL 121
           EAEL+YA DM+++N+KVNP+E +VGWWATG++VT+ SSVIH+YY REC NPVH+T+DT+L
Sbjct: 63  EAELSYALDMYDLNRKVNPNESVVGWWATGNDVTNHSSVIHEYYARECNNPVHLTVDTSL 122

Query: 122 KGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSI------KQGA 175
           +G  MG++ YV + +GVPGGKSG MFT IP E+  Y  E  GL+LL K++      +   
Sbjct: 123 QGGRMGLRAYVCIQLGVPGGKSGCMFTPIPVELTSYEPETFGLKLLQKTVGVSPAHRPKT 182

Query: 176 VQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQ 235
           V P+ +L  +SEA+ KL  L+D +L+YVD+V+A+++TPDN++GRQLLD+++SVP MT EQ
Sbjct: 183 VPPMLDLAQISEASQKLQQLLDLILKYVDDVIAHKVTPDNAVGRQLLDLIHSVPHMTHEQ 242

Query: 236 FETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLLTS 272
           F  MFN+N+++LL+++TLSQL KTQL LNEKLT L S
Sbjct: 243 FTQMFNANVRNLLLVITLSQLIKTQLQLNEKLTFLPS 279

Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is involved in protein synthesis and, together with other initiation factors, stimulates binding of mRNA and methionyl-tRNAi to the 40S ribosome.

Drosophila ananassae (taxid: 7217)

>sp|B4LZ60|EI3F1_DROVI Eukaryotic translation initiation factor 3 subunit F-1 OS=Drosophila virilis GN=eIF3-S5-1 PE=3 SV=1

 Score =  380 bits (976), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 172/277 (62%), Positives = 229/277 (82%), Gaps = 6/277 (2%)

Query: 2   SLNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMV 61
           +LN++++VHPVVLFQ+VDAFERRN DSHRVIGTLLG+VDKGVVEVTNCFCVPHKE+D+ V
Sbjct: 3   ALNLTVRVHPVVLFQVVDAFERRNADSHRVIGTLLGSVDKGVVEVTNCFCVPHKEHDDQV 62

Query: 62  EAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNL 121
           EAEL+YA DM+++N+KVN +E +VGWWATG+EVT+ SSVIH+YY REC NPVH+T+DT+L
Sbjct: 63  EAELSYALDMYDLNRKVNANESVVGWWATGNEVTNHSSVIHEYYARECNNPVHLTVDTSL 122

Query: 122 KGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSI------KQGA 175
           +G  MG++ YV + +GVPGGK+G MFT IP E+  Y  E  GL+LL K++      +   
Sbjct: 123 QGGRMGLRAYVCIQLGVPGGKTGCMFTPIPVELTSYEPETFGLKLLQKTVGVSPAHRPKT 182

Query: 176 VQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQ 235
           V P+ +L  +SEA+ KL  L++ +L+YVD+V+A+++TPDN++GRQLLD+++SVP MT EQ
Sbjct: 183 VPPMLDLAQISEASTKLQSLLELILKYVDDVIAHKVTPDNAVGRQLLDLIHSVPHMTHEQ 242

Query: 236 FETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLLTS 272
           F  MFN+N++DLLM++TLSQL KTQL LNEKLT L +
Sbjct: 243 FTQMFNANVRDLLMVITLSQLIKTQLQLNEKLTFLPT 279

Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is involved in protein synthesis and, together with other initiation factors, stimulates binding of mRNA and methionyl-tRNAi to the 40S ribosome.

Drosophila virilis (taxid: 7244)

>sp|B4KBI4|EI3F1_DROMO Eukaryotic translation initiation factor 3 subunit F-1 OS=Drosophila mojavensis GN=eIF3-S5-1 PE=3 SV=1

 Score =  380 bits (975), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 172/274 (62%), Positives = 226/274 (82%), Gaps = 6/274 (2%)

Query: 3   LNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVE 62
           LN++++VHPVVLFQ+VDAFERRN DSHRVIGTLLG+VDKGVVEVTNCFCVPHKE+D+ VE
Sbjct: 4   LNLTVRVHPVVLFQVVDAFERRNADSHRVIGTLLGSVDKGVVEVTNCFCVPHKEHDDQVE 63

Query: 63  AELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNLK 122
           AEL+YA DM+++N+KVN +E +VGWWATG+EVT+ SSVIH+YY REC NPVH+T+DT+L+
Sbjct: 64  AELSYALDMYDLNRKVNANENVVGWWATGNEVTNHSSVIHEYYARECNNPVHLTVDTSLQ 123

Query: 123 GPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSI------KQGAV 176
              MG++ Y+ + +GVPGGK+G MFT IP E+  Y  E  GL+LL K++      +   V
Sbjct: 124 SGRMGLRAYICIQLGVPGGKTGCMFTPIPVELTSYEPETFGLKLLQKTVTVSPAHRPKTV 183

Query: 177 QPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQF 236
            P+ +L  +SEAA KL  L+D +L+YVD+V+A+++TPDN++GRQLLD+++SVP MT EQF
Sbjct: 184 APMLDLAQISEAATKLQSLLDLILKYVDDVIAHKVTPDNAVGRQLLDLIHSVPHMTHEQF 243

Query: 237 ETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLL 270
             MFN+N++DLLM++TLSQL KTQL LNEKLT L
Sbjct: 244 TQMFNANVRDLLMVITLSQLIKTQLQLNEKLTFL 277

Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is involved in protein synthesis and, together with other initiation factors, stimulates binding of mRNA and methionyl-tRNAi to the 40S ribosome.

Drosophila mojavensis (taxid: 7230)

>sp|B4PUG5|EI3F1_DROYA Eukaryotic translation initiation factor 3 subunit F-1 OS=Drosophila yakuba GN=eIF3-S5-1 PE=3 SV=1

 Score =  378 bits (971), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 171/277 (61%), Positives = 229/277 (82%), Gaps = 6/277 (2%)

Query: 2   SLNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMV 61
           +LN++++VHPVVLFQ+VDAFERRN DSHRVIGTLLG+VDKGVVEVTNCFCVPHKE+D+ V
Sbjct: 3   ALNLTVRVHPVVLFQVVDAFERRNADSHRVIGTLLGSVDKGVVEVTNCFCVPHKEHDDQV 62

Query: 62  EAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNL 121
           EAEL+YA DM+++N+KVN +E +VGWWATG++VT+ SSVIH+YY REC NPVH+T+DT+L
Sbjct: 63  EAELSYALDMYDLNRKVNSNESVVGWWATGNDVTNHSSVIHEYYARECNNPVHLTVDTSL 122

Query: 122 KGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSI------KQGA 175
           +G  MG++ YV + +GVPGGKSG MFT IP E+  Y  E  GL+LL K++      +   
Sbjct: 123 QGGRMGLRAYVCIQLGVPGGKSGCMFTPIPVELTSYEPETFGLKLLQKTVGVSPAHRPKT 182

Query: 176 VQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQ 235
           V P+ +L  +SEA+ KL  L+D +L+YVD+V+A+++TPDN++GRQLLD+++SVP MT EQ
Sbjct: 183 VPPMLDLAQISEASTKLQSLLDLILKYVDDVIAHKVTPDNAVGRQLLDLIHSVPHMTHEQ 242

Query: 236 FETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLLTS 272
           F  MFN+N+++LL+++TLSQL KTQL LNEKLT L +
Sbjct: 243 FTQMFNANVRNLLLVITLSQLIKTQLQLNEKLTFLPA 279

Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is involved in protein synthesis and, together with other initiation factors, stimulates binding of mRNA and methionyl-tRNAi to the 40S ribosome.

Drosophila yakuba (taxid: 7245)

>sp|B4QVL3|EI3F1_DROSI Eukaryotic translation initiation factor 3 subunit F-1 OS=Drosophila simulans GN=eIF3-S5-1 PE=3 SV=1

 Score =  378 bits (970), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 171/277 (61%), Positives = 229/277 (82%), Gaps = 6/277 (2%)

Query: 2   SLNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMV 61
           +LN++++VHPVVLFQ+VDAFERRN DSHRVIGTLLG+VDKGVVEVTNCFCVPHKE+D+ V
Sbjct: 3   ALNLTVRVHPVVLFQVVDAFERRNADSHRVIGTLLGSVDKGVVEVTNCFCVPHKEHDDQV 62

Query: 62  EAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNL 121
           EAEL+YA DM+++N+KVN +E +VGWWATG++VT+ SSVIH+YY REC NPVH+T+DT+L
Sbjct: 63  EAELSYALDMYDLNRKVNSNESVVGWWATGNDVTNHSSVIHEYYARECNNPVHLTVDTSL 122

Query: 122 KGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSI------KQGA 175
           +G  MG++ YV + +GVPGGKSG MFT IP E+  Y  E  GL+LL K++      +   
Sbjct: 123 QGGRMGLRAYVCIQLGVPGGKSGCMFTPIPVELTSYEPETFGLKLLQKTVGVSPAHRPKT 182

Query: 176 VQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQ 235
           V P+ +L  +SEA+ KL  L+D +L+YVD+V+A+++TPDN++GRQLLD+++SVP MT EQ
Sbjct: 183 VPPMLDLAQISEASTKLQSLLDLILKYVDDVIAHKVTPDNAVGRQLLDLIHSVPHMTHEQ 242

Query: 236 FETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLLTS 272
           F  MFN+N+++LL+++TLSQL KTQL LNEKLT L +
Sbjct: 243 FTQMFNANVRNLLLVITLSQLIKTQLQLNEKLTFLPT 279

Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is involved in protein synthesis and, together with other initiation factors, stimulates binding of mRNA and methionyl-tRNAi to the 40S ribosome.

Drosophila simulans (taxid: 7240)

>sp|B4I3S1|EI3F1_DROSE Eukaryotic translation initiation factor 3 subunit F-1 OS=Drosophila sechellia GN=eIF3-S5-1 PE=3 SV=1

 Score =  378 bits (970), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 171/277 (61%), Positives = 229/277 (82%), Gaps = 6/277 (2%)

Query: 2   SLNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMV 61
           +LN++++VHPVVLFQ+VDAFERRN DSHRVIGTLLG+VDKGVVEVTNCFCVPHKE+D+ V
Sbjct: 3   ALNLTVRVHPVVLFQVVDAFERRNADSHRVIGTLLGSVDKGVVEVTNCFCVPHKEHDDQV 62

Query: 62  EAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNL 121
           EAEL+YA DM+++N+KVN +E +VGWWATG++VT+ SSVIH+YY REC NPVH+T+DT+L
Sbjct: 63  EAELSYALDMYDLNRKVNSNESVVGWWATGNDVTNHSSVIHEYYARECNNPVHLTVDTSL 122

Query: 122 KGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSI------KQGA 175
           +G  MG++ YV + +GVPGGKSG MFT IP E+  Y  E  GL+LL K++      +   
Sbjct: 123 QGGRMGLRAYVCIQLGVPGGKSGCMFTPIPVELTSYEPETFGLKLLQKTVGVSPAHRPKT 182

Query: 176 VQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQ 235
           V P+ +L  +SEA+ KL  L+D +L+YVD+V+A+++TPDN++GRQLLD+++SVP MT EQ
Sbjct: 183 VPPMLDLAQISEASTKLQSLLDLILKYVDDVIAHKVTPDNAVGRQLLDLIHSVPHMTHEQ 242

Query: 236 FETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLLTS 272
           F  MFN+N+++LL+++TLSQL KTQL LNEKLT L +
Sbjct: 243 FTQMFNANVRNLLLVITLSQLIKTQLQLNEKLTFLPT 279

Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is involved in protein synthesis and, together with other initiation factors, stimulates binding of mRNA and methionyl-tRNAi to the 40S ribosome.

Drosophila sechellia (taxid: 7238)

>sp|Q9VN50|EI3F1_DROME Eukaryotic translation initiation factor 3 subunit F-1 OS=Drosophila melanogaster GN=eIF3-S5-1 PE=2 SV=1

 Score =  378 bits (970), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 171/277 (61%), Positives = 229/277 (82%), Gaps = 6/277 (2%)

Query: 2   SLNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMV 61
           +LN++++VHPVVLFQ+VDAFERRN DSHRVIGTLLG+VDKGVVEVTNCFCVPHKE+D+ V
Sbjct: 3   ALNLTVRVHPVVLFQVVDAFERRNADSHRVIGTLLGSVDKGVVEVTNCFCVPHKEHDDQV 62

Query: 62  EAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNL 121
           EAEL+YA DM+++N+KVN +E +VGWWATG++VT+ SSVIH+YY REC NPVH+T+DT+L
Sbjct: 63  EAELSYALDMYDLNRKVNSNESVVGWWATGNDVTNHSSVIHEYYARECNNPVHLTVDTSL 122

Query: 122 KGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSI------KQGA 175
           +G  MG++ YV + +GVPGGKSG MFT IP E+  Y  E  GL+LL K++      +   
Sbjct: 123 QGGRMGLRAYVCIQLGVPGGKSGCMFTPIPVELTSYEPETFGLKLLQKTVGVSPAHRPKT 182

Query: 176 VQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQ 235
           V P+ +L  +SEA+ KL  L+D +L+YVD+V+A+++TPDN++GRQLLD+++SVP MT EQ
Sbjct: 183 VPPMLDLAQISEASTKLQSLLDLILKYVDDVIAHKVTPDNAVGRQLLDLIHSVPHMTHEQ 242

Query: 236 FETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLLTS 272
           F  MFN+N+++LL+++TLSQL KTQL LNEKLT L +
Sbjct: 243 FTQMFNANVRNLLLVITLSQLIKTQLQLNEKLTFLPT 279

Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is involved in protein synthesis and, together with other initiation factors, stimulates binding of mRNA and methionyl-tRNAi to the 40S ribosome.

Drosophila melanogaster (taxid: 7227)

>sp|B3P239|EI3F1_DROER Eukaryotic translation initiation factor 3 subunit F-1 OS=Drosophila erecta GN=eIF3-S5-1 PE=3 SV=1

 Score =  378 bits (970), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 171/277 (61%), Positives = 229/277 (82%), Gaps = 6/277 (2%)

Query: 2   SLNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMV 61
           +LN++++VHPVVLFQ+VDAFERRN DSHRVIGTLLG+VDKGVVEVTNCFCVPHKE+D+ V
Sbjct: 3   ALNLTVRVHPVVLFQVVDAFERRNADSHRVIGTLLGSVDKGVVEVTNCFCVPHKEHDDQV 62

Query: 62  EAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNL 121
           EAEL+YA DM+++N+KVN +E +VGWWATG++VT+ SSVIH+YY REC NPVH+T+DT+L
Sbjct: 63  EAELSYALDMYDLNRKVNSNESVVGWWATGNDVTNHSSVIHEYYARECNNPVHLTVDTSL 122

Query: 122 KGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSI------KQGA 175
           +G  MG++ YV + +GVPGGKSG MFT IP E+  Y  E  GL+LL K++      +   
Sbjct: 123 QGGRMGLRAYVCIQLGVPGGKSGCMFTPIPVELTSYEPETFGLKLLQKTVGVSPAHRPKT 182

Query: 176 VQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQ 235
           V P+ +L  +SEA+ KL  L+D +L+YVD+V+A+++TPDN++GRQLLD+++SVP MT EQ
Sbjct: 183 VPPMLDLAQISEASTKLQSLLDLILKYVDDVIAHKVTPDNAVGRQLLDLIHSVPHMTHEQ 242

Query: 236 FETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLLTS 272
           F  MFN+N+++LL+++TLSQL KTQL LNEKLT L +
Sbjct: 243 FTQMFNANVRNLLLVITLSQLIKTQLQLNEKLTFLPT 279

Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is involved in protein synthesis and, together with other initiation factors, stimulates binding of mRNA and methionyl-tRNAi to the 40S ribosome.

Drosophila erecta (taxid: 7220)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	273
242024972	275	eukaryotic translation initiation factor	1.0	0.992	0.650	1e-105
195454009	280	GK14430 [Drosophila willistoni] gi|22448	0.992	0.967	0.628	1e-104
195038491	280	GH18119 [Drosophila grimshawi] gi|224495	0.992	0.967	0.624	1e-104
194746528	280	GF16095 [Drosophila ananassae] gi|224487	0.992	0.967	0.620	1e-103
195389771	280	GJ23292 [Drosophila virilis] gi|22448792	0.992	0.967	0.620	1e-103
195107172	280	GI23834 [Drosophila mojavensis] gi|22448	0.981	0.957	0.627	1e-103
195497137	280	GE25339 [Drosophila yakuba] gi|224487927	0.992	0.967	0.617	1e-102
24644059	280	CG9769 [Drosophila melanogaster] gi|1948	0.992	0.967	0.617	1e-102
91081245	278	PREDICTED: similar to CG9769 CG9769-PA [	1.0	0.982	0.633	1e-102
289740203	279	translation initiation factor 3 subunit	0.992	0.971	0.615	1e-102

>gi|242024972|ref|XP_002432900.1| eukaryotic translation initiation factor 3 subunit, putative [Pediculus humanus corporis] gi|212518409|gb|EEB20162.1| eukaryotic translation initiation factor 3 subunit, putative [Pediculus humanus corporis]

 Score =  389 bits (998), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 179/275 (65%), Positives = 225/275 (81%), Gaps = 2/275 (0%)

Query: 1   MSLNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEM 60
           M+LN+++KVHPVV FQIVDA+ERR+ D++RVIGTLLG VDKGVVEVTNCFCVPHKEY+  
Sbjct: 1   MALNLTVKVHPVVKFQIVDAYERRSADANRVIGTLLGFVDKGVVEVTNCFCVPHKEYEVE 60

Query: 61  VEAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTN 120
           VEAEL+YA DM+E+N+KVNP E I+GWWATG EVT  SSVIH+YY REC NP+HMTLDT 
Sbjct: 61  VEAELSYASDMYELNRKVNPQEAIIGWWATGHEVTCHSSVIHEYYARECNNPIHMTLDTT 120

Query: 121 LKGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSI--KQGAVQP 178
           L+G  MG++ Y+ VPIGVPGGK+G MFT IP EV+CY  E+ G++L  K++  K+  V+P
Sbjct: 121 LQGDRMGLRAYLCVPIGVPGGKAGSMFTPIPVEVVCYEPEIVGIKLCQKTVGTKEITVEP 180

Query: 179 LSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQFET 238
           + +L  V+EA +KL  L+D VL YVD+VLA +I    ++GR LLDM+ SVP M  ++FE+
Sbjct: 181 MQDLAQVAEATNKLRDLLDQVLSYVDDVLAAKIPAKAAVGRALLDMIYSVPKMNPQEFES 240

Query: 239 MFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLLTSL 273
           MF SNIKDLLM+MTL+QLTKTQL LNEKLT+LT+L
Sbjct: 241 MFTSNIKDLLMVMTLTQLTKTQLQLNEKLTMLTTL 275

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195454009|ref|XP_002074044.1| GK14430 [Drosophila willistoni] gi|224487926|sp|B4NJR8.1|EI3F1_DROWI RecName: Full=Eukaryotic translation initiation factor 3 subunit F-1; Short=eIF3f-1; AltName: Full=Eukaryotic translation initiation factor 3 subunit 5-1 gi|194170129|gb|EDW85030.1| GK14430 [Drosophila willistoni]

 Score =  382 bits (982), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 174/277 (62%), Positives = 229/277 (82%), Gaps = 6/277 (2%)

Query: 2   SLNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMV 61
           +LN++++VHPVVLFQ+VDAFERRN DSHRVIGTLLG+VDKGVVEVTNCFCVPHKE+D+ V
Sbjct: 3   ALNLTVRVHPVVLFQVVDAFERRNADSHRVIGTLLGSVDKGVVEVTNCFCVPHKEHDDQV 62

Query: 62  EAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNL 121
           EAEL+YA DM+E+N+KVN +E +VGWWATG+EVT+ SSVIH+YY REC NPVH+T+DT+L
Sbjct: 63  EAELSYALDMYELNRKVNSNESVVGWWATGNEVTNHSSVIHEYYARECNNPVHVTVDTSL 122

Query: 122 KGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSI------KQGA 175
           +G  MG++ YV + +GVPGGKSG MFT IP E+  Y  E  GL+LL K++      +   
Sbjct: 123 QGGRMGLRAYVCIQLGVPGGKSGCMFTPIPVELTSYEPETFGLKLLQKTVGVSPAHRPKT 182

Query: 176 VQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQ 235
           V P+ +L  +SEA+ KL  L+D +L+YVD+V+A+++TPDN++GRQLLD++++VP MT EQ
Sbjct: 183 VPPMLDLAQISEASTKLQSLLDLILKYVDDVIAHKVTPDNAVGRQLLDLIHAVPHMTHEQ 242

Query: 236 FETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLLTS 272
           F  MFN+N++DLLM++TLSQL KTQL LNEKLT L +
Sbjct: 243 FTQMFNANVRDLLMVITLSQLIKTQLQLNEKLTFLPT 279

Source: Drosophila willistoni

Species: Drosophila willistoni

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195038491|ref|XP_001990690.1| GH18119 [Drosophila grimshawi] gi|224495085|sp|B4JGX4.1|EIFF1_DROGR RecName: Full=Eukaryotic translation initiation factor 3 subunit F-1; Short=eIF3f-1; AltName: Full=Eukaryotic translation initiation factor 3 subunit 5-1 gi|193894886|gb|EDV93752.1| GH18119 [Drosophila grimshawi]

 Score =  382 bits (981), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 173/277 (62%), Positives = 229/277 (82%), Gaps = 6/277 (2%)

Query: 2   SLNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMV 61
           +LN++++VHPVVLFQ+VDAFERRN DSHRVIGTLLG+VDKGVVEVTNCFCVPHKE+D+ V
Sbjct: 3   ALNLTVRVHPVVLFQVVDAFERRNADSHRVIGTLLGSVDKGVVEVTNCFCVPHKEHDDQV 62

Query: 62  EAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNL 121
           EAEL+YA DM+++N+KVN +E +VGWWATG+EVT+ SSVIH+YY REC NPVH+T+DT+L
Sbjct: 63  EAELSYALDMYDLNRKVNSNESVVGWWATGNEVTNHSSVIHEYYARECNNPVHLTVDTSL 122

Query: 122 KGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSI------KQGA 175
           +G  MG++ YV + +GVPGGK+G MFT IP E+  Y  E  GL+LL K++      +   
Sbjct: 123 QGGRMGLRAYVCIQLGVPGGKTGCMFTPIPVELTSYEPETFGLKLLQKTVGVSPAQRPKT 182

Query: 176 VQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQ 235
           V P+ +L  +SEA+ KL  L+D +L+YVD+V+A+++TPDN++GRQLLD+++SVP MT EQ
Sbjct: 183 VPPMLDLAQISEASQKLQSLLDLILKYVDDVIAHKVTPDNAVGRQLLDLIHSVPHMTHEQ 242

Query: 236 FETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLLTS 272
           F  MFN+N++DLLM++TLSQL KTQL LNEKLT L +
Sbjct: 243 FTQMFNANVRDLLMVITLSQLIKTQLQLNEKLTFLPT 279

Source: Drosophila grimshawi

Species: Drosophila grimshawi

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194746528|ref|XP_001955732.1| GF16095 [Drosophila ananassae] gi|224487919|sp|B3M123.1|EI3F1_DROAN RecName: Full=Eukaryotic translation initiation factor 3 subunit F-1; Short=eIF3f-1; AltName: Full=Eukaryotic translation initiation factor 3 subunit 5-1 gi|190628769|gb|EDV44293.1| GF16095 [Drosophila ananassae]

 Score =  381 bits (978), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 172/277 (62%), Positives = 230/277 (83%), Gaps = 6/277 (2%)

Query: 2   SLNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMV 61
           +LN++++VHPVVLFQ+VDA+ERRN DSHRVIGTLLG+VDKGVVEVTNCFCVPHKE+D+ V
Sbjct: 3   ALNLTVRVHPVVLFQVVDAYERRNADSHRVIGTLLGSVDKGVVEVTNCFCVPHKEHDDQV 62

Query: 62  EAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNL 121
           EAEL+YA DM+++N+KVNP+E +VGWWATG++VT+ SSVIH+YY REC NPVH+T+DT+L
Sbjct: 63  EAELSYALDMYDLNRKVNPNESVVGWWATGNDVTNHSSVIHEYYARECNNPVHLTVDTSL 122

Query: 122 KGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSI------KQGA 175
           +G  MG++ YV + +GVPGGKSG MFT IP E+  Y  E  GL+LL K++      +   
Sbjct: 123 QGGRMGLRAYVCIQLGVPGGKSGCMFTPIPVELTSYEPETFGLKLLQKTVGVSPAHRPKT 182

Query: 176 VQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQ 235
           V P+ +L  +SEA+ KL  L+D +L+YVD+V+A+++TPDN++GRQLLD+++SVP MT EQ
Sbjct: 183 VPPMLDLAQISEASQKLQQLLDLILKYVDDVIAHKVTPDNAVGRQLLDLIHSVPHMTHEQ 242

Query: 236 FETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLLTS 272
           F  MFN+N+++LL+++TLSQL KTQL LNEKLT L S
Sbjct: 243 FTQMFNANVRNLLLVITLSQLIKTQLQLNEKLTFLPS 279

Source: Drosophila ananassae

Species: Drosophila ananassae

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195389771|ref|XP_002053547.1| GJ23292 [Drosophila virilis] gi|224487925|sp|B4LZ60.1|EI3F1_DROVI RecName: Full=Eukaryotic translation initiation factor 3 subunit F-1; Short=eIF3f-1; AltName: Full=Eukaryotic translation initiation factor 3 subunit 5-1 gi|194151633|gb|EDW67067.1| GJ23292 [Drosophila virilis]

 Score =  380 bits (976), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 172/277 (62%), Positives = 229/277 (82%), Gaps = 6/277 (2%)

Query: 2   SLNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMV 61
           +LN++++VHPVVLFQ+VDAFERRN DSHRVIGTLLG+VDKGVVEVTNCFCVPHKE+D+ V
Sbjct: 3   ALNLTVRVHPVVLFQVVDAFERRNADSHRVIGTLLGSVDKGVVEVTNCFCVPHKEHDDQV 62

Query: 62  EAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNL 121
           EAEL+YA DM+++N+KVN +E +VGWWATG+EVT+ SSVIH+YY REC NPVH+T+DT+L
Sbjct: 63  EAELSYALDMYDLNRKVNANESVVGWWATGNEVTNHSSVIHEYYARECNNPVHLTVDTSL 122

Query: 122 KGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSI------KQGA 175
           +G  MG++ YV + +GVPGGK+G MFT IP E+  Y  E  GL+LL K++      +   
Sbjct: 123 QGGRMGLRAYVCIQLGVPGGKTGCMFTPIPVELTSYEPETFGLKLLQKTVGVSPAHRPKT 182

Query: 176 VQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQ 235
           V P+ +L  +SEA+ KL  L++ +L+YVD+V+A+++TPDN++GRQLLD+++SVP MT EQ
Sbjct: 183 VPPMLDLAQISEASTKLQSLLELILKYVDDVIAHKVTPDNAVGRQLLDLIHSVPHMTHEQ 242

Query: 236 FETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLLTS 272
           F  MFN+N++DLLM++TLSQL KTQL LNEKLT L +
Sbjct: 243 FTQMFNANVRDLLMVITLSQLIKTQLQLNEKLTFLPT 279

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195107172|ref|XP_001998190.1| GI23834 [Drosophila mojavensis] gi|224487921|sp|B4KBI4.1|EI3F1_DROMO RecName: Full=Eukaryotic translation initiation factor 3 subunit F-1; Short=eIF3f-1; AltName: Full=Eukaryotic translation initiation factor 3 subunit 5-1 gi|193914784|gb|EDW13651.1| GI23834 [Drosophila mojavensis]

 Score =  380 bits (975), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 172/274 (62%), Positives = 226/274 (82%), Gaps = 6/274 (2%)

Query: 3   LNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVE 62
           LN++++VHPVVLFQ+VDAFERRN DSHRVIGTLLG+VDKGVVEVTNCFCVPHKE+D+ VE
Sbjct: 4   LNLTVRVHPVVLFQVVDAFERRNADSHRVIGTLLGSVDKGVVEVTNCFCVPHKEHDDQVE 63

Query: 63  AELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNLK 122
           AEL+YA DM+++N+KVN +E +VGWWATG+EVT+ SSVIH+YY REC NPVH+T+DT+L+
Sbjct: 64  AELSYALDMYDLNRKVNANENVVGWWATGNEVTNHSSVIHEYYARECNNPVHLTVDTSLQ 123

Query: 123 GPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSI------KQGAV 176
              MG++ Y+ + +GVPGGK+G MFT IP E+  Y  E  GL+LL K++      +   V
Sbjct: 124 SGRMGLRAYICIQLGVPGGKTGCMFTPIPVELTSYEPETFGLKLLQKTVTVSPAHRPKTV 183

Query: 177 QPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQF 236
            P+ +L  +SEAA KL  L+D +L+YVD+V+A+++TPDN++GRQLLD+++SVP MT EQF
Sbjct: 184 APMLDLAQISEAATKLQSLLDLILKYVDDVIAHKVTPDNAVGRQLLDLIHSVPHMTHEQF 243

Query: 237 ETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLL 270
             MFN+N++DLLM++TLSQL KTQL LNEKLT L
Sbjct: 244 TQMFNANVRDLLMVITLSQLIKTQLQLNEKLTFL 277

Source: Drosophila mojavensis

Species: Drosophila mojavensis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195497137|ref|XP_002095975.1| GE25339 [Drosophila yakuba] gi|224487927|sp|B4PUG5.1|EI3F1_DROYA RecName: Full=Eukaryotic translation initiation factor 3 subunit F-1; Short=eIF3f-1; AltName: Full=Eukaryotic translation initiation factor 3 subunit 5-1 gi|194182076|gb|EDW95687.1| GE25339 [Drosophila yakuba]

 Score =  378 bits (971), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 171/277 (61%), Positives = 229/277 (82%), Gaps = 6/277 (2%)

Query: 2   SLNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMV 61
           +LN++++VHPVVLFQ+VDAFERRN DSHRVIGTLLG+VDKGVVEVTNCFCVPHKE+D+ V
Sbjct: 3   ALNLTVRVHPVVLFQVVDAFERRNADSHRVIGTLLGSVDKGVVEVTNCFCVPHKEHDDQV 62

Query: 62  EAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNL 121
           EAEL+YA DM+++N+KVN +E +VGWWATG++VT+ SSVIH+YY REC NPVH+T+DT+L
Sbjct: 63  EAELSYALDMYDLNRKVNSNESVVGWWATGNDVTNHSSVIHEYYARECNNPVHLTVDTSL 122

Query: 122 KGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSI------KQGA 175
           +G  MG++ YV + +GVPGGKSG MFT IP E+  Y  E  GL+LL K++      +   
Sbjct: 123 QGGRMGLRAYVCIQLGVPGGKSGCMFTPIPVELTSYEPETFGLKLLQKTVGVSPAHRPKT 182

Query: 176 VQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQ 235
           V P+ +L  +SEA+ KL  L+D +L+YVD+V+A+++TPDN++GRQLLD+++SVP MT EQ
Sbjct: 183 VPPMLDLAQISEASTKLQSLLDLILKYVDDVIAHKVTPDNAVGRQLLDLIHSVPHMTHEQ 242

Query: 236 FETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLLTS 272
           F  MFN+N+++LL+++TLSQL KTQL LNEKLT L +
Sbjct: 243 FTQMFNANVRNLLLVITLSQLIKTQLQLNEKLTFLPA 279

Source: Drosophila yakuba

Species: Drosophila yakuba

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|24644059|ref|NP_649489.1| CG9769 [Drosophila melanogaster] gi|194898594|ref|XP_001978854.1| GG11433 [Drosophila erecta] gi|195343483|ref|XP_002038327.1| GM10688 [Drosophila sechellia] gi|195568259|ref|XP_002102135.1| GD19663 [Drosophila simulans] gi|74948259|sp|Q9VN50.1|EI3F1_DROME RecName: Full=Eukaryotic translation initiation factor 3 subunit F-1; Short=eIF3f-1; AltName: Full=Eukaryotic translation initiation factor 3 subunit 5-1 gi|224487920|sp|B3P239.1|EI3F1_DROER RecName: Full=Eukaryotic translation initiation factor 3 subunit F-1; Short=eIF3f-1; AltName: Full=Eukaryotic translation initiation factor 3 subunit 5-1 gi|224487923|sp|B4I3S1.1|EI3F1_DROSE RecName: Full=Eukaryotic translation initiation factor 3 subunit F-1; Short=eIF3f-1; AltName: Full=Eukaryotic translation initiation factor 3 subunit 5-1 gi|224487924|sp|B4QVL3.1|EI3F1_DROSI RecName: Full=Eukaryotic translation initiation factor 3 subunit F-1; Short=eIF3f-1; AltName: Full=Eukaryotic translation initiation factor 3 subunit 5-1 gi|7296825|gb|AAF52101.1| CG9769 [Drosophila melanogaster] gi|21430308|gb|AAM50832.1| LD47792p [Drosophila melanogaster] gi|190650557|gb|EDV47812.1| GG11433 [Drosophila erecta] gi|194133348|gb|EDW54864.1| GM10688 [Drosophila sechellia] gi|194198062|gb|EDX11638.1| GD19663 [Drosophila simulans] gi|220950136|gb|ACL87611.1| CG9769-PA [synthetic construct]

 Score =  378 bits (970), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 171/277 (61%), Positives = 229/277 (82%), Gaps = 6/277 (2%)

Query: 2   SLNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMV 61
           +LN++++VHPVVLFQ+VDAFERRN DSHRVIGTLLG+VDKGVVEVTNCFCVPHKE+D+ V
Sbjct: 3   ALNLTVRVHPVVLFQVVDAFERRNADSHRVIGTLLGSVDKGVVEVTNCFCVPHKEHDDQV 62

Query: 62  EAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNL 121
           EAEL+YA DM+++N+KVN +E +VGWWATG++VT+ SSVIH+YY REC NPVH+T+DT+L
Sbjct: 63  EAELSYALDMYDLNRKVNSNESVVGWWATGNDVTNHSSVIHEYYARECNNPVHLTVDTSL 122

Query: 122 KGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSI------KQGA 175
           +G  MG++ YV + +GVPGGKSG MFT IP E+  Y  E  GL+LL K++      +   
Sbjct: 123 QGGRMGLRAYVCIQLGVPGGKSGCMFTPIPVELTSYEPETFGLKLLQKTVGVSPAHRPKT 182

Query: 176 VQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQ 235
           V P+ +L  +SEA+ KL  L+D +L+YVD+V+A+++TPDN++GRQLLD+++SVP MT EQ
Sbjct: 183 VPPMLDLAQISEASTKLQSLLDLILKYVDDVIAHKVTPDNAVGRQLLDLIHSVPHMTHEQ 242

Query: 236 FETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLLTS 272
           F  MFN+N+++LL+++TLSQL KTQL LNEKLT L +
Sbjct: 243 FTQMFNANVRNLLLVITLSQLIKTQLQLNEKLTFLPT 279

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91081245|ref|XP_975647.1| PREDICTED: similar to CG9769 CG9769-PA [Tribolium castaneum] gi|270006067|gb|EFA02515.1| hypothetical protein TcasGA2_TC008220 [Tribolium castaneum]

 Score =  377 bits (967), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 176/278 (63%), Positives = 221/278 (79%), Gaps = 5/278 (1%)

Query: 1   MSLNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEM 60
           M+LN+ +K+HPVVLFQIVDA+ERRN DSHRVIGTLLG VDKG+VEV NCFCVPHKE  + 
Sbjct: 1   MALNLQVKIHPVVLFQIVDAYERRNADSHRVIGTLLGNVDKGIVEVINCFCVPHKETVDQ 60

Query: 61  VEAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTN 120
           VEAELNYA D+ ++N++VN +E IVGWWATG EVT+ SSVIH+YY REC NPVH+TLD++
Sbjct: 61  VEAELNYAMDVHDLNRRVNSNESIVGWWATGHEVTNHSSVIHEYYARECNNPVHVTLDSS 120

Query: 121 LKGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSIKQGA----- 175
           L+G  MG+K YV V +GVP GK G MFT IP +V CY+ E+ GL+L  K++  G      
Sbjct: 121 LQGGRMGLKAYVCVSLGVPNGKQGCMFTSIPIDVTCYDPEIFGLQLCQKTLGAGGGRSRN 180

Query: 176 VQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQ 235
           V PL +L  VSEA  K+ +L++ VL YV++VLA ++ P+N++GR LLD++NSVP M  EQ
Sbjct: 181 VHPLLDLAQVSEAGSKMGILLEQVLSYVEDVLAGKVQPNNAVGRSLLDLINSVPHMNNEQ 240

Query: 236 FETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLLTSL 273
           F  MFNSN+KDLLM++TLSQL KTQL LNEKLTLLTS+
Sbjct: 241 FSEMFNSNVKDLLMVITLSQLIKTQLQLNEKLTLLTSV 278

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|289740203|gb|ADD18849.1| translation initiation factor 3 subunit f [Glossina morsitans morsitans]

 Score =  375 bits (964), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 170/276 (61%), Positives = 225/276 (81%), Gaps = 5/276 (1%)

Query: 2   SLNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMV 61
            LN+++KVHPVVLFQ+VDA+ERRN DSHRVIGTLLGTVDKGVVEVTNCFCVPHKE+D+ V
Sbjct: 3   GLNLTVKVHPVVLFQVVDAYERRNADSHRVIGTLLGTVDKGVVEVTNCFCVPHKEHDDQV 62

Query: 62  EAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNL 121
           EAEL+YA D++++N+KVNP+E +VGWWATG+EVT+ SSVIH+YY REC NPVH+T+DT+L
Sbjct: 63  EAELSYALDLYDLNRKVNPNENVVGWWATGNEVTNHSSVIHEYYARECNNPVHLTVDTSL 122

Query: 122 KGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSI-----KQGAV 176
           +   MG++ YV + +GVPGGK+G MFT IP E+ CY  E  GL+LL K+I     +Q  +
Sbjct: 123 QSGRMGLRAYVCIQLGVPGGKTGCMFTPIPVEMTCYEPETVGLKLLQKTISTSPHRQKTI 182

Query: 177 QPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQF 236
            P+ +L  +SEAA KL  L++ +L+YV+ V+ ++  PDN++GRQLLD+++SVP M+ EQF
Sbjct: 183 SPMLDLAQISEAAGKLQNLLELILKYVENVIGHKQPPDNAVGRQLLDLIHSVPHMSHEQF 242

Query: 237 ETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLLTS 272
             MFN+N++DLLM++TLS L KTQL LNEKLT L +
Sbjct: 243 TQMFNANVRDLLMVITLSNLIKTQLQLNEKLTFLPT 278

Source: Glossina morsitans morsitans

Species: Glossina morsitans

Genus: Glossina

Family: Glossinidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	273
FB|FBgn0037270	280	CG9769 [Drosophila melanogaste	0.915	0.892	0.605	1.4e-87
UNIPROTKB|E1C050	332	EIF3F "Uncharacterized protein	0.893	0.734	0.479	3e-62
UNIPROTKB|E1BLZ8	384	EIF3F "Uncharacterized protein	0.893	0.635	0.467	1.7e-59
UNIPROTKB|B3KSH1	372	EIF3F "HCG1784554, isoform CRA	0.893	0.655	0.463	3.5e-59
UNIPROTKB|O00303	357	EIF3F "Eukaryotic translation	0.893	0.683	0.463	3.5e-59
UNIPROTKB|A5A6I3	361	EIF3F "Eukaryotic translation	0.893	0.675	0.463	3.5e-59
UNIPROTKB|Q4R5B8	361	EIF3F "Eukaryotic translation	0.893	0.675	0.463	3.5e-59
MGI|MGI:1913335	361	Eif3f "eukaryotic translation	0.893	0.675	0.463	7.3e-59
FB|FBgn0033069	285	CG8335 [Drosophila melanogaste	0.908	0.870	0.390	8.3e-51
DICTYBASE|DDB_G0293254	284	eif3F "eukaryotic translation	0.901	0.866	0.354	1.2e-40

FB|FBgn0037270 CG9769 [Drosophila melanogaster (taxid:7227)]

 Score = 875 (313.1 bits), Expect = 1.4e-87, P = 1.4e-87
 Identities = 155/256 (60%), Positives = 212/256 (82%)

Query:     2 SLNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMV 61
             +LN++++VHPVVLFQ+VDAFERRN DSHRVIGTLLG+VDKGVVEVTNCFCVPHKE+D+ V
Sbjct:     3 ALNLTVRVHPVVLFQVVDAFERRNADSHRVIGTLLGSVDKGVVEVTNCFCVPHKEHDDQV 62

Query:    62 EAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNL 121
             EAEL+YA DM+++N+KVN +E +VGWWATG++VT+ SSVIH+YY REC NPVH+T+DT+L
Sbjct:    63 EAELSYALDMYDLNRKVNSNESVVGWWATGNDVTNHSSVIHEYYARECNNPVHLTVDTSL 122

Query:   122 KGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSI------KQGA 175
             +G  MG++ YV + +GVPGGKSG MFT IP E+  Y  E  GL+LL K++      +   
Sbjct:   123 QGGRMGLRAYVCIQLGVPGGKSGCMFTPIPVELTSYEPETFGLKLLQKTVGVSPAHRPKT 182

Query:   176 VQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQ 235
             V P+ +L  +SEA+ KL  L+D +L+YVD+V+A+++TPDN++GRQLLD+++SVP MT EQ
Sbjct:   183 VPPMLDLAQISEASTKLQSLLDLILKYVDDVIAHKVTPDNAVGRQLLDLIHSVPHMTHEQ 242

Query:   236 FETMFNSNIKDLLMIM 251
             F  MFN+N+++LL+++
Sbjct:   243 FTQMFNANVRNLLLVI 258

GO:0005852 "eukaryotic translation initiation factor 3 complex" evidence=ISS

GO:0006413 "translational initiation" evidence=ISS

GO:0003743 "translation initiation factor activity" evidence=ISS

GO:0048102 "autophagic cell death" evidence=IEP

GO:0035071 "salivary gland cell autophagic cell death" evidence=IEP

UNIPROTKB|E1C050 EIF3F "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 636 (228.9 bits), Expect = 3.0e-62, P = 3.0e-62
 Identities = 118/246 (47%), Positives = 176/246 (71%)

Query:     7 IKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAELN 66
             +++HPVVL  IVD+FERRN  + RVIGTLLGTVDK  VEVTNCF VPH E ++ V  ++ 
Sbjct:    67 VRLHPVVLASIVDSFERRNEGAARVIGTLLGTVDKHSVEVTNCFSVPHNESEDEVAVDME 126

Query:    67 YAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNM 126
             +A++M+E+++KV+PSE+I+GW+ATG ++T  S +IH+YY RE  NP+H+T+DT+L+   M
Sbjct:   127 FAKNMYELHKKVSPSEIILGWYATGHDITEHSVLIHEYYSREAHNPIHLTVDTSLQNSRM 186

Query:   127 GIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKS-IKQGAVQPLS-ELTL 184
              IK YV  P+GVPG   G+MFT +  + + Y++E  G+ L+ K+      V  LS +L  
Sbjct:   187 SIKAYVSAPMGVPGKTMGVMFTPLTVKYVYYDTERIGVDLIMKTCFSPNRVIGLSSDLQQ 246

Query:   185 VSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQFETMFNSNI 244
             V  A+ ++   +  VL+Y ++VL+ ++  DN++GR L+D++N VP ++ E FETM NSNI
Sbjct:   247 VGSASARIQDTLGMVLQYAEDVLSGKVAADNTVGRFLMDLINQVPKISPEDFETMLNSNI 306

Query:   245 KDLLMI 250
              DLLM+
Sbjct:   307 NDLLMV 312

GO:0003743 "translation initiation factor activity" evidence=IEA

GO:0005852 "eukaryotic translation initiation factor 3 complex" evidence=IEA

UNIPROTKB|E1BLZ8 EIF3F "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 610 (219.8 bits), Expect = 1.7e-59, P = 1.7e-59
 Identities = 115/246 (46%), Positives = 173/246 (70%)

Query:     7 IKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAELN 66
             +++HPV+L  IVD++ERRN  + RVIGTLLGTVDK  VEVTNCF VPH E ++ V  ++ 
Sbjct:   119 VRLHPVILASIVDSYERRNEGAARVIGTLLGTVDKHSVEVTNCFSVPHNESEDEVAVDME 178

Query:    67 YAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNM 126
             +A++M+E+++KV+P+ELI+GW+ATG ++T  S +IH+YY RE  NP+H+T+DT+L+   M
Sbjct:   179 FAKNMYELHKKVSPNELILGWYATGHDITEHSVLIHEYYSREAPNPIHLTVDTSLQNGRM 238

Query:   127 GIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKS-IKQGAVQPLS-ELTL 184
              IK YV   +GVPG   G+MFT +  +   Y++E  G+ L+ K+      V  LS +L  
Sbjct:   239 SIKAYVSTLMGVPGRTMGVMFTPLTVKYTYYDTERIGVDLIMKTCFSPNRVIGLSSDLQQ 298

Query:   185 VSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQFETMFNSNI 244
             V  A+ ++   +  VL+Y ++VL+ +++ DN++GR L+ +VN VP +  E FETM NSNI
Sbjct:   299 VGGASARIQDALSTVLQYAEDVLSGKVSADNTVGRFLMSLVNQVPKIVPEDFETMLNSNI 358

Query:   245 KDLLMI 250
              DLLM+
Sbjct:   359 NDLLMV 364

GO:0005852 "eukaryotic translation initiation factor 3 complex" evidence=IEA

GO:0003743 "translation initiation factor activity" evidence=IEA

UNIPROTKB|B3KSH1 EIF3F "HCG1784554, isoform CRA_a" [Homo sapiens (taxid:9606)]

 Score = 607 (218.7 bits), Expect = 3.5e-59, P = 3.5e-59
 Identities = 114/246 (46%), Positives = 173/246 (70%)

Query:     7 IKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAELN 66
             +++HPV+L  IVD++ERRN  + RVIGTLLGTVDK  VEVTNCF VPH E ++ V  ++ 
Sbjct:   107 VRLHPVILASIVDSYERRNEGAARVIGTLLGTVDKHSVEVTNCFSVPHNESEDEVAVDME 166

Query:    67 YAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNM 126
             +A++M+E+++KV+P+ELI+GW+ATG ++T  S +IH+YY RE  NP+H+T+DT+L+   M
Sbjct:   167 FAKNMYELHKKVSPNELILGWYATGHDITEHSVLIHEYYSREAPNPIHLTVDTSLQNGRM 226

Query:   127 GIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKS-IKQGAVQPLS-ELTL 184
              IK YV   +GVPG   G+MFT +  +   Y++E  G+ L+ K+      V  LS +L  
Sbjct:   227 SIKAYVSTLMGVPGRTMGVMFTPLTVKYAYYDTERIGVDLIMKTCFSPNRVIGLSSDLQQ 286

Query:   185 VSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQFETMFNSNI 244
             V  A+ ++   +  VL+Y ++VL+ +++ DN++GR L+ +VN VP +  + FETM NSNI
Sbjct:   287 VGGASARIQDALSTVLQYAEDVLSGKVSADNTVGRFLMSLVNQVPKIVPDDFETMLNSNI 346

Query:   245 KDLLMI 250
              DLLM+
Sbjct:   347 NDLLMV 352

GO:0003743 "translation initiation factor activity" evidence=IEA

UNIPROTKB|O00303 EIF3F "Eukaryotic translation initiation factor 3 subunit F" [Homo sapiens (taxid:9606)]

 Score = 607 (218.7 bits), Expect = 3.5e-59, P = 3.5e-59
 Identities = 114/246 (46%), Positives = 173/246 (70%)

Query:     7 IKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAELN 66
             +++HPV+L  IVD++ERRN  + RVIGTLLGTVDK  VEVTNCF VPH E ++ V  ++ 
Sbjct:    92 VRLHPVILASIVDSYERRNEGAARVIGTLLGTVDKHSVEVTNCFSVPHNESEDEVAVDME 151

Query:    67 YAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNM 126
             +A++M+E+++KV+P+ELI+GW+ATG ++T  S +IH+YY RE  NP+H+T+DT+L+   M
Sbjct:   152 FAKNMYELHKKVSPNELILGWYATGHDITEHSVLIHEYYSREAPNPIHLTVDTSLQNGRM 211

Query:   127 GIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKS-IKQGAVQPLS-ELTL 184
              IK YV   +GVPG   G+MFT +  +   Y++E  G+ L+ K+      V  LS +L  
Sbjct:   212 SIKAYVSTLMGVPGRTMGVMFTPLTVKYAYYDTERIGVDLIMKTCFSPNRVIGLSSDLQQ 271

Query:   185 VSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQFETMFNSNI 244
             V  A+ ++   +  VL+Y ++VL+ +++ DN++GR L+ +VN VP +  + FETM NSNI
Sbjct:   272 VGGASARIQDALSTVLQYAEDVLSGKVSADNTVGRFLMSLVNQVPKIVPDDFETMLNSNI 331

Query:   245 KDLLMI 250
              DLLM+
Sbjct:   332 NDLLMV 337

GO:0006508 "proteolysis" evidence=IEA

GO:0008234 "cysteine-type peptidase activity" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005852 "eukaryotic translation initiation factor 3 complex" evidence=IDA;TAS

GO:0003743 "translation initiation factor activity" evidence=IC;IDA;TAS

GO:0006413 "translational initiation" evidence=IC;IDA;TAS

GO:0005829 "cytosol" evidence=TAS

GO:0006412 "translation" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0044267 "cellular protein metabolic process" evidence=TAS

UNIPROTKB|A5A6I3 EIF3F "Eukaryotic translation initiation factor 3 subunit F" [Pan troglodytes (taxid:9598)]

 Score = 607 (218.7 bits), Expect = 3.5e-59, P = 3.5e-59
 Identities = 114/246 (46%), Positives = 173/246 (70%)

Query:     7 IKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAELN 66
             +++HPV+L  IVD++ERRN  + RVIGTLLGTVDK  VEVTNCF VPH E ++ V  ++ 
Sbjct:    96 VRLHPVILASIVDSYERRNEGAARVIGTLLGTVDKHSVEVTNCFSVPHNESEDEVAVDME 155

Query:    67 YAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNM 126
             +A++M+E+++KV+P+ELI+GW+ATG ++T  S +IH+YY RE  NP+H+T+DT+L+   M
Sbjct:   156 FAKNMYELHKKVSPNELILGWYATGHDITEHSVLIHEYYSREAPNPIHLTVDTSLQNGRM 215

Query:   127 GIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKS-IKQGAVQPLS-ELTL 184
              IK YV   +GVPG   G+MFT +  +   Y++E  G+ L+ K+      V  LS +L  
Sbjct:   216 SIKAYVSTLMGVPGRTMGVMFTPLTVKYAYYDTERIGVDLIMKTCFSPNRVIGLSSDLQQ 275

Query:   185 VSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQFETMFNSNI 244
             V  A+ ++   +  VL+Y ++VL+ +++ DN++GR L+ +VN VP +  + FETM NSNI
Sbjct:   276 VGGASARIQDALSTVLQYAEDVLSGKVSADNTVGRFLMSLVNQVPKIVPDDFETMLNSNI 335

Query:   245 KDLLMI 250
              DLLM+
Sbjct:   336 NDLLMV 341

GO:0005852 "eukaryotic translation initiation factor 3 complex" evidence=ISS

GO:0006413 "translational initiation" evidence=ISS

GO:0003743 "translation initiation factor activity" evidence=ISS

UNIPROTKB|Q4R5B8 EIF3F "Eukaryotic translation initiation factor 3 subunit F" [Macaca fascicularis (taxid:9541)]

 Score = 607 (218.7 bits), Expect = 3.5e-59, P = 3.5e-59
 Identities = 114/246 (46%), Positives = 173/246 (70%)

Query:     7 IKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAELN 66
             +++HPV+L  IVD++ERRN  + RVIGTLLGTVDK  VEVTNCF VPH E ++ V  ++ 
Sbjct:    96 VRLHPVILASIVDSYERRNEGAARVIGTLLGTVDKHSVEVTNCFSVPHNESEDEVAVDME 155

Query:    67 YAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNM 126
             +A++M+E+++KV+P+ELI+GW+ATG ++T  S +IH+YY RE  NP+H+T+DT+L+   M
Sbjct:   156 FAKNMYELHKKVSPNELILGWYATGHDITEHSVLIHEYYSREAPNPIHLTVDTSLQNGRM 215

Query:   127 GIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKS-IKQGAVQPLS-ELTL 184
              IK YV   +GVPG   G+MFT +  +   Y++E  G+ L+ K+      V  LS +L  
Sbjct:   216 SIKAYVSTLMGVPGRTMGVMFTPLTVKYAYYDTERIGVDLIMKTCFSPNRVIGLSSDLQQ 275

Query:   185 VSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQFETMFNSNI 244
             V  A+ ++   +  VL+Y ++VL+ +++ DN++GR L+ +VN VP +  + FETM NSNI
Sbjct:   276 VGGASARIQDALSTVLQYAEDVLSGKVSADNTVGRFLMSLVNQVPKIVPDDFETMLNSNI 335

Query:   245 KDLLMI 250
              DLLM+
Sbjct:   336 NDLLMV 341

GO:0005852 "eukaryotic translation initiation factor 3 complex" evidence=ISS

GO:0006413 "translational initiation" evidence=ISS

GO:0003743 "translation initiation factor activity" evidence=ISS

MGI|MGI:1913335 Eif3f "eukaryotic translation initiation factor 3, subunit F" [Mus musculus (taxid:10090)]

 Score = 604 (217.7 bits), Expect = 7.3e-59, P = 7.3e-59
 Identities = 114/246 (46%), Positives = 172/246 (69%)

Query:     7 IKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAELN 66
             +++HPV+L  IVD++ERRN  + RVIGTLLGTVDK  VEVTNCF VPH E ++ V  ++ 
Sbjct:    96 VRLHPVILASIVDSYERRNEGAARVIGTLLGTVDKHSVEVTNCFSVPHNESEDEVAVDME 155

Query:    67 YAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNM 126
             +A++M+E+++KV+P+ELI+GW+ATG ++T  S +IH+YY RE  NP+H+T+DT L+   M
Sbjct:   156 FAKNMYELHKKVSPNELILGWYATGHDITEHSVLIHEYYSREAPNPIHLTVDTGLQHGRM 215

Query:   127 GIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKS-IKQGAVQPLS-ELTL 184
              IK YV   +GVPG   G+MFT +  +   Y++E  G+ L+ K+      V  LS +L  
Sbjct:   216 SIKAYVSTLMGVPGRTMGVMFTPLTVKYAYYDTERIGVDLIMKTCFSPNRVIGLSSDLQQ 275

Query:   185 VSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQFETMFNSNI 244
             V  A+ ++   +  VL+Y ++VL+ +++ DN++GR L+ +VN VP +  + FETM NSNI
Sbjct:   276 VGGASARIQDALSTVLQYAEDVLSGKVSADNTVGRFLMSLVNQVPKIVPDDFETMLNSNI 335

Query:   245 KDLLMI 250
              DLLM+
Sbjct:   336 NDLLMV 341

GO:0003743 "translation initiation factor activity" evidence=IDA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005852 "eukaryotic translation initiation factor 3 complex" evidence=ISO;IDA

GO:0006412 "translation" evidence=IEA

GO:0006413 "translational initiation" evidence=ISO;IDA

GO:0006508 "proteolysis" evidence=IEA

GO:0008233 "peptidase activity" evidence=IEA

GO:0008234 "cysteine-type peptidase activity" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

FB|FBgn0033069 CG8335 [Drosophila melanogaster (taxid:7227)]

 Score = 528 (190.9 bits), Expect = 8.3e-51, P = 8.3e-51
 Identities = 100/256 (39%), Positives = 162/256 (63%)

Query:     2 SLNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDE-- 59
             S+   + + P+V FQI+DA++RR    ++V+GTLLG   +G +E+TNCF VPHKE+ E  
Sbjct:     6 SMRAKVYLKPLVFFQIIDAYDRRPKGDNQVMGTLLGRNKEGHIEITNCFTVPHKEHSENK 65

Query:    60 MVEAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIREC--KNPVHMTL 117
              ++ ++ YA ++ E+N    P+E ++GW+ TG  V+  +S+IHDYY+REC    P+H+ +
Sbjct:    66 RIDLDMAYASEVLELNMFAYPNERVLGWFCTGKSVSRSASLIHDYYVRECCEGQPLHLLV 125

Query:   118 DTNLKGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSIKQGAVQ 177
             D  LK   +  + Y  V +GVPGG  G+MF+ +P E+   NS++  LR + K  +Q A +
Sbjct:   126 DAALKNQRLSTRLYCAVEMGVPGGTKGLMFSLVPLEISNENSDLVALRCIEKQSQQQASK 185

Query:   178 PLS----ELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQ 233
              +     EL  V +A   +   +D VLRY+++VLA +  PDN +GR L   + +VP +  
Sbjct:   186 QMERFVPELAQVVDATRDMQHRLDLVLRYINDVLARKKKPDNVVGRSLYAALTAVPLLDS 245

Query:   234 EQFETMFNSNIKDLLM 249
             ++F  MFN+N++D+LM
Sbjct:   246 DKFRVMFNTNLRDMLM 261

GO:0006413 "translational initiation" evidence=ISS

GO:0003743 "translation initiation factor activity" evidence=ISS

GO:0005852 "eukaryotic translation initiation factor 3 complex" evidence=ISS

DICTYBASE|DDB_G0293254 eif3F "eukaryotic translation initiation factor 3 (eIF3) subunit 5" [Dictyostelium discoideum (taxid:44689)]

 Score = 432 (157.1 bits), Expect = 1.2e-40, P = 1.2e-40
 Identities = 89/251 (35%), Positives = 148/251 (58%)

Query:     5 VSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAE 64
             V++KVHPVV+F I+D + RRN+   RVIGTLLG  + GV+E+ NCF V H E  E +  E
Sbjct:    13 VTVKVHPVVIFNILDHYIRRNVGQDRVIGTLLGFNNDGVLEIRNCFPVVHSE-TEQIAVE 71

Query:    65 LNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKN--PVHMTLDTNLK 122
             + Y + M +++ K +P E I+GW+ATG+++   S  I+++Y  E  N  P+H+T+DT L 
Sbjct:    72 MEYQRKMLDLHLKSSPREPIIGWYATGNDINENSVHINNFYRDEMGNSTPIHLTVDTGLT 131

Query:   123 GPNMGIKGYVHVPIGV-PGGKSGIMFTQIPAEVICYNSEVTGLRLLHKS-IKQGAVQPLS 180
                MGI  Y+   + + P    G  F+Q+P E++ + +E  GL  + ++   Q +   LS
Sbjct:   132 NDTMGIHAYMAHNLSLNPESSLGSYFSQLPLEILTFEAENAGLESIAQTKYDQQSTSLLS 191

Query:   181 ELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQFETMF 240
             EL  +  +  KL  +++ +  Y++ V    I  D  +GR L   + ++P    +  + + 
Sbjct:   192 ELESLQGSLTKLDEMLESITSYIESVEKGEIQGDPRLGRFLAKTIQALPKANAQVMDKVI 251

Query:   241 NSNIKDLLMIM 251
             N+++KDLLMI+
Sbjct:   252 NNSVKDLLMIV 262

GO:0005852 "eukaryotic translation initiation factor 3 complex" evidence=ISS

GO:0006413 "translational initiation" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0003743 "translation initiation factor activity" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

---

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)
B3M123	EI3F1_DROAN	No assigned EC number	0.6209	0.9926	0.9678	N/A	N/A
A5A6I3	EIF3F_PANTR	3, ., 4, ., 1, 9, ., 1, 2	0.4600	0.9560	0.7229	yes	N/A
Q18967	EIF3F_CAEEL	No assigned EC number	0.3024	0.9780	0.9081	yes	N/A
B4JGX4	EI3F1_DROGR	No assigned EC number	0.6245	0.9926	0.9678	N/A	N/A
Q9VN50	EI3F1_DROME	No assigned EC number	0.6173	0.9926	0.9678	yes	N/A
O04202	EIF3F_ARATH	No assigned EC number	0.3636	0.9523	0.8873	yes	N/A
B4GDU3	EI3F1_DROPE	No assigned EC number	0.6064	0.9926	0.9678	N/A	N/A
B4LZ60	EI3F1_DROVI	No assigned EC number	0.6209	0.9926	0.9678	N/A	N/A
P0CO84	EIF3F_CRYNJ	No assigned EC number	0.3467	0.9523	0.8580	yes	N/A
B3P239	EI3F1_DROER	No assigned EC number	0.6173	0.9926	0.9678	N/A	N/A
Q9DCH4	EIF3F_MOUSE	3, ., 4, ., 1, 9, ., 1, 2	0.4600	0.9560	0.7229	yes	N/A
B4NJR8	EI3F1_DROWI	No assigned EC number	0.6281	0.9926	0.9678	N/A	N/A
B4PUG5	EI3F1_DROYA	No assigned EC number	0.6173	0.9926	0.9678	N/A	N/A
Q4WTH0	EIF3F_ASPFU	No assigned EC number	0.3068	0.9633	0.7623	yes	N/A
Q54C49	EIF3F_DICDI	No assigned EC number	0.3582	0.9633	0.9260	yes	N/A
A3QVV1	EIF3F_BOMMO	No assigned EC number	0.5776	0.9926	0.9377	N/A	N/A
B0X2G0	EIF3F_CULQU	No assigned EC number	0.6214	1.0	0.9512	N/A	N/A
B4KBI4	EI3F1_DROMO	No assigned EC number	0.6277	0.9816	0.9571	N/A	N/A
O00303	EIF3F_HUMAN	3, ., 4, ., 1, 9, ., 1, 2	0.4600	0.9560	0.7310	yes	N/A
O43060	EIF3F_SCHPO	No assigned EC number	0.2943	0.9706	0.8774	yes	N/A
Q295I4	EI3F1_DROPS	No assigned EC number	0.6064	0.9926	0.9678	yes	N/A
Q6C4H1	EIF3F_YARLI	No assigned EC number	0.3321	0.9560	0.8877	yes	N/A
Q1HR47	EIF3F_AEDAE	No assigned EC number	0.6357	1.0	0.9512	N/A	N/A
A2QQ10	EIF3F_ASPNC	No assigned EC number	0.3032	0.9633	0.7013	yes	N/A
Q7QD36	EIF3F_ANOGA	No assigned EC number	0.6285	1.0	0.9512	yes	N/A
B4QVL3	EI3F1_DROSI	No assigned EC number	0.6173	0.9926	0.9678	N/A	N/A
B4I3S1	EI3F1_DROSE	No assigned EC number	0.6173	0.9926	0.9678	N/A	N/A

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.4.17.n1	LOW CONFIDENCE prediction!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	273
cd08064	265	cd08064, MPN_eIF3f, Mpr1p, Pad1p N-terminal (MPN)	1e-125
cd08062	280	cd08062, MPN_RPN7_8, Mpr1p, Pad1p N-terminal (MPN)	4e-30
PLN03246	303	PLN03246, PLN03246, 26S proteasome regulatory subu	5e-29
cd08057	157	cd08057, MPN_euk_non_mb, Mpr1p, Pad1p N-terminal (	7e-27
pfam01398	117	pfam01398, JAB, JAB1/Mov34/MPN/PAD-1 ubiquitin pro	1e-19
smart00232	135	smart00232, JAB_MPN, JAB/MPN domain	6e-19
pfam13012	115	pfam13012, MitMem_reg, Maintenance of mitochondria	2e-17
cd08063	288	cd08063, MPN_CSN6, Mpr1p, Pad1p N-terminal (MPN) d	2e-12
cd08065	266	cd08065, MPN_eIF3h, Mpr1p, Pad1p N-terminal (MPN)	1e-05
cd07767	116	cd07767, MPN, Mpr1p, Pad1p N-terminal (MPN) domain	0.001

>gnl|CDD|163695 cd08064, MPN_eIF3f, Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in eIF3f

 Score =  357 bits (919), Expect = e-125
 Identities = 135/265 (50%), Positives = 185/265 (69%), Gaps = 4/265 (1%)

Query: 7   IKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAELN 66
           ++VHPVVLF I+D++ERRN    RVIGTLLGT  +G VE+TNCF VPH E ++ V  ++ 
Sbjct: 1   VRVHPVVLFSILDSYERRNEGQERVIGTLLGTRSEGEVEITNCFAVPHNESEDQVAVDME 60

Query: 67  YAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIREC--KNPVHMTLDTNLKGP 124
           Y + M+E++QKVNP E+IVGW+ATG E+T  S++IHDYY REC   NP+H+T+DT+L   
Sbjct: 61  YHRTMYELHQKVNPKEVIVGWYATGSEITEHSALIHDYYSRECTSYNPIHLTVDTSLDDG 120

Query: 125 NMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSI--KQGAVQPLSEL 182
            M IK YV  P+GVPG   G MF  IP E++   +E   L LL K++     +    S+L
Sbjct: 121 KMSIKAYVSSPLGVPGKTLGSMFVPIPLELLYSEAERVALDLLAKTLASPSRSAPLTSDL 180

Query: 183 TLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQFETMFNS 242
             +  + +KL  ++D VLRYV++VLA ++  DN+IGR L+D + SVP +  E+FE MFNS
Sbjct: 181 EQLEASLEKLQEMLDRVLRYVEDVLAGKVKADNAIGRYLMDALTSVPKLDPEEFEKMFNS 240

Query: 243 NIKDLLMIMTLSQLTKTQLLLNEKL 267
           +++DLLM+  LS LTKTQL L EKL
Sbjct: 241 SLQDLLMVTYLSNLTKTQLALAEKL 265

Eukaryotic translation initiation factor 3 (eIF3) subunit F (eIF3F; EIF3S5; eIF3-p47; eukaryotic translation initiation factor 3, subunit 5 epsilon, 47kDa; Mov34/MPN/PAD-1 family protein) is an evolutionarily non-conserved subunit of the functional core that comprises eIF3a, eIF3b, eIF3c, eIF3e, eIF3f, and eIF3h, and contains the MPN domain. However, it lacks the canonical JAMM motif, and therefore does not show catalytic isopeptidase activity. It has been shown that eIF3f mRNA expression is significantly decreased in many human tumors including pancreatic cancer and melanoma. EIF3f is a potent inhibitor of HIV-1 replication; it mediates restriction of HIV-1 expression through several factors including the serine/arginine-rich (SR) protein 9G8, and cyclin-dependent kinase 11 (CDK11). EIF3f phosphorylation by CDK11 is important in regulating its function in translation and apoptosis. It enhances its association with the core eIF3 subunits during apoptosis, suggesting that eIF3f may inhibit translation by increasing the binding to the eIF3 complex during apoptosis. Thus, eIF3f may be an important negative regulator of cell growth and proliferation. Length = 265

>gnl|CDD|163693 cd08062, MPN_RPN7_8, Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in 19S proteasomal subunits Rpn7 and Rpn8

 Score =  113 bits (286), Expect = 4e-30
 Identities = 79/274 (28%), Positives = 138/274 (50%), Gaps = 20/274 (7%)

Query: 9   VHPVVLFQIVDAFER-RNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEA---E 64
           VHP+VL  +VD + R     S RV+G LLG+  KGV++VTN F VP +E ++       +
Sbjct: 5   VHPLVLLSVVDHYNRVAKGTSKRVVGVLLGSWKKGVLDVTNSFAVPFEEDEKDPSVWFLD 64

Query: 65  LNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNLKGP 124
            NY ++M+ M +KVN  E IVGW++TG ++      I++ + R C NPV + +D   K  
Sbjct: 65  HNYLENMYGMFKKVNAKEKIVGWYSTGPKLRPNDLDINELFRRYCPNPVLVIIDVRPKDL 124

Query: 125 NMGIKGYVHV-PIGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSIKQGAVQPLSELT 183
            +  + Y+ V  +   G  +   F  +P+E+    +E  G+  L + IK   V      T
Sbjct: 125 GLPTEAYIAVEEVHDDGTPTSKTFVHVPSEIGAEEAEEVGVEHLLRDIKDVTVS-----T 179

Query: 184 LVSEAADKLTVL------IDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQFE 237
           L +   +KL  L      +  +  Y+  V+  ++  ++ I   L D+ N +P++   +  
Sbjct: 180 LSTRVTNKLNSLKGLQSKLKEIKDYLQLVVEGKLPINHQIIYNLQDIFNLLPNLNLPELV 239

Query: 238 TMFNSNIKDLLMIMTLSQLTKTQL----LLNEKL 267
             F     D ++++ LS L ++ +    L+N K+
Sbjct: 240 KAFAVKTNDQMLVIYLSSLIRSVIALHNLINNKI 273

This family includes lid subunits of the 26 S proteasome regulatory particles, Rpn7 (PSMD7; proteasome 26S non-ATPase subunit 7; p44), and Rpn8 (PSMD8; proteasome 26S non-ATPase subunit 8; p40; Mov34). Rpn7 is known to be critical for the integrity of the 26 S proteasome complex by establishing a correct lid structure. It is necessary for the incorporation/anchoring of Rpn3 and Rpn12 to the lid and essential for viability and normal mitosis. Rpn7 and Rpn8 are ATP-independent components of the 19S regulator subunit, and contain the MPN structural motif on its N-terminal region. However, while they show a typical MPN metalloprotease fold, they lack the canonical JAMM motif, and therefore do not show catalytic isopeptidase activity. It is suggested that Rpn7 function is primarily structural. Length = 280

>gnl|CDD|215645 PLN03246, PLN03246, 26S proteasome regulatory subunit; Provisional

 Score =  111 bits (279), Expect = 5e-29
 Identities = 85/277 (30%), Positives = 142/277 (51%), Gaps = 23/277 (8%)

Query: 9   VHPVVLFQIVDAFERRNLDSH-RVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEA---E 64
           VHP+VL  IVD + R   D+  RV+G LLG+  +G V+VTN F VP +E D+       +
Sbjct: 10  VHPLVLLSIVDHYNRVAKDTRKRVVGVLLGSSFRGRVDVTNSFAVPFEEDDKDPSIWFLD 69

Query: 65  LNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNLKGP 124
            NY + MF M +++N  E +VGW++TG ++      IH+ +     NPV + +D   K  
Sbjct: 70  HNYLESMFGMFKRINAKEHVVGWYSTGPKLRENDLDIHELFNDYVPNPVLVIIDVQPKEL 129

Query: 125 NMGIKGYVHVPIGV---PGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSIKQGAVQPLSE 181
            +  K Y +    V      KS  +F  +P+E+  + +E  G+  L + +K   V     
Sbjct: 130 GIPTKAY-YAVEEVKENATQKSQKVFVHVPSEIGAHEAEEIGVEHLLRDVKDTTVS---- 184

Query: 182 LTLVSEAADKLTVL--IDHVLR----YVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQ 235
            TL +E   KLT L  +D  LR    Y+D V+  ++  ++ I   L D+ N +P++  E+
Sbjct: 185 -TLATEVTGKLTALKGLDARLREIRSYLDLVVEGKLPLNHEILYHLQDVFNLLPNLNVEE 243

Query: 236 FETMFNSNIKDLLMIMTLSQLTKTQL----LLNEKLT 268
               F     D+++++ LS L ++ +    L+N K+ 
Sbjct: 244 LVKAFAVKTNDMMLVIYLSSLIRSVIALHNLINNKIL 280

Length = 303

>gnl|CDD|163688 cd08057, MPN_euk_non_mb, Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity (non metal-binding); eukaryotic

 Score =  101 bits (254), Expect = 7e-27
 Identities = 42/122 (34%), Positives = 70/122 (57%), Gaps = 5/122 (4%)

Query: 7   IKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAELN 66
           +++HP+VL  I D + RR     RVIG LLG VD   +EVTN F +P  E +E +  +  
Sbjct: 1   VQLHPLVLLNISDHYTRRKYGIKRVIGVLLGYVDGDKIEVTNSFELPFDEEEESIFIDTE 60

Query: 67  YAQDMFEMNQKVNPSELIVGWWATG----DEVTSQSSVIHDYYIRE-CKNPVHMTLDTNL 121
           Y +  + +++KV P E IVGW++ G    +E++   + +H  +     +NP+ + LD +L
Sbjct: 61  YLEKRYNLHKKVYPQEKIVGWYSIGSNNSNEISKSDNSLHSQFSLISEENPLILILDPSL 120

Query: 122 KG 123
           + 
Sbjct: 121 QS 122

This family contains MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+) domains variants lacking key residues in the JAB1/MPN/Mov34 metalloenzyme (JAMM) motif and are unable to coordinate a metal ion. Comparisons of key catalytic and metal binding residues explain why the MPN-containing proteins Rpn7/PSMD7, Rpn8/PSMD8, CSN6, Prp8p, and the translation initiation factor 3 subunits f and h do not show catalytic isopeptidase activity. It has been proposed that the MPN domain in these proteins has a primarily structural function. Rpn7 is known to be critical for the integrity of the 26S proteasome complex by establishing a correct lid structure. It is necessary for the incorporation/anchoring of Rpn3 and Rpn12 to the lid and essential for viability and normal mitosis. CSN6 is a highly conserved protein complex with diverse functions, including several important intracellular pathways such as the ubiquitin/proteasome system, DNA repair, cell cycle, developmental changes, and some aspects of immune responses. It cleaves ubiquitin-like protein Nedd8 (neural precursor cell expressed, developmentally downregulated 8)) in the cullin 1 in cells. EIF3f s a potent inhibitor of HIV-1 replication as well as an important negative regulator of cell growth and proliferation. EIF3h regulates cell growth and viability, and that over-expression of the gene may provide growth advantage to prostate, breast, and liver cancer cells. Length = 157

>gnl|CDD|216478 pfam01398, JAB, JAB1/Mov34/MPN/PAD-1 ubiquitin protease

 Score = 81.3 bits (201), Expect = 1e-19
 Identities = 40/115 (34%), Positives = 57/115 (49%), Gaps = 8/115 (6%)

Query: 5   VSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDK-GVVEVTNCFCVPHKE---YDEM 60
            ++ +HP+VL +IVD   R       V+G LLGT++   V+EVTN F +P  E     E 
Sbjct: 3   RTVVIHPLVLLKIVDHARRGGKSGEEVMGVLLGTLEGDRVIEVTNSFALPQSETEDDVEA 62

Query: 61  VEAELNYAQDMFEMNQKVNPSELIVGWWATG---DEVTSQSSV-IHDYYIRECKN 111
           VE +  Y + M EM +KVN  E +VGW+ +        S   V   + Y R    
Sbjct: 63  VELDHEYMEKMLEMLKKVNRDEEVVGWYHSHPGYGCWLSSVDVHTQELYQRMIPE 117

Members of this family are found in proteasome regulatory subunits, eukaryotic initiation factor 3 (eIF3) subunits and regulators of transcription factors. This family is also known as the MPN domain and PAD-1-like domain, JABP1 domain or JAMM domain. These are metalloenzymes that function as the ubiquitin isopeptidase/ deubiquitinase in the ubiquitin-based signaling and protein turnover pathways in eukaryotes. Versions of the domain in prokaryotic cognates of the ubiquitin-modification pathway are predicted to have a similar role. Length = 117

>gnl|CDD|214573 smart00232, JAB_MPN, JAB/MPN domain

 Score = 80.5 bits (199), Expect = 6e-19
 Identities = 35/118 (29%), Positives = 53/118 (44%), Gaps = 7/118 (5%)

Query: 7   IKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVP-HKEYDEMVEAEL 65
           +KVHP+V   I+    R   +   V G LLG  +K   EV   F VP   + D + E + 
Sbjct: 2   VKVHPLVPLNILKHAIRDGPE--EVCGVLLGKSNKDRPEVKEVFAVPNEPQDDSVQEYDE 59

Query: 66  NYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSS----VIHDYYIRECKNPVHMTLDT 119
           +Y+  M E  +KVN    IVGW+ +  + +   S      H+ Y       V + +D 
Sbjct: 60  DYSHLMDEELKKVNKDLEIVGWYHSHPDESPFPSEVDVATHESYQAPWPISVVLIVDP 117

Domain in Jun kinase activation domain binding protein and proteasomal subunits. Domain at Mpr1p and Pad1p N-termini. Domain of unknown function. Length = 135

>gnl|CDD|205193 pfam13012, MitMem_reg, Maintenance of mitochondrial structure and function

 Score = 75.3 bits (186), Expect = 2e-17
 Identities = 28/111 (25%), Positives = 58/111 (52%), Gaps = 1/111 (0%)

Query: 159 SEVTGLRLLHKSIKQGAVQPLSE-LTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSI 217
           +E  G+  L + + +     LS  L L  +A   L   +  +  Y+++V+  ++ P++ I
Sbjct: 3   AEQIGVEHLLRGLNRHYYSTLSRKLELEQKALKNLHKRLWTIGLYLEDVIDGKLPPNHEI 62

Query: 218 GRQLLDMVNSVPSMTQEQFETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLT 268
            R+L  ++N +P+   ++FE  FN    D L+++ L +L + Q  L+E + 
Sbjct: 63  LRKLQSLLNLLPNYDNKEFEEEFNVETNDQLLVVYLGKLDRKQHALHELIN 113

This is C-terminal to the Mov24 region of the yeast proteasomal subunit Rpn11 and seems likely to regulate the mitochondrial fission and tubulation processes, ie the outer mitochondrial membrane proteins. This function appears to be unrelated to the proteasome activity of the N-terminal region. Length = 115

>gnl|CDD|163694 cd08063, MPN_CSN6, Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in COP9 signalosome complex subunit 6

 Score = 65.4 bits (160), Expect = 2e-12
 Identities = 64/276 (23%), Positives = 120/276 (43%), Gaps = 20/276 (7%)

Query: 5   VSIKVHPVVLFQIVDAFER----RNLDSHRVIGTLLGTVDKGVVEVTNCF-CVPHKEYDE 59
           +S+K+HP+V+  I D   R       +  RV+G LLG  D   +E+ N F        D 
Sbjct: 1   LSVKLHPLVILNISDHITRHRAQSQSEPPRVVGALLGQQDGREIEIENSFELKYDTNEDG 60

Query: 60  MVEAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSV-IHDYYIRECKNPVHMTLD 118
            +  +  + +   E  ++V      VGW+ TG    ++S + IH   +   ++PV + LD
Sbjct: 61  EIVLDKEFLETRLEQFKQVFKDLDFVGWYTTGPGGPTESDLPIHKQILEINESPVLLLLD 120

Query: 119 --TNLKGPNMGIKGYVHVPIGVPGGKSGIMFTQIP-------AEVICYNSEVTGLRLLHK 169
              N  G ++ +  Y  V + +  G++ + F ++P       AE I  +    G      
Sbjct: 121 PEANASGKDLPVTIYESV-LELVDGEATLRFRELPYTIETGEAERIGVDHVARGGASGSS 179

Query: 170 SIKQGAVQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVP 229
                A    ++   +     ++ ++++    Y+  V    + PD+SI R +  + + +P
Sbjct: 180 EKSTVAAHLQAQHNAIKMLNSRVELILE----YLKAVPVGEVPPDHSILRSISALCSRLP 235

Query: 230 SMTQEQFETMFNSNIKDLLMIMTLSQLTKTQLLLNE 265
            +  E F     +   D+L++  L+ LTK    LNE
Sbjct: 236 VLKSEAFREELLAEYNDVLLVAYLATLTKGCNTLNE 271

CSN6 (COP9 signalosome subunit 6; COP9 subunit 6; MOV34 homolog, 34 kD) is one of the eight subunits of COP9 signalosome, a highly conserved protein complex with diverse functions, including several important intracellular pathways such as the ubiquitin/proteasome system, DNA repair, cell cycle, developmental changes, and some aspects of immune responses. CSN6 is an MPN-domain protein that directly interacts with the MPN+-domain subunit CSN5. It is cleaved during apoptosis by activated caspases. CSN6 processing occurs in CSN/CRL (cullin-RING Ub ligase) complexes and is followed by the cleavage of Rbx1, the direct interaction partner of CSN6. CSN6 cleavage enhances CSN-mediated deneddylating activity (i.e. cleavage of ubiquitin-like protein Nedd8 (neural precursor cell expressed, developmentally downregulated 8)) in the cullin 1 in cells. The cleavage of Rbx1 and increased deneddylation of cullins inactivate CRLs and presumably stabilize pro-apoptotic factors for final apoptotic steps. While CSN6 shows a typical MPN metalloprotease fold, it lacks the canonical JAMM motif, and therefore does not show catalytic isopeptidase activity. Length = 288

>gnl|CDD|163696 cd08065, MPN_eIF3h, Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in eIF2h

 Score = 45.3 bits (108), Expect = 1e-05
 Identities = 23/60 (38%), Positives = 30/60 (50%), Gaps = 3/60 (5%)

Query: 31 VIGTLLGTVDKGVVEVTNCFCVPHKEYDE---MVEAELNYAQDMFEMNQKVNPSELIVGW 87
          V G LLG    G +EVTNCF  P  E D+     E   +Y  +M  + ++VN     VGW
Sbjct: 25 VQGQLLGLDVGGTLEVTNCFPFPKSEEDDSDRADEDIADYQLEMMRLLREVNVDHNHVGW 84

Eukaryotic translation initiation factor 3 (eIF3) subunit h (eIF3h; eIF3 subunit 3; eIF3S3; eIF3-gamma; eIF3-p40) is an evolutionarily non-conserved subunit of the functional core that comprises eIF3a, eIF3b, eIF3c, eIF3e, eIF3f, and eIF3h, and contains the MPN domain. However, it lacks the canonical JAMM motif, and therefore does not show catalytic isopeptidase activity.Together with eIF3e and eIF3f, eIF3h stabilizes the eIF3 complex. Results suggest that eIF3h regulates cell growth and viability, and that over-expression of the gene may provide growth advantage to prostate, breast, and liver cancer cells. For example, EIF3h gene amplification is common in late-stage prostate cancer suggesting that it may be functionally involved in the progression of the disease. It has been shown that coamplification of MYC, a well characterized oncogene involved in cell growth, differentiation, and apoptosis, and EIF3h in patients with non-small cell lung cancer (NSCLC) improves survival if treated with the Epidermal Growth Factor Receptor Tyrosine Kinase Inhibitor (EGFR-TKI), Gefitinib. Plant eIF3h is implicated in translation of specific mRNAs. Length = 266

>gnl|CDD|163686 cd07767, MPN, Mpr1p, Pad1p N-terminal (MPN) domains

 Score = 37.5 bits (87), Expect = 0.001
 Identities = 29/107 (27%), Positives = 45/107 (42%), Gaps = 10/107 (9%)

Query: 17  IVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAELNYAQDMFEMNQ 76
            +DA +  N     VIG L G+  K V++V     VP  E D     + N    M+   +
Sbjct: 4   FLDAAKSINGK--EVIGLLYGSKTKKVLDVDEVIAVPFDEGD----KDDNVWFLMYLDFK 57

Query: 77  KVNPSELIVGWWATGDEVTSQSS----VIHDYYIRECKNPVHMTLDT 119
           K+N    IVGW+ T  + +   S      H+ + R     V + +D 
Sbjct: 58  KLNAGLRIVGWYHTHPKPSCFLSPNDLATHELFQRYFPEKVMIIVDV 104

MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+) domains are found in the N-terminal termini of proteins with a variety of functions; they are components of the proteasome regulatory subunits, the signalosome (CSN), eukaryotic translation initiation factor 3 (eIF3) complexes, and regulators of transcription factors. These domains are isopeptidases that release ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. Catalytically active MPN domains contain a metalloprotease signature known as the JAB1/MPN/Mov34 metalloenzyme (JAMM) motif. For example, Rpn11 (also known as POH1 or PSMD14), a subunit of the 19S proteasome lid is involved in the ATP-dependent degradation of ubiquitinated proteins, contains the conserved JAMM motif involved in zinc ion coordination. Poh1 is a regulator of c-Jun, an important regulator of cell proliferation, differentiation, survival and death. JAB1 is a component of the COP9 signalosome (CSN), a regulatory particle of the ubiquitin (Ub)/26S proteasome system occurring in all eukaryotic cells; it cleaves the ubiquitin-like protein NEDD8 from the cullin subunit of the SCF (Skp1, Cullins, F-box proteins) family of E3 ubiquitin ligases. AMSH (associated molecule with the SH3 domain of STAM, also known as STAMBP), a member of JAMM/MPN+ deubiquitinases (DUBs), specifically cleaves Lys 63-linked polyubiquitin (poly-Ub) chains, thus facilitating the recycling and subsequent trafficking of receptors to the cell surface. Similarly, BRCC36, part of the nuclear complex that includes BRCA1 protein and is targeted to DNA damage foci after irradiation, specifically disassembles K63-linked polyUb. BRCC36 is aberrantly expressed in sporadic breast tumors, indicative of a potential role in the pathogenesis of the disease. Some variants of the JAB1/MPN domains lack key residues in their JAMM motif and are unable to coordinate a metal ion. Comparisons of key catalytic and metal binding residues explain why the MPN-containing proteins Mov34/PSMD7, Rpn8, CSN6, Prp8p, and the translation initiation factor 3 subunits f (p47) and h (p40) do not show catalytic isopeptidase activity. It has been proposed that the MPN domain in these proteins has a primarily structural function. Length = 116

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	273
KOG2975|consensus	288		100.0
PLN03246	303	26S proteasome regulatory subunit; Provisional	100.0
cd08062	280	MPN_RPN7_8 Mpr1p, Pad1p N-terminal (MPN) domains w	100.0
cd08064	265	MPN_eIF3f Mpr1p, Pad1p N-terminal (MPN) domains wi	100.0
cd08063	288	MPN_CSN6 Mpr1p, Pad1p N-terminal (MPN) domains wit	100.0
KOG1556|consensus	309		100.0
KOG3050|consensus	299		100.0
cd08057	157	MPN_euk_non_mb Mpr1p, Pad1p N-terminal (MPN) domai	100.0
cd08065	266	MPN_eIF3h Mpr1p, Pad1p N-terminal (MPN) domains wi	100.0
cd08069	268	MPN_RPN11_CSN5 Mov34/MPN/PAD-1 family: proteasomal	99.97
PF01398	114	JAB: JAB1/Mov34/MPN/PAD-1 ubiquitin protease; Inte	99.94
KOG1560|consensus	339		99.92
smart00232	135	JAB_MPN JAB/MPN domain. Domain in Jun kinase activ	99.9
PF13012	115	MitMem_reg: Maintenance of mitochondrial structure	99.88
KOG1554|consensus	347		99.79
cd07767	116	MPN Mpr1p, Pad1p N-terminal (MPN) domains. MPN (al	99.69
cd08067	187	MPN_2A_DUB Mov34/MPN/PAD-1 family: Histone H2A deu	99.63
cd08058	119	MPN_euk_mb Mpr1p, Pad1p N-terminal (MPN) domains w	99.59
cd08068	244	MPN_BRCC36 Mov34/MPN/PAD-1 family: BRCC36, a subun	99.37
KOG1555|consensus	316		99.07
cd08066	173	MPN_AMSH_like Mov34/MPN/PAD-1 family. AMSH (associ	99.06
cd08060	182	MPN_UPF0172 Mov34/MPN/PAD-1 family: UPF0172 family	98.52
PF03665	196	UPF0172: Uncharacterised protein family (UPF0172);	98.5
cd08070	128	MPN_like Mpr1p, Pad1p N-terminal (MPN) domains wit	98.47
COG1310	134	Predicted metal-dependent protease of the PAD1/JAB	98.12
KOG3289|consensus	199		97.71
cd08056	252	MPN_PRP8 Mpr1p, Pad1p N-terminal (MPN) domains wit	97.07
TIGR02256	131	ICE_VC0181 integrative and conjugative element pro	97.01
cd08072	117	MPN_archaeal Mov34/MPN/PAD-1 family: archaeal JAB1	96.61
PF14464	104	Prok-JAB: Prokaryotic homologs of the JAB domain;	95.96
cd08061	274	MPN_NPL4 Mov34/MPN/PAD-1 family: nuclear protein l	92.48
cd08073	108	MPN_NLPC_P60 Mpr1p, Pad1p N-terminal (MPN) domains	91.97
KOG2880|consensus	424		86.17
PF05021	306	NPL4: NPL4 family; InterPro: IPR007717 The HRD4 ge	83.13
cd08059	101	MPN_prok_mb Mpr1p, Pad1p N-terminal (MPN) domains	81.82

>KOG2975|consensus

Probab=100.00  E-value=7e-78  Score=511.35  Aligned_cols=270  Identities=54%  Similarity=0.928  Sum_probs=262.4

Q ss_pred             CCCCceEEEehhhHhHHHHHHhhccCCCceEEEEEeeeEeCCEEEEEEEEeeccccCchhhHhhHHHHHHHHHHHhhhCC
Q psy4542           1 MSLNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAELNYAQDMFEMNQKVNP   80 (273)
Q Consensus         1 ~~~~~~V~lhPlvll~I~dh~~r~~~~~~~v~G~LLG~~~~~~veV~~sF~vp~~~~~~~~~id~~~~~~m~~l~k~v~p   80 (273)
                      |++..+|.+||+|+++|+|+|+||+.++.||||+|||+.++|.|||||||++||+|.+|++.+|++|++.|+++++++||
T Consensus        17 ~ss~ltv~ihP~Vlf~ivD~~~RR~~~~~rviGTLLG~~~~g~ieitNCFaVPhnEssdqvevdm~y~~~M~~l~~k~np   96 (288)
T KOG2975|consen   17 FSSNLTVRLHPVVLFSIVDAYERRNKGAERVIGTLLGTVDKGSVEVTNCFAVPHNESSDQVEVDMEYAKNMYELHKKVNP   96 (288)
T ss_pred             CCCCceEEEcceEEeEeehhhhcCCccchhhhhheeecccCCeEEEEEeeeccCccccccceeeHHHHHHHHHHhcccCC
Confidence            56889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCeEEeecCCCCCCcccHHHHHHHHhhCCCcEEEEEcCCCCCCCcceeEEEeeecCCCCCcccceeeeeceEEecCchH
Q psy4542          81 SELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSE  160 (273)
Q Consensus        81 ~~~iVGWY~~g~~~~~~~~~i~~~~~~~~~~pi~L~~D~~~~~~~l~ikay~~~~~~~~~~~~~~~f~~ip~~i~~~e~E  160 (273)
                      +|.+||||+||+++++++..||++|.+++++||||++|++.+++.+++|||.++++|++|++.+.+|.|+|+++.+.++|
T Consensus        97 nE~vvGWyaTg~dvt~~sslihdyYare~~~pvhLtVDT~~~n~rm~ikaYvss~~Gvpg~~~~~mF~plpvel~~~~~e  176 (288)
T KOG2975|consen   97 NELVVGWYATGHDVTEHSSLIHDYYAREAPNPVHLTVDTSLQNGRMSIKAYVSSLMGVPGRTMGVMFTPLPVELAYYDAE  176 (288)
T ss_pred             CceeEEEEecCCCcccchhHHHHHhhccCCCCeEEEEeccccCCccceeEEEEeccCCCCcccceeeeeeeeEEeecchh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhccCCC--CCccchHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHhhcCCCCCHHHHHH
Q psy4542         161 VTGLRLLHKSIKQGA--VQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQFET  238 (273)
Q Consensus       161 ~i~v~~l~~~~~~~~--~~~~~~l~~~~~a~~~L~~~l~~i~~Yl~~V~~g~~~~d~~ilr~l~~~~~~lp~~~~~~f~~  238 (273)
                      |+|++.|.|.+.+.+  .++..+|+++..|..+|+.+|+++++|+++|.+|+.+||+.|||+|+++++++|++.+++|+.
T Consensus       177 rvgl~li~kt~~sp~r~~~l~~dLqQv~~at~~l~~~L~~Vl~YVedVl~gk~~pdn~VGR~Lmd~v~~vP~l~p~~Fe~  256 (288)
T KOG2975|consen  177 RVGLDLIEKTSFSPSRVAGLSSDLQQVEGATARLQSLLERVLKYVEDVLAGKVKPDNAVGRFLMDLVTAVPKLVPDDFET  256 (288)
T ss_pred             hhHHHHHHHhccChhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHhcCCCCHHHHHH
Confidence            999999999986543  668999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhhhhHHHHHHHHHHHHHHHHHHHHHHhc
Q psy4542         239 MFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLL  270 (273)
Q Consensus       239 ~~~~~~~D~lmv~yLs~ltk~~~~l~e~l~~~  270 (273)
                      +|+++.+|.+|+.|||++||+|++|+|||+.+
T Consensus       257 mfn~nLrD~Lmv~yLa~ltqTQl~l~EKL~~l  288 (288)
T KOG2975|consen  257 MFNSNLRDLLMVIYLANLTQTQLALNEKLVNL  288 (288)
T ss_pred             HHhhhHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence            99999999999999999999999999999864

>PLN03246 26S proteasome regulatory subunit; Provisional

Probab=100.00  E-value=1e-71  Score=499.80  Aligned_cols=269  Identities=28%  Similarity=0.449  Sum_probs=251.3

Q ss_pred             CCceEEEehhhHhHHHHHHhhccCC-CceEEEEEeeeEeCCEEEEEEEEeeccccCchh---hHhhHHHHHHHHHHHhhh
Q psy4542           3 LNVSIKVHPVVLFQIVDAFERRNLD-SHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEM---VEAELNYAQDMFEMNQKV   78 (273)
Q Consensus         3 ~~~~V~lhPlvll~I~dh~~r~~~~-~~~v~G~LLG~~~~~~veV~~sF~vp~~~~~~~---~~id~~~~~~m~~l~k~v   78 (273)
                      ...+|.|||+|+|+|+|||+|+..+ +.||+|+|||.+.++.|||+|||++|++++++.   |.+|.+|+++|+++||+|
T Consensus         4 ~~~~V~vhPlVll~I~dh~~R~~~~~~~rviG~LLG~~~~~~ieItnsF~~p~~e~~~~~~~~~~D~~y~~~m~~~~k~V   83 (303)
T PLN03246          4 GIEKVVVHPLVLLSIVDHYNRVAKDTRKRVVGVLLGSSFRGRVDVTNSFAVPFEEDDKDPSIWFLDHNYLESMFGMFKRI   83 (303)
T ss_pred             CCcEEEECcHHHHHHHHHHHhccCCCCCeeEEEEEeeecCCEEEEEeccccCcccCCCCccceeecHHHHHHHHHHHHHh
Confidence            4568999999999999999999765 689999999999999999999999999876543   789999999999999999


Q ss_pred             CCCCCeEEeecCCCCCCcccHHHHHHHHhhCCCcEEEEEcCCCCCCCcceeEEEeeecCCCCCc--ccceeeeeceEEec
Q psy4542          79 NPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNMGIKGYVHVPIGVPGGK--SGIMFTQIPAEVIC  156 (273)
Q Consensus        79 ~p~~~iVGWY~~g~~~~~~~~~i~~~~~~~~~~pi~L~~D~~~~~~~l~ikay~~~~~~~~~~~--~~~~f~~ip~~i~~  156 (273)
                      ||++.+||||++|+.+++.|+.||++|++++++||||++|+...++++|++||++.+.+.+++.  .+..|+++|++|++
T Consensus        84 ~~~~~vVGWY~tg~~i~~~d~~IH~~~~~~~~~Pv~L~vD~~~~~~~lpi~aY~s~~~~~~~~~~~~~~~F~~vp~~i~~  163 (303)
T PLN03246         84 NAKEHVVGWYSTGPKLRENDLDIHELFNDYVPNPVLVIIDVQPKELGIPTKAYYAVEEVKENATQKSQKVFVHVPSEIGA  163 (303)
T ss_pred             CCCCcEEeeecCCCCCCcchHHHHHHHHhhCCCCeEEEEecCCCCCCCceEEEEEEEeccCCCCcccccEEEECCeeeee
Confidence            9999999999999999999999999999999999999999998888899999999988876654  56789999999999


Q ss_pred             CchHHHHHHHHHhhccCCC-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHhhcCCCCCHHH
Q psy4542         157 YNSEVTGLRLLHKSIKQGA-VQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQ  235 (273)
Q Consensus       157 ~e~E~i~v~~l~~~~~~~~-~~~~~~l~~~~~a~~~L~~~l~~i~~Yl~~V~~g~~~~d~~ilr~l~~~~~~lp~~~~~~  235 (273)
                      +||||||++++.+...+.+ ..+..++..+.+|+++|..||+.|++||++|.+|+.++|++|||+|+++|+++|.+++++
T Consensus       164 ~EaE~Igve~l~r~~~~~~~s~l~~~l~~~~~al~~L~~rl~~i~~Yl~~V~~g~~~~d~~IlR~l~~l~~~lP~l~~~~  243 (303)
T PLN03246        164 HEAEEIGVEHLLRDVKDTTVSTLATEVTGKLTALKGLDARLREIRSYLDLVVEGKLPLNHEILYHLQDVFNLLPNLNVEE  243 (303)
T ss_pred             cCHHHHHHHHHHhcccCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHhhCCCCCHHH
Confidence            9999999999999876544 347779999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHhcc
Q psy4542         236 FETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLLT  271 (273)
Q Consensus       236 f~~~~~~~~~D~lmv~yLs~ltk~~~~l~e~l~~~~  271 (273)
                      |+++|+++.||++|++|||+|||+|++|++++++..
T Consensus       244 f~~~f~~~~nD~lmv~YLa~l~kt~~~l~e~l~~~~  279 (303)
T PLN03246        244 LVKAFAVKTNDMMLVIYLSSLIRSVIALHNLINNKI  279 (303)
T ss_pred             HHHHHHhhccHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence            999999999999999999999999999999999864

>cd08062 MPN_RPN7_8 Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in 19S proteasomal subunits Rpn7 and Rpn8

Probab=100.00  E-value=3.3e-71  Score=493.11  Aligned_cols=266  Identities=27%  Similarity=0.474  Sum_probs=250.5

Q ss_pred             eEEEehhhHhHHHHHHhhccCC-CceEEEEEeeeEeCCEEEEEEEEeeccccCchh---hHhhHHHHHHHHHHHhhhCCC
Q psy4542           6 SIKVHPVVLFQIVDAFERRNLD-SHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEM---VEAELNYAQDMFEMNQKVNPS   81 (273)
Q Consensus         6 ~V~lhPlvll~I~dh~~r~~~~-~~~v~G~LLG~~~~~~veV~~sF~vp~~~~~~~---~~id~~~~~~m~~l~k~v~p~   81 (273)
                      +|.|||+|||+|+|||+|+..+ +.+|+|+|||.+.++.+||+|||++|++++++.   +.+|.+|+++|+++||+|||+
T Consensus         2 ~V~ihplVLl~I~dh~~R~~~~~~~~ViG~LLG~~~~~~veItnsF~~p~~~~~~~~~~~~~d~~y~~~m~~~~kkv~~~   81 (280)
T cd08062           2 KVVVHPLVLLSVVDHYNRVAKGTSKRVVGVLLGSWKKGVLDVTNSFAVPFEEDEKDPSVWFLDHNYLENMYGMFKKVNAK   81 (280)
T ss_pred             eEEEehHHHHHHHHHHhhhcCCCCceEEEEEEEEEeCCEEEEEEeeecCccCCCCCcchhhhhHHHHHHHHHHHHHhCCC
Confidence            7999999999999999998755 689999999999999999999999999876553   689999999999999999999


Q ss_pred             CCeEEeecCCCCCCcccHHHHHHHHhhCCCcEEEEEcCCCCCCCcceeEEEeeecCCCCCc-ccceeeeeceEEecCchH
Q psy4542          82 ELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNMGIKGYVHVPIGVPGGK-SGIMFTQIPAEVICYNSE  160 (273)
Q Consensus        82 ~~iVGWY~~g~~~~~~~~~i~~~~~~~~~~pi~L~~D~~~~~~~l~ikay~~~~~~~~~~~-~~~~f~~ip~~i~~~e~E  160 (273)
                      +.+||||++|+.+++.|+.||++|++++++||+|++||...++++|++||++.+.+.++++ .+..|+++|++|+++|||
T Consensus        82 e~vVGWY~tg~~~~~~d~~ih~~~~~~~~~pv~l~vd~~~~~~~lpi~aY~s~~~~~~~g~~~~~~F~~vp~~i~~~eaE  161 (280)
T cd08062          82 EKIVGWYSTGPKLRPNDLDINELFRRYCPNPVLVIIDVRPKDLGLPTEAYIAVEEVHDDGTPTSKTFVHVPSEIGAEEAE  161 (280)
T ss_pred             CCeEEEecCCCCCCcchHHHHHHHHHhCCCCEEEEEecCCCCCCCceEEEEEeeeccCCCCcceeEEEEcceEeeccchH
Confidence            9999999999999999999999999999999999999999888999999999998887776 788999999999999999


Q ss_pred             HHHHHHHHhhccCCC-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHhhcCCCCCHHHHHHH
Q psy4542         161 VTGLRLLHKSIKQGA-VQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQFETM  239 (273)
Q Consensus       161 ~i~v~~l~~~~~~~~-~~~~~~l~~~~~a~~~L~~~l~~i~~Yl~~V~~g~~~~d~~ilr~l~~~~~~lp~~~~~~f~~~  239 (273)
                      |||++++.+...+.+ ..+..++..+.+|+++|+.||+.+++||++|.+|+.++|++|||+|+++|+++|.+++++|+++
T Consensus       162 ~igve~l~r~~~~~~~~~l~~~l~~~~~al~~L~~~l~~i~~Yl~~V~~g~~~~d~~IlR~l~~~~~~lP~l~~~~f~~~  241 (280)
T cd08062         162 EVGVEHLLRDIKDVTVSTLSTRVTNKLNSLKGLQSKLKEIKDYLQLVVEGKLPINHQIIYNLQDIFNLLPNLNLPELVKA  241 (280)
T ss_pred             HHHHHHHHhhccCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence            999999999766444 3367799999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhhhHHHHHHHHHHHHHHHHHHHHHHhcc
Q psy4542         240 FNSNIKDLLMIMTLSQLTKTQLLLNEKLTLLT  271 (273)
Q Consensus       240 ~~~~~~D~lmv~yLs~ltk~~~~l~e~l~~~~  271 (273)
                      |+++.||++|++|||+|||+|++|+|++++..
T Consensus       242 ~~~~~nD~lmv~yLs~l~k~~~~l~~~~~~~~  273 (280)
T cd08062         242 FAVKTNDQMLVIYLSSLIRSVIALHNLINNKI  273 (280)
T ss_pred             HHhhccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999864

This family includes lid subunits of the 26 S proteasome regulatory particles, Rpn7 (PSMD7; proteasome 26S non-ATPase subunit 7; p44), and Rpn8 (PSMD8; proteasome 26S non-ATPase subunit 8; p40; Mov34). Rpn7 is known to be critical for the integrity of the 26 S proteasome complex by establishing a correct lid structure. It is necessary for the incorporation/anchoring of Rpn3 and Rpn12 to the lid and essential for viability and normal mitosis. Rpn7 and Rpn8 are ATP-independent components of the 19S regulator subunit, and contain the MPN structural motif on its N-terminal region. However, while they show a typical MPN metalloprotease fold, they lack the canonical JAMM motif, and therefore do not show catalytic isopeptidase activity. It is suggested that Rpn7 function is primarily structural.

>cd08064 MPN_eIF3f Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in eIF3f

Probab=100.00  E-value=1.4e-70  Score=487.85  Aligned_cols=261  Identities=52%  Similarity=0.904  Sum_probs=249.4

Q ss_pred             EEEehhhHhHHHHHHhhccCCCceEEEEEeeeEeCCEEEEEEEEeeccccCchhhHhhHHHHHHHHHHHhhhCCCCCeEE
Q psy4542           7 IKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAELNYAQDMFEMNQKVNPSELIVG   86 (273)
Q Consensus         7 V~lhPlvll~I~dh~~r~~~~~~~v~G~LLG~~~~~~veV~~sF~vp~~~~~~~~~id~~~~~~m~~l~k~v~p~~~iVG   86 (273)
                      |+|||+|+|+|+|||+|++.++.+|+|+|||++.++.+||+|||++|++++++.+.+|.+|+++|+++||+|||++.+||
T Consensus         1 v~ihPlVll~I~dH~~R~~~~~~~V~G~LLG~~~~~~veItnsF~~p~~~~~~~~~~d~~y~~~m~~~~kkv~~~~~vVG   80 (265)
T cd08064           1 VRVHPVVLFSILDSYERRNEGQERVIGTLLGTRSEGEVEITNCFAVPHNESEDQVAVDMEYHRTMYELHQKVNPKEVIVG   80 (265)
T ss_pred             CEEccHHHHhHHHHHhhhcCCCcEEEEEEEEEEeCCEEEEEeCeecceeCCCCeEEEcHHHHHHHHHHHHHhCCCCcEEe
Confidence            68999999999999999987889999999999999999999999999998888889999999999999999999999999


Q ss_pred             eecCCCCCCcccHHHHHHHHhhCC--CcEEEEEcCCCCCCCcceeEEEeeecCCCCCcccceeeeeceEEecCchHHHHH
Q psy4542          87 WWATGDEVTSQSSVIHDYYIRECK--NPVHMTLDTNLKGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNSEVTGL  164 (273)
Q Consensus        87 WY~~g~~~~~~~~~i~~~~~~~~~--~pi~L~~D~~~~~~~l~ikay~~~~~~~~~~~~~~~f~~ip~~i~~~e~E~i~v  164 (273)
                      ||++|+++++.+..||++|++.++  +||+|++||..+++++|++||++.+.++.+++.+..|+++|++|.++++||||+
T Consensus        81 WY~tg~~~~~~~~~Ih~~~~~~~~~~~pI~L~~D~~~~~~~l~i~ay~~~~~~~~~~~~~~~F~~ip~~i~~~eaE~i~v  160 (265)
T cd08064          81 WYATGSEITEHSALIHDYYSRECTSYNPIHLTVDTSLDDGKMSIKAYVSSPLGVPGKTLGSMFVPIPLELLYSEAERVAL  160 (265)
T ss_pred             eeeCCCCCCccHHHHHHHHHhhCCCCCCEEEEEeCCCCCCCcceEEEEEEecccCCCCcceEEEEcceeeecCcHHHHHH
Confidence            999999999999999999999988  999999999988779999999999988877778899999999999999999999


Q ss_pred             HHHHhhccCCC--CCccchHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHhhcCCCCCHHHHHHHHHh
Q psy4542         165 RLLHKSIKQGA--VQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQFETMFNS  242 (273)
Q Consensus       165 ~~l~~~~~~~~--~~~~~~l~~~~~a~~~L~~~l~~i~~Yl~~V~~g~~~~d~~ilr~l~~~~~~lp~~~~~~f~~~~~~  242 (273)
                      +++.+...+.+  ..+.++++++.+++++|..||+.+++||++|.+|+.++|++|||+|+++++++|.+++++|+++|++
T Consensus       161 ~~l~~~~~~~~~~~~~~~~l~~~~~al~~L~~~l~~i~~Yl~~V~~g~~~~d~~i~r~l~~~~~~lp~~~~~~f~~~~~~  240 (265)
T cd08064         161 DLLAKTLASPSRSAPLTSDLEQLEASLEKLQEMLDRVLRYVEDVLAGKVKADNAIGRYLMDALTSVPKLDPEEFEKMFNS  240 (265)
T ss_pred             HHHHhhccCCcccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHh
Confidence            99999887654  2366899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHH
Q psy4542         243 NIKDLLMIMTLSQLTKTQLLLNEKL  267 (273)
Q Consensus       243 ~~~D~lmv~yLs~ltk~~~~l~e~l  267 (273)
                      +.||++|++|||+|||+|++|+|||
T Consensus       241 ~~~D~lmv~YLs~l~k~~~~l~ekl  265 (265)
T cd08064         241 SLQDLLMVTYLSNLTKTQLALAEKL  265 (265)
T ss_pred             hcchHHHHHHHHHHHHHHHHHhhhC
Confidence            9999999999999999999999996

Eukaryotic translation initiation factor 3 (eIF3) subunit F (eIF3F; EIF3S5; eIF3-p47; eukaryotic translation initiation factor 3, subunit 5 epsilon, 47kDa; Mov34/MPN/PAD-1 family protein) is an evolutionarily non-conserved subunit of the functional core that comprises eIF3a, eIF3b, eIF3c, eIF3e, eIF3f, and eIF3h, and contains the MPN domain. However, it lacks the canonical JAMM motif, and therefore does not show catalytic isopeptidase activity. It has been shown that eIF3f mRNA expression is significantly decreased in many human tumors including pancreatic cancer and melanoma. EIF3f is a potent inhibitor of HIV-1 replication; it mediates restriction of HIV-1 expression through several factors including the serine/arginine-rich (SR) protein 9G8, and cyclin-dependent kinase 11 (CDK11). EIF3f phosphorylation by CDK11 is important in regulating its function in translation and ap

>cd08063 MPN_CSN6 Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in COP9 signalosome complex subunit 6

Probab=100.00  E-value=1.4e-68  Score=480.04  Aligned_cols=266  Identities=24%  Similarity=0.398  Sum_probs=248.4

Q ss_pred             ceEEEehhhHhHHHHHHhhccCC----CceEEEEEeeeEeCCEEEEEEEEeeccccCc-hhhHhhHHHHHHHHHHHhhhC
Q psy4542           5 VSIKVHPVVLFQIVDAFERRNLD----SHRVIGTLLGTVDKGVVEVTNCFCVPHKEYD-EMVEAELNYAQDMFEMNQKVN   79 (273)
Q Consensus         5 ~~V~lhPlvll~I~dh~~r~~~~----~~~v~G~LLG~~~~~~veV~~sF~vp~~~~~-~~~~id~~~~~~m~~l~k~v~   79 (273)
                      .+|.|||+|||+|+|||+|+..+    +.+|+|+|||.+++++|||+|||++|+.+++ +.+.+|.+|+++|+++||+||
T Consensus         1 ~~V~lHPlVll~I~dH~~R~~~~~~~~~~~v~G~LLG~~~~~~veItnsF~~p~~~~~~~~~~id~~y~~~m~~~~kkV~   80 (288)
T cd08063           1 LSVKLHPLVILNISDHITRHRAQSQSEPPRVVGALLGQQDGREIEIENSFELKYDTNEDGEIVLDKEFLETRLEQFKQVF   80 (288)
T ss_pred             CeEEEecceeeeHHhhHhHHhccCCCCCCcEEEEEEEEEcCCEEEEEEEEecccccCCCCceeeCHHHHHHHHHHHHHhc
Confidence            47999999999999999998653    5899999999999999999999999998876 678999999999999999999


Q ss_pred             CCCCeEEeecCCCC-CCcccHHHHHHHHhhCCCcEEEEEcCCC--CCCCcceeEEEeeecCCCCCcccceeeeeceEEec
Q psy4542          80 PSELIVGWWATGDE-VTSQSSVIHDYYIRECKNPVHMTLDTNL--KGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVIC  156 (273)
Q Consensus        80 p~~~iVGWY~~g~~-~~~~~~~i~~~~~~~~~~pi~L~~D~~~--~~~~l~ikay~~~~~~~~~~~~~~~f~~ip~~i~~  156 (273)
                      |++.+||||++|+. ++..+..||++|++.+++||+|++||..  +++++|++||++...+.++ ..+..|+|+|++|++
T Consensus        81 ~~~~vVGWY~tg~~~~~~~~~~Ih~~~~~~~~~pv~L~~D~~~~~~~~~lpi~ay~s~~~~~~~-~~~~~F~~i~~~i~~  159 (288)
T cd08063          81 KDLDFVGWYTTGPGGPTESDLPIHKQILEINESPVLLLLDPEANASGKDLPVTIYESVLELVDG-EATLRFRELPYTIET  159 (288)
T ss_pred             cCCceEEEEecCCCCCCHHHHHHHHHHHhhCCCcEEEEEccccccCCCCCceeEEEEEEeccCC-ccccEEEeeeeEEEe
Confidence            99999999999998 9999999999999999999999999998  5789999999999877655 566889999999999


Q ss_pred             CchHHHHHHHHHhhccCCC--C-CccchHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHhhcCCCCCH
Q psy4542         157 YNSEVTGLRLLHKSIKQGA--V-QPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQ  233 (273)
Q Consensus       157 ~e~E~i~v~~l~~~~~~~~--~-~~~~~l~~~~~a~~~L~~~l~~i~~Yl~~V~~g~~~~d~~ilr~l~~~~~~lp~~~~  233 (273)
                      +|+||||++++++.....+  . .+..+++.+.+|+++|+.||+.|++||++|.+|+.++|++|||+|+++|+++|.++.
T Consensus       160 ~eaErIgv~~l~~~~~~~~~~~~~~~~~l~~~~~al~~L~~rl~~i~~Yl~~V~~g~~~~d~~ilR~l~~~~~~lP~~~~  239 (288)
T cd08063         160 GEAERIGVDHVARGGASGSSEKSTVAAHLQAQHNAIKMLNSRVELILEYLKAVPVGEVPPDHSILRSISALCSRLPVLKS  239 (288)
T ss_pred             ccCceeeHHHHHhcCCCCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHhCccCCh
Confidence            9999999999998874322  2 367899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHhcc
Q psy4542         234 EQFETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLLT  271 (273)
Q Consensus       234 ~~f~~~~~~~~~D~lmv~yLs~ltk~~~~l~e~l~~~~  271 (273)
                      ++|+++|+++.||++|++|||++||++.+|+|+++++.
T Consensus       240 ~~~~~~~~~~~~D~lmv~yLs~lt~~~~~l~~~~~k~~  277 (288)
T cd08063         240 EAFREELLAEYNDVLLVAYLATLTKGCNTLNELVDKFN  277 (288)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999875

CSN6 (COP9 signalosome subunit 6; COP9 subunit 6; MOV34 homolog, 34 kD) is one of the eight subunits of COP9 signalosome, a highly conserved protein complex with diverse functions, including several important intracellular pathways such as the ubiquitin/proteasome system, DNA repair, cell cycle, developmental changes, and some aspects of immune responses. CSN6 is an MPN-domain protein that directly interacts with the MPN+-domain subunit CSN5. It is cleaved during apoptosis by activated caspases. CSN6 processing occurs in CSN/CRL (cullin-RING Ub ligase) complexes and is followed by the cleavage of Rbx1, the direct interaction partner of CSN6. CSN6 cleavage enhances CSN-mediated deneddylating activity (i.e. cleavage of ubiquitin-like protein Nedd8 (neural precursor cell expressed, developmentally downregulated 8)) in the cullin 1 in cells. The cleav

>KOG1556|consensus

Probab=100.00  E-value=1.1e-60  Score=402.20  Aligned_cols=265  Identities=29%  Similarity=0.477  Sum_probs=249.4

Q ss_pred             ceEEEehhhHhHHHHHHhhccC-CCceEEEEEeeeEeCCEEEEEEEEeeccccCchh---hHhhHHHHHHHHHHHhhhCC
Q psy4542           5 VSIKVHPVVLFQIVDAFERRNL-DSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEM---VEAELNYAQDMFEMNQKVNP   80 (273)
Q Consensus         5 ~~V~lhPlvll~I~dh~~r~~~-~~~~v~G~LLG~~~~~~veV~~sF~vp~~~~~~~---~~id~~~~~~m~~l~k~v~p   80 (273)
                      .+|.+||||+|+++|||.|... +++||+|+|||..+++.+.|+|||++|++|++..   |++|.+|++.|+++|+++|.
T Consensus         9 ~kViVhPLVLLS~VDhynR~~k~~~KRvvGvLLG~~~~~~i~vtnSfAvpFeEDdk~~svWFlDh~Y~esM~~mfkKvNa   88 (309)
T KOG1556|consen    9 EKVIVHPLVLLSAVDHYNRVGKDTNKRVVGVLLGSWNGDVIDVTNSFAVPFEEDDKDKSVWFLDHNYIESMFGMFKKVNA   88 (309)
T ss_pred             ceeeeehhHHHHHHHHHhhhccCcCceEEEEEEecCCCCeEEeecceeccccccCCCCceEEeccHHHHHHHHHHHHhcc
Confidence            4799999999999999999854 3689999999999999999999999999997654   89999999999999999999


Q ss_pred             CCCeEEeecCCCCCCcccHHHHHHHHhhCCCcEEEEEcCCCCCCCcceeEEEeeecCCCCC-cccceeeeeceEEecCch
Q psy4542          81 SELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNMGIKGYVHVPIGVPGG-KSGIMFTQIPAEVICYNS  159 (273)
Q Consensus        81 ~~~iVGWY~~g~~~~~~~~~i~~~~~~~~~~pi~L~~D~~~~~~~l~ikay~~~~~~~~~~-~~~~~f~~ip~~i~~~e~  159 (273)
                      +|.+||||+|||.+.++|+.|++.+.+++++|+++++|..+.+-.||..||...+..-.++ ..+..|+.+|++|+++||
T Consensus        89 kekivGWYhTGPkl~~nDl~In~l~k~y~pnpvLvIIdvkpk~~gLPT~AY~aVeev~dDgt~t~ktF~Hvps~I~AeEA  168 (309)
T KOG1556|consen   89 KEKVVGWYHTGPKLRENDLDINELLKRYVPNPVLVIIDVKPKELGLPTEAYIAVEEVKDDGTPTSKTFVHVPSEIEAEEA  168 (309)
T ss_pred             hhheeeeeccCCccccchhhHHHHHhhcCCCceEEEEecccccCCCCchheeeeeeeecCCCCccceeEecCcccchhHH
Confidence            9999999999999999999999999999999999999999988899999999987644444 456789999999999999


Q ss_pred             HHHHHHHHHhhccCCCCC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHhhcCCCCCHHHHHH
Q psy4542         160 EVTGLRLLHKSIKQGAVQ-PLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQFET  238 (273)
Q Consensus       160 E~i~v~~l~~~~~~~~~~-~~~~l~~~~~a~~~L~~~l~~i~~Yl~~V~~g~~~~d~~ilr~l~~~~~~lp~~~~~~f~~  238 (273)
                      |.||++|+.|...+.+.+ +...+.++..+++.|+.++..|..||++|.+|+.|.|++|+.+++++++.+|.+...+|.+
T Consensus       169 EEvGVEHLlRDikd~t~gtla~rit~ql~sLkgl~~~L~eI~~YL~~Vi~g~lpiNh~Il~~lQdvfNllP~l~~~~~~~  248 (309)
T KOG1556|consen  169 EEVGVEHLLRDIKDTTVGTLATRITNQLMSLKGLQSRLREIRSYLDKVIDGKLPINHEILYQLQDVFNLLPNLTRNELVK  248 (309)
T ss_pred             HHhhHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHhhCccccchhhhh
Confidence            999999999999987755 8899999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhhhhHHHHHHHHHHHHHHHHHHHHHHh
Q psy4542         239 MFNSNIKDLLMIMTLSQLTKTQLLLNEKLTL  269 (273)
Q Consensus       239 ~~~~~~~D~lmv~yLs~ltk~~~~l~e~l~~  269 (273)
                      .|+-..||.||+.|+|+|+|+..+|++++++
T Consensus       249 a~~vktndql~~iY~sslvrsViAlhdLi~N  279 (309)
T KOG1556|consen  249 AFNVKTNDQLMVIYLSSLVRSVIALHDLINN  279 (309)
T ss_pred             hhccccCceeeeeeHHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999976

>KOG3050|consensus

Probab=100.00  E-value=1.8e-60  Score=400.31  Aligned_cols=269  Identities=22%  Similarity=0.357  Sum_probs=248.7

Q ss_pred             CCCceEEEehhhHhHHHHHHhhccCC--C--ceEEEEEeeeEeCCEEEEEEEEeeccccCchhhHhhHHHHHHHHHHHhh
Q psy4542           2 SLNVSIKVHPVVLFQIVDAFERRNLD--S--HRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAELNYAQDMFEMNQK   77 (273)
Q Consensus         2 ~~~~~V~lhPlvll~I~dh~~r~~~~--~--~~v~G~LLG~~~~~~veV~~sF~vp~~~~~~~~~id~~~~~~m~~l~k~   77 (273)
                      +++.+|.+|||||+||+|||+|.+.+  +  ++|+|+|+|.+.|+.|||.|||++..+..++...+|.+|+.++.++||+
T Consensus         6 S~s~tv~LHPLVImniSdH~tR~k~Q~gpp~~~VyGaliG~Q~GR~vEi~NSFeL~~d~~~~~~~~dke~l~kk~eqykq   85 (299)
T KOG3050|consen    6 SGSVTVKLHPLVIMNISDHYTRVKTQLGPPVKQVYGALIGKQRGRNVEIMNSFELKMDTEEDTETIDKEYLEKKEEQYKQ   85 (299)
T ss_pred             CCceeEEeccEEEEehhHHHHHHHhhcCCcHHHhhhhheecccCceEEEeeeeEEEecchhhhhhccHHHHHHHHHHHHH
Confidence            36789999999999999999998653  2  3899999999999999999999999877666567999999999999999


Q ss_pred             hCCCCCeEEeecCCCCCCcccHHHHHHHHhhCCCcEEEEEcCCCC-CCCcceeEEEeeecCCCCCcccceeeeeceEEec
Q psy4542          78 VNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNLK-GPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVIC  156 (273)
Q Consensus        78 v~p~~~iVGWY~~g~~~~~~~~~i~~~~~~~~~~pi~L~~D~~~~-~~~l~ikay~~~~~~~~~~~~~~~f~~ip~~i~~  156 (273)
                      |||++.++|||++|.+.++.|+.||++.+..++.|++|.++|... ..+.|++.|++. ..+.+|.....|+|+.|.+.+
T Consensus        86 VFpdl~vlGwYttG~d~t~sd~~i~k~l~~i~esplflkLNp~t~~t~~~pv~lfese-~dvidg~~q~~f~~~tytl~t  164 (299)
T KOG3050|consen   86 VFPDLYVLGWYTTGSDPTPSDIHIHKQLMDINESPLFLKLNPATNHTDKDPVTLFESE-IDVIDGEAQMLFVPLTYTLAT  164 (299)
T ss_pred             hcccceEEEEeecCCCCChhhhHHHHHHHhhhcCceEEEecchhccccCCCceeeeee-heeecCcceeeeeeeEEEEee
Confidence            999999999999999999999999999999999999999999876 455699999985 455677788999999999999


Q ss_pred             CchHHHHHHHHHhhccCCC---CCccchHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHhhcCCCCCH
Q psy4542         157 YNSEVTGLRLLHKSIKQGA---VQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQ  233 (273)
Q Consensus       157 ~e~E~i~v~~l~~~~~~~~---~~~~~~l~~~~~a~~~L~~~l~~i~~Yl~~V~~g~~~~d~~ilr~l~~~~~~lp~~~~  233 (273)
                      +||||||+||+++-...++   .++..++..+..|++||+.|++.|++|+++|.+|++++|.+|+|+...+|..||.++.
T Consensus       165 eEaERIgVdHVA~lt~~~gge~s~VaeHl~AQdsA~~ml~~Rvklil~Y~k~~e~G~l~~N~eILrea~~L~~~Lp~~~~  244 (299)
T KOG3050|consen  165 EEAERIGVDHVARLTPSDGGEGSSVAEHLEAQDSAIKMLDNRVKLILAYLKKVEAGTLQPNFEILREAYALCHRLPVMES  244 (299)
T ss_pred             hhhhhccchhheeeccCCCCCcchHHHHHhhHHHHHHHHhhHHHHHHHHHhhhhcCCcCccHHHHHHHHHHHhhccccch
Confidence            9999999999999876542   4578999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHhcc
Q psy4542         234 EQFETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLLT  271 (273)
Q Consensus       234 ~~f~~~~~~~~~D~lmv~yLs~ltk~~~~l~e~l~~~~  271 (273)
                      ++|.+.|..++||+.+++||+.+|+++..+++.+|+|.
T Consensus       245 ~~F~d~F~~e~nd~~l~syl~~iT~~~~nMn~~vnKfn  282 (299)
T KOG3050|consen  245 EKFQDNFYMECNDVGLISYLGTITKCCNNMNEVVNKFN  282 (299)
T ss_pred             HHHhHHHHHhcchhhHHHHHHHHHHhhccHHHHHHHHH
Confidence            99999999999999999999999999999999999874

>cd08057 MPN_euk_non_mb Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity (non metal-binding); eukaryotic

Probab=100.00  E-value=3e-40  Score=272.03  Aligned_cols=150  Identities=30%  Similarity=0.539  Sum_probs=137.1

Q ss_pred             EEEehhhHhHHHHHHhhccCCCceEEEEEeeeEeCCEEEEEEEEeeccccCchhhHhhHHHHHHHHHHHhhhCCCCCeEE
Q psy4542           7 IKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAELNYAQDMFEMNQKVNPSELIVG   86 (273)
Q Consensus         7 V~lhPlvll~I~dh~~r~~~~~~~v~G~LLG~~~~~~veV~~sF~vp~~~~~~~~~id~~~~~~m~~l~k~v~p~~~iVG   86 (273)
                      |+|||+|+|+|+|||+|+..++.+++|+|||.+.++.++|+|||++|++++++.+.+|.+|+++|++++|+|+|++.+||
T Consensus         1 V~ihplvll~I~dh~~R~~~~~~~v~G~LlG~~~~~~veV~nsF~lp~~~~~~~~~~d~~y~~~m~~~~~~v~~~~~vVG   80 (157)
T cd08057           1 VQLHPLVLLNISDHYTRRKYGIKRVIGVLLGYVDGDKIEVTNSFELPFDEEEESIFIDTEYLEKRYNLHKKVYPQEKIVG   80 (157)
T ss_pred             CEEccHHHhhHHHHHHhccCCCCeEEEEEEeEEeCCEEEEEEeEEccccCCCcchhhhHHHHHHHHHHHHHhCCCCCEEE
Confidence            68999999999999999876678999999999999999999999999988777788999999999999999999999999


Q ss_pred             eecCCCC----CCcccHHHHHHHHhh-CCCcEEEEEcCCC--CCCCcceeEEEeeecCCCCCcccceeeeeceEEecCch
Q psy4542          87 WWATGDE----VTSQSSVIHDYYIRE-CKNPVHMTLDTNL--KGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVICYNS  159 (273)
Q Consensus        87 WY~~g~~----~~~~~~~i~~~~~~~-~~~pi~L~~D~~~--~~~~l~ikay~~~~~~~~~~~~~~~f~~ip~~i~~~e~  159 (273)
                      ||++|+.    ++..+..||++|+.. .++||+|++||..  .+++++++||++.+...       .+.++|+++.++|+
T Consensus        81 WY~~~~~~~~~~~~~~~~i~~~~~~~~~~~~v~L~~D~~~~~~~~~l~i~ay~~~~~~~-------~~~~~~~~i~~~e~  153 (157)
T cd08057          81 WYSIGSNNSNEISKSDNSLHSQFSLISEENPLILILDPSLQSDSEKLEISTFTSAQREE-------NGAEITYEIGTEET  153 (157)
T ss_pred             EEeecCCCCCCCChhHHHHHHHHHhccCCCCEEEEEcCCcccCCCcccEEEEEEecCCC-------CCceeeeEEecccc
Confidence            9999987    889999999999987 7889999999987  37899999999986432       23399999999999


Q ss_pred             HHHH
Q psy4542         160 EVTG  163 (273)
Q Consensus       160 E~i~  163 (273)
                      ||||
T Consensus       154 E~I~  157 (157)
T cd08057         154 ERIA  157 (157)
T ss_pred             cccC
Confidence            9985

This family contains MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+) domains variants lacking key residues in the JAB1/MPN/Mov34 metalloenzyme (JAMM) motif and are unable to coordinate a metal ion. Comparisons of key catalytic and metal binding residues explain why the MPN-containing proteins Rpn7/PSMD7, Rpn8/PSMD8, CSN6, Prp8p, and the translation initiation factor 3 subunits f and h do not show catalytic isopeptidase activity. It has been proposed that the MPN domain in these proteins has a primarily structural function. Rpn7 is known to be critical for the integrity of the 26S proteasome complex by establishing a correct lid structure. It is necessary for the incorporation/anchoring of Rpn3 and Rpn12 to the lid and essential for viability and normal mitosis. CSN6 is a highly conserved protein complex with diverse functions, including several import

>cd08065 MPN_eIF3h Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in eIF2h

Probab=100.00  E-value=3.2e-34  Score=254.71  Aligned_cols=199  Identities=22%  Similarity=0.279  Sum_probs=155.8

Q ss_pred             eEEEehhhHhHHHHHHhhccCCCceEEEEEeeeEeCCEEEEEEEEeeccccCchh---hHhhHHHHHHHHHHHhhhCCCC
Q psy4542           6 SIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEM---VEAELNYAQDMFEMNQKVNPSE   82 (273)
Q Consensus         6 ~V~lhPlvll~I~dh~~r~~~~~~~v~G~LLG~~~~~~veV~~sF~vp~~~~~~~---~~id~~~~~~m~~l~k~v~p~~   82 (273)
                      +|.|||+|+++|+|||.|+  .+.+|+|+|||...++.+||+|||++|+.++++.   ...|.+|+.+|+++++++++++
T Consensus         2 ~V~I~~~vllkIv~H~~~~--~p~~v~G~LLG~~~~~~leVtn~Fp~P~~~~~~~~~~~~~~~~yq~~m~~~~r~v~~~e   79 (266)
T cd08065           2 SVQIDGLVVLKIIKHCKEE--LPELVQGQLLGLDVGGTLEVTNCFPFPKSEEDDSDRADEDIADYQLEMMRLLREVNVDH   79 (266)
T ss_pred             EEEEeHHHHHHHHHHHhcC--CCcEEEEEEeeeEcCCEEEEEeccCCCCCCCCCcchhhhhHHHHHHHHHHHHHHhCCCC
Confidence            6999999999999999997  4899999999999999999999999999887654   5667899999999999999999


Q ss_pred             CeEEeecCCC-CCCcccHHHHHHHHh--hCCCcEEEEEcCCCC-CCCcceeEEEeeecCCC---------------CCcc
Q psy4542          83 LIVGWWATGD-EVTSQSSVIHDYYIR--ECKNPVHMTLDTNLK-GPNMGIKGYVHVPIGVP---------------GGKS  143 (273)
Q Consensus        83 ~iVGWY~~g~-~~~~~~~~i~~~~~~--~~~~pi~L~~D~~~~-~~~l~ikay~~~~~~~~---------------~~~~  143 (273)
                      .+||||++++ ....+...++.+|..  ..+++|+|++||..+ +|.++++||++++.+++               +.+.
T Consensus        80 ~iVGWY~S~p~~~~~~~s~id~~~~~q~~~~~~v~Li~D~~~s~~g~l~lkAyrl~~~~~~~~~~~~~~~~~l~~~~~~~  159 (266)
T cd08065          80 NHVGWYQSTYLGSFFTRDLIETQYNYQEAIEESVVLVYDPSKTSQGSLSLKAYRLSEKFMELYKEGKFSTESLREANLTF  159 (266)
T ss_pred             cEEEeEeecCCCCcCCHHHHHHHHHHhccCCCCEEEEECCCcccccceeeEEEEEcHHHHHHhhcCCcCHHHHHHhcCch
Confidence            9999999988 222224556666554  447899999999974 78899999999988765               3467


Q ss_pred             cceeeeeceEEecCchHHHHHHHHHhhccCC--C--------C-CccchHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy4542         144 GIMFTQIPAEVICYNSEVTGLRLLHKSIKQG--A--------V-QPLSELTLVSEAADKLTVLIDHVLRYVDEV  206 (273)
Q Consensus       144 ~~~f~~ip~~i~~~e~E~i~v~~l~~~~~~~--~--------~-~~~~~l~~~~~a~~~L~~~l~~i~~Yl~~V  206 (273)
                      +.+|.+||++|.++..+.+.+..+.......  +        . .+.+.++.+..+++.|......+..|-+.+
T Consensus       160 ~~if~eiPv~i~n~~l~~~~L~~l~~~~~~~~~~~~~l~l~~~~~le~~l~~l~~~id~l~~e~~~~~~y~r~~  233 (266)
T cd08065         160 SNIFEEIPVVIRNSHLVNALLSELEEDSPSSQSDFDRLDLSTNSFLEKNLELLMESVDELSQEQGKFNYYQRNL  233 (266)
T ss_pred             hcEEEEEEEEEEchHHHHHHHHhcccCCCcccCCcccccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999999999999999886655432  1        0 133444444444445544444444444443

Eukaryotic translation initiation factor 3 (eIF3) subunit h (eIF3h; eIF3 subunit 3; eIF3S3; eIF3-gamma; eIF3-p40) is an evolutionarily non-conserved subunit of the functional core that comprises eIF3a, eIF3b, eIF3c, eIF3e, eIF3f, and eIF3h, and contains the MPN domain. However, it lacks the canonical JAMM motif, and therefore does not show catalytic isopeptidase activity.Together with eIF3e and eIF3f, eIF3h stabilizes the eIF3 complex. Results suggest that eIF3h regulates cell growth and viability, and that over-expression of the gene may provide growth advantage to prostate, breast, and liver cancer cells. For example, EIF3h gene amplification is common in late-stage prostate cancer suggesting that it may be functionally involved in the progression of the disease. It has been shown that coamplification of MYC, a well characterized oncogene involved in cell growth, different

>cd08069 MPN_RPN11_CSN5 Mov34/MPN/PAD-1 family: proteasomal regulatory protein Rpn11 and signalosome complex subunit CSN5

Probab=99.97  E-value=3.3e-29  Score=222.38  Aligned_cols=168  Identities=16%  Similarity=0.237  Sum_probs=151.2

Q ss_pred             ceEEEehhhHhHHHHHHhhccCCCceEEEEEeeeEeCCEEEEEEEEeeccccCchhhHhhHHHHHHHHH--HHhhhCCCC
Q psy4542           5 VSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAELNYAQDMFE--MNQKVNPSE   82 (273)
Q Consensus         5 ~~V~lhPlvll~I~dh~~r~~~~~~~v~G~LLG~~~~~~veV~~sF~vp~~~~~~~~~id~~~~~~m~~--l~k~v~p~~   82 (273)
                      .+|.|+|+|+++|++|+.|.  .+..|+|+|+|..+++.++|++||++|+.++++.+..+.+|++.|.+  +++++++++
T Consensus        10 ~~V~Is~~allkil~Ha~~~--~p~Ev~GlLlG~~~~~~v~Vt~~fp~p~~~t~~~v~~~~e~~~~m~~~~~~~~~~~~~   87 (268)
T cd08069          10 EKVYISSLALLKMLKHARAG--GPIEVMGLMLGKVDDYTIIVVDVFALPVEGTETRVNAQDEFQEYMVQYEMLKQTGRPE   87 (268)
T ss_pred             cEEEECHHHHHHHHHHHhcc--CCceEEEEEEeeecCCeEEEEEEEECCcCCCCCceeccHHHHHHHHHHHHHHHhCCCc
Confidence            57999999999999999884  57899999999999999999999999988877777777799999999  999999999


Q ss_pred             CeEEeecCCCC----CCcccHHHHHHHHhhCCCcEEEEEcCCCC--CCCcceeEEEeeecCCCC----C-----------
Q psy4542          83 LIVGWWATGDE----VTSQSSVIHDYYIRECKNPVHMTLDTNLK--GPNMGIKGYVHVPIGVPG----G-----------  141 (273)
Q Consensus        83 ~iVGWY~~g~~----~~~~~~~i~~~~~~~~~~pi~L~~D~~~~--~~~l~ikay~~~~~~~~~----~-----------  141 (273)
                      .+||||++++.    ++..|+.+|..|++..+++|+|++||..+  +|++.++||++.+.+...    .           
T Consensus        88 ~vVGWYHSHP~~g~~~S~~Dv~tq~~yq~~~~~~V~lViDP~~t~~~g~~~i~Afr~~~~~~~~~~~~~~~s~~~~~~~~  167 (268)
T cd08069          88 NVVGWYHSHPGYGCWLSGIDVNTQQLNQQLQDPFVAVVVDPIRSLVKGKVVIGAFRTIPPGYKPLEPRQTTSNIGHLPKP  167 (268)
T ss_pred             eeEeeeccCCCcCCcCCHHHHHHHHHHHhcCCCcEEEEEeCCccccCCcceeeEEEEECccccccCcccCccccCccCcH
Confidence            99999999764    89999999999999999999999999765  688999999999887542    2           


Q ss_pred             ------cccceeeeeceEEecCchHHHHHHHHHhhccCC
Q psy4542         142 ------KSGIMFTQIPAEVICYNSEVTGLRLLHKSIKQG  174 (273)
Q Consensus       142 ------~~~~~f~~ip~~i~~~e~E~i~v~~l~~~~~~~  174 (273)
                            ..+..|.+||+++..++.|+..+..+.+..+..
T Consensus       168 ~~~~~~~~~~~y~~l~i~~~~s~l~~~~L~~l~~~~w~~  206 (268)
T cd08069         168 KIEDFGGHNKQYYSLPIEYFKSSLDRKLLLNLWNKYWVN  206 (268)
T ss_pred             HHHHhCchhcEEEEeeeEEecCHHHHHHHHHHHHHhHHH
Confidence                  257889999999999999999999999887754

This family contains proteasomal regulatory protein Rpn11 (26S proteasome regulatory subunit rpn11; PAD1; POH1; RPN11; PSMD14; Rpn11 subunit of the 19S-proteasome; regulatory particle number 11) and signalosomal CSN5 (COP9 signalosome complex subunit 5; COP9 complex homolog subunit 5; c-Jun activation domain-binding protein-1; CSN5/JAB1; JAB1). COP9 signalosome (CSN) and the proteasome lid are paralogous complexes and their respective subunits CSN5 and Rpn11 are most closely related between the two complexes, both containing the conserved JAMM (JAB1/MPN/Mov34 metalloenzyme) motif involved in zinc ion coordination and providing the active site for isopeptidase activity. Rpn11 is responsible for substrate deubiquitination during proteasomal degradation. It is essential for maintaining a correct cell cycle and normal mitochondrial morphology and physiology; mutations i

>PF01398 JAB: JAB1/Mov34/MPN/PAD-1 ubiquitin protease; InterPro: IPR000555 Members of this family are found in proteasome regulatory subunits, eukaryotic initiation factor 3 (eIF3) subunits and regulators of transcription factors

Probab=99.94  E-value=6.4e-27  Score=182.56  Aligned_cols=108  Identities=34%  Similarity=0.587  Sum_probs=93.2

Q ss_pred             CCCceEEEehhhHhHHHHHHhhccCCCceEEEEEeeeEeCC-EEEEEEEEeeccccCchhh-HhhHHHHHHHHHHHhhhC
Q psy4542           2 SLNVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKG-VVEVTNCFCVPHKEYDEMV-EAELNYAQDMFEMNQKVN   79 (273)
Q Consensus         2 ~~~~~V~lhPlvll~I~dh~~r~~~~~~~v~G~LLG~~~~~-~veV~~sF~vp~~~~~~~~-~id~~~~~~m~~l~k~v~   79 (273)
                      ++..+|.|||+|+++|+||++|+..  .+|+|+|+|+++++ .++|++||++|+.++++.. ..+.++.++|++++++++
T Consensus         1 ~s~~~V~i~p~vll~i~~h~~r~~~--~~v~G~LlG~~~~~~~v~I~~~f~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (114)
T PF01398_consen    1 QSVQTVQIHPLVLLKIIDHATRSSP--NEVIGLLLGTQDGDNTVEITNSFPVPHSESEDDCDMDDEDFQKKMIELLKKVN   78 (114)
T ss_dssp             -SCEEEEEEHHHHHHHHHHHHHHHC--TEEEEEEEEEEETT-EEEEEEEEEESEEEESSEEEEECCHHHHHHHHHHHHCS
T ss_pred             CCcEEEEECHHHHHHHHHHHhcCCC--CEEEEEEEEEecCceEEEEEEEEEeeEecCccccccchhhHHHHHHhhhcccc
Confidence            3678999999999999999999853  49999999999999 9999999999998765532 345666689999999999


Q ss_pred             CCCCeEEeecCCCCC----CcccHHHHHHHHhhCCC
Q psy4542          80 PSELIVGWWATGDEV----TSQSSVIHDYYIRECKN  111 (273)
Q Consensus        80 p~~~iVGWY~~g~~~----~~~~~~i~~~~~~~~~~  111 (273)
                      |++.+||||++++..    +..|+.+|.+|++.+++
T Consensus        79 ~~~~iVGWY~s~p~~~~~~S~~di~~q~~~q~~~~~  114 (114)
T PF01398_consen   79 PNLEIVGWYHSHPNISCFPSPTDIETQKQYQRMNPN  114 (114)
T ss_dssp             TTSEEEEEEEEESSS-SS--HHHHHHHHHHHHHTTT
T ss_pred             ccceEEEEEEccCCccccCCHHHHHHHHHHHHhCCC
Confidence            999999999997765    99999999999998764

This family is also known as the MPN domain [] and PAD-1-like domain []. It has been shown that this domain occurs in prokaryotes []. Mov34 proteins act as the regulatory subunit of the 26 proteasome, which is involved in the ATP-dependent degradation of ubiquitinated proteins. The function of this domain is unclear, but it is found in the N terminus of the proteasome regulatory subunits, eukaryotic initiation factor 3 (eIF3) subunits and regulators of transcription factors. A number of the proteins associated with this family belong to MEROPS peptidase family M67 (clan M-). This includes the Poh1 peptidase of Saccharomyces cerevisiae (Baker's yeast) which is a component of the 19S proteasome regulatory particle.; GO: 0005515 protein binding; PDB: 2ZNV_D 2ZNR_A 4E0Q_A 2P87_A 2P8R_A 2O96_B 2O95_A 3RZU_F 3RZV_A.

>KOG1560|consensus

Probab=99.92  E-value=1.2e-24  Score=187.06  Aligned_cols=203  Identities=20%  Similarity=0.303  Sum_probs=161.3

Q ss_pred             ceEEEehhhHhHHHHHHhhccCCCceEEEEEeeeEeCCEEEEEEEEeecccc--Cchhh---HhhH---HHHHHHHHHHh
Q psy4542           5 VSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKE--YDEMV---EAEL---NYAQDMFEMNQ   76 (273)
Q Consensus         5 ~~V~lhPlvll~I~dh~~r~~~~~~~v~G~LLG~~~~~~veV~~sF~vp~~~--~~~~~---~id~---~~~~~m~~l~k   76 (273)
                      ..|.+..||+++|++||.....+..-+.|+|+|.+-++.+|||||||.|...  ++|.+   ..|.   .|+..|+..++
T Consensus        13 k~v~ldsLvVMkiiKHc~ee~~n~d~~~GvL~Glvvd~~LeITncFp~p~~~~~edda~~~~~~de~rq~~~l~mlrrlr   92 (339)
T KOG1560|consen   13 KRVELDSLVVMKIIKHCREEFPNGDGTQGVLLGLVVDGRLEITNCFPFPSVLENEDDAVNKSVSDEARQAYQLAMLRRLR   92 (339)
T ss_pred             ceeeehhHHHHHHHHHHHhhcCCcchhhheeeeeeecceeEeecccCCCccCCCccchhhhhhhHHHHHHHHHHHHHHhh
Confidence            4788999999999999988754457899999999999999999999999743  22321   2343   68999999999


Q ss_pred             hhCCCCCeEEeecC---CCCCCcccHHHHHHHHhhCCCcEEEEEcCCCC-CCCcceeEEEeeecCCC-------------
Q psy4542          77 KVNPSELIVGWWAT---GDEVTSQSSVIHDYYIRECKNPVHMTLDTNLK-GPNMGIKGYVHVPIGVP-------------  139 (273)
Q Consensus        77 ~v~p~~~iVGWY~~---g~~~~~~~~~i~~~~~~~~~~pi~L~~D~~~~-~~~l~ikay~~~~~~~~-------------  139 (273)
                      .+|.+...||||.+   |++++..-+..+..|+..+++.|.|+|||..+ +|.|++|||++.+..+.             
T Consensus        93 ~vnid~~hVGwYqs~~vgs~lS~~lveSqy~YQ~a~pesVvliYD~~kssqG~L~lrAyrLTp~am~~~kekdwtpealk  172 (339)
T KOG1560|consen   93 YVNIDHLHVGWYQSAYVGSFLSPALVESQYAYQKAIPESVVLIYDPIKSSQGTLSLRAYRLTPEAMAAHKEKDWTPEALK  172 (339)
T ss_pred             hcCccceeeeeeeeehhccccCHHHHHHHHHHHhcCCccEEEEeccccccCceEEeehhhcCHHHHHHHhcCCCCHHHHH
Confidence            99999999999988   78888766777888999999999999999987 79999999999885421             


Q ss_pred             --CCcccceeeeeceEEecCchHHHHHHHHH--hhccCCC-----------CCccchHHHHHHHHHHHHHHHHHHHHHHH
Q psy4542         140 --GGKSGIMFTQIPAEVICYNSEVTGLRLLH--KSIKQGA-----------VQPLSELTLVSEAADKLTVLIDHVLRYVD  204 (273)
Q Consensus       140 --~~~~~~~f~~ip~~i~~~e~E~i~v~~l~--~~~~~~~-----------~~~~~~l~~~~~a~~~L~~~l~~i~~Yl~  204 (273)
                        +-+....|.++|+.|.++-.-.+-+..+.  +.+....           ..+.+.++.+...+..|...+...-+|-+
T Consensus       173 ~~nltyenmfeElPIVIknS~L~nvlmseLs~~e~c~sdk~~~~~fdlgs~t~leknir~lme~vDEl~qe~~~l~kyqr  252 (339)
T KOG1560|consen  173 SANLTYENMFEELPIVIKNSHLANVLMSELSEPEDCESDKPLHSNFDLGSGTRLEKNIRLLMERVDELHQEIVNLNKYQR  252 (339)
T ss_pred             hcCCCHHHHHhhcCeeeeccHHHHHHHHhccccccccccccccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence              12467889999999999987777776665  3332211           12566677777777777777777777777


Q ss_pred             HHh
Q psy4542         205 EVL  207 (273)
Q Consensus       205 ~V~  207 (273)
                      .+.
T Consensus       253 ~~~  255 (339)
T KOG1560|consen  253 QLA  255 (339)
T ss_pred             HHH
Confidence            654

>smart00232 JAB_MPN JAB/MPN domain

Probab=99.90  E-value=1.9e-22  Score=161.01  Aligned_cols=128  Identities=28%  Similarity=0.426  Sum_probs=114.7

Q ss_pred             eEEEehhhHhHHHHHHhhccCCCceEEEEEeeeEeCCEEEEEEEEeeccccCchhh-HhhHHHHHHHHHHHhhhCCCCCe
Q psy4542           6 SIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMV-EAELNYAQDMFEMNQKVNPSELI   84 (273)
Q Consensus         6 ~V~lhPlvll~I~dh~~r~~~~~~~v~G~LLG~~~~~~veV~~sF~vp~~~~~~~~-~id~~~~~~m~~l~k~v~p~~~i   84 (273)
                      .|.+||.++++|++|+.|.  .+..++|+|+|...++.++|+++|++|...+++.+ ..+.+|.+.|.++++++++++.+
T Consensus         1 ~v~i~~~v~~~i~~h~~~~--~p~e~~G~L~G~~~~~~~~i~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (135)
T smart00232        1 EVKVHPLVPLNILKHAIRD--GPEEVCGVLLGKSNKDRPEVKEVFAVPNEPQDDSVQEYDEDYSHLMDEELKKVNKDLEI   78 (135)
T ss_pred             CEEEcHHHHHHHHHHHhcC--CCcEEEEEEEEEEcCCEEEEEEEEecCcCCCCcchhhhhhhHHHHHHHHHHhhCCCceE
Confidence            4789999999999999885  57899999999998889999999999987655443 67899999999999999999999


Q ss_pred             EEeecCCC----CCCcccHHHHHHHHhhCCCcEEEEEcCCCC-CCCcceeEEEeee
Q psy4542          85 VGWWATGD----EVTSQSSVIHDYYIRECKNPVHMTLDTNLK-GPNMGIKGYVHVP  135 (273)
Q Consensus        85 VGWY~~g~----~~~~~~~~i~~~~~~~~~~pi~L~~D~~~~-~~~l~ikay~~~~  135 (273)
                      ||||++++    .++..|+.+|..++.....++++.+|+..+ .++++++||++++
T Consensus        79 vGwyhshp~~~~~pS~~D~~~~~~~~~~~~~~~~~~v~~~~s~~g~~~~~af~~~~  134 (135)
T smart00232       79 VGWYHSHPDESPFPSEVDVATHESYQAPWPISVVLIVDPIKSFQGRLSLRAFRLTP  134 (135)
T ss_pred             EEEEEcCCCCCCCcCHHHHHHHHHHHhcCCceEEEEECCCccccCcEEEEEEEecC
Confidence            99999966    677889999999998888899999999987 4889999999864

Domain in Jun kinase activation domain binding protein and proteasomal subunits. Domain at Mpr1p and Pad1p N-termini. Domain of unknown function.

>PF13012 MitMem_reg: Maintenance of mitochondrial structure and function; PDB: 2O96_B 2O95_A

Probab=99.88  E-value=7.2e-24  Score=165.64  Aligned_cols=113  Identities=35%  Similarity=0.479  Sum_probs=13.5

Q ss_pred             CchHHHHHHHHHhhccCCC-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHhhcCCCCCHHH
Q psy4542         157 YNSEVTGLRLLHKSIKQGA-VQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMTQEQ  235 (273)
Q Consensus       157 ~e~E~i~v~~l~~~~~~~~-~~~~~~l~~~~~a~~~L~~~l~~i~~Yl~~V~~g~~~~d~~ilr~l~~~~~~lp~~~~~~  235 (273)
                      +||||||++++.+...+.. .++.++++.+..++.+|.++++.+..|+++|.+|+.++|++++|+|+++|+++|.+++++
T Consensus         1 eEaErigv~~l~~~~~~~~~s~~~~~l~~~~~al~~L~~~l~~i~~Yl~~v~~g~~~~d~~i~r~l~~l~~~lp~~~~~~   80 (115)
T PF13012_consen    1 EEAERIGVDHLARGLGDHYYSSLSSQLENEQNALKMLHKRLWQILDYLEDVISGEIPPDHEILRQLQDLLSSLPKYDPEE   80 (115)
T ss_dssp             SHHHHHHHHHHHHH--S---------------------------------------------------------------
T ss_pred             CchHHHHHHHHHccCCCccccHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHcCcCCCchhHHHHHHHHHHhcccccHHH
Confidence            4899999999999766543 357799999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHh
Q psy4542         236 FETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTL  269 (273)
Q Consensus       236 f~~~~~~~~~D~lmv~yLs~ltk~~~~l~e~l~~  269 (273)
                      |+++|.++.+|.+|+.|||++||++.++++++++
T Consensus        81 ~~~~~~~~~~D~l~v~yL~~l~k~~~~l~e~l~~  114 (115)
T PF13012_consen   81 FEEEFNSEINDVLMVSYLAKLTKKQHALNELLNN  114 (115)
T ss_dssp             ----------------------------------
T ss_pred             HHHHHHhhchHHHHHHHHHHHhHHHHHHHHHHhc
Confidence            9999999999999999999999999999999975

>KOG1554|consensus

Probab=99.79  E-value=1.6e-18  Score=149.94  Aligned_cols=199  Identities=16%  Similarity=0.237  Sum_probs=155.3

Q ss_pred             ceEEEehhhHhHHHHHHhhccCCCceEEEEEeeeEeCCEEEEEEEEeeccccCchhh---HhhHHHHHHHHHHHhhhCCC
Q psy4542           5 VSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMV---EAELNYAQDMFEMNQKVNPS   81 (273)
Q Consensus         5 ~~V~lhPlvll~I~dh~~r~~~~~~~v~G~LLG~~~~~~veV~~sF~vp~~~~~~~~---~id~~~~~~m~~l~k~v~p~   81 (273)
                      ..|+|..+++|+|.-|..|.  ++-.++|.+.|+.+++.+.|.+||++|...++..+   .-..+|+-...+..+.+...
T Consensus        53 k~vkISalAllKm~~hA~~G--gnlEiMGlm~Gkv~g~t~IvmD~FaLPVeGTETRVNAq~~AyEYmv~Y~e~~k~~gr~  130 (347)
T KOG1554|consen   53 KHVKISALALLKMVMHARSG--GNLEIMGLMQGKVDGDTIIVMDSFALPVEGTETRVNAQAEAYEYMVQYIEEAKNVGRL  130 (347)
T ss_pred             hhhhhHHHHHHHHHHHHhcC--CCeEEEeeecccccCCeEEEEeccccccccccceechHHHHHHHHHHHHHHHHHhhhh
Confidence            36889999999999887663  67899999999999999999999999998876533   23578999999999999999


Q ss_pred             CCeEEeecC----CCCCCcccHHHHHHHHhhCCCcEEEEEcCCCC--CCCcceeEEEeeecCCCC---------------
Q psy4542          82 ELIVGWWAT----GDEVTSQSSVIHDYYIRECKNPVHMTLDTNLK--GPNMGIKGYVHVPIGVPG---------------  140 (273)
Q Consensus        82 ~~iVGWY~~----g~~~~~~~~~i~~~~~~~~~~pi~L~~D~~~~--~~~l~ikay~~~~~~~~~---------------  140 (273)
                      +.+||||++    |++++.-|+..|..-+++.++-+++++||..+  .|++.+-|||.-|.|...               
T Consensus       131 envVGWyHSHPgYgCWLSgIDVsTQ~lNQ~fQePfvAvViDP~Rtlsagkv~iGAFRTyp~gyk~~d~~~seyqtipl~k  210 (347)
T KOG1554|consen  131 ENVVGWYHSHPGYGCWLSGIDVSTQMLNQRFQEPFVAVVIDPTRTLSAGKVNIGAFRTYPKGYKPPDEPPSEYQTIPLNK  210 (347)
T ss_pred             hceeeeeecCCCCCccccCcchhHHHHhhhhcCCeEEEEecCccccccCceeeceeecccCCCCCCCCCchhhhccchhh
Confidence            999999999    56899999999988888878889999999987  799999999998876431               


Q ss_pred             ----CcccceeeeeceEEecCchHHHHHHHHHhhccCCC---CCccchHHHHHHHHHHHHHHHHHHHHHHHH
Q psy4542         141 ----GKSGIMFTQIPAEVICYNSEVTGLRLLHKSIKQGA---VQPLSELTLVSEAADKLTVLIDHVLRYVDE  205 (273)
Q Consensus       141 ----~~~~~~f~~ip~~i~~~e~E~i~v~~l~~~~~~~~---~~~~~~l~~~~~a~~~L~~~l~~i~~Yl~~  205 (273)
                          +..+..+..+++.+--+..++--++.+-...+-.+   .++.+..+.+...+..|.+++...-+.+..
T Consensus       211 ied~gvHck~yysl~isyfks~ld~kll~~Lwnkywv~Tlsss~ll~N~dy~~~qi~d~~ekl~q~~~~l~~  282 (347)
T KOG1554|consen  211 IEDFGVHCKQYYSLEISYFKSSLDMKLLELLWNKYWVRTLSSSPLLKNIDYLNGQIRDLSEKLEQREDSLET  282 (347)
T ss_pred             hhhcccceEEeeccchhhhhhhhhHHHHHHHHhhhhhcccccccccccchhhcchhhhHHHHHHhhhhhccc
Confidence                11233344444444444455555555554444333   347777888888888888888887777744

>cd07767 MPN Mpr1p, Pad1p N-terminal (MPN) domains

Probab=99.69  E-value=4.7e-16  Score=120.96  Aligned_cols=111  Identities=26%  Similarity=0.372  Sum_probs=88.8

Q ss_pred             hHHHHHHhhccCCCceEEEEEeeeEeCCEEEEEEEEeeccccCchhhHhhHHHHHHHHHHHhhhCCCCCeEEeecCCC--
Q psy4542          15 FQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAELNYAQDMFEMNQKVNPSELIVGWWATGD--   92 (273)
Q Consensus        15 l~I~dh~~r~~~~~~~v~G~LLG~~~~~~veV~~sF~vp~~~~~~~~~id~~~~~~m~~l~k~v~p~~~iVGWY~~g~--   92 (273)
                      .+|++|+.+.  .+..++|+|+|...++.++|+++|++|...++..  .+..+  -|....+.+.+++.+||||+|++  
T Consensus         2 k~il~~a~~~--~~~ev~G~L~G~~~~~~~~i~~~~~~~~~~~~~~--~~~~~--~~~~~~~~~~~~~~iVGwyhshp~~   75 (116)
T cd07767           2 KMFLDAAKSI--NGKEVIGLLYGSKTKKVLDVDEVIAVPFDEGDKD--DNVWF--LMYLDFKKLNAGLRIVGWYHTHPKP   75 (116)
T ss_pred             HhHHHHHhcC--CCcEEEEEeEEEEcCCEEEEEEEEecccCCCCCc--cHHHH--HHHHHHHHhcCCCeEEEEEEcCCCC
Confidence            3577777663  4689999999999888999999999998664332  12111  25666677889999999999965  


Q ss_pred             --CCCcccHHHHHHHHhhCCCcEEEEEcCCCCCCCcceeEE
Q psy4542          93 --EVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNMGIKGY  131 (273)
Q Consensus        93 --~~~~~~~~i~~~~~~~~~~pi~L~~D~~~~~~~l~ikay  131 (273)
                        .++..|+..|..|++..+++++|++|+...+.+++++||
T Consensus        76 ~~~~s~~dv~~~~~~q~~~~~~v~li~~~~~~~~~~~~~~~  116 (116)
T cd07767          76 SCFLSPNDLATHELFQRYFPEKVMIIVDVKPKDLGNSWKCY  116 (116)
T ss_pred             CCccCHHHHHHHHHHHHhCCCCEEEEEECCCccCCCCcccC
Confidence              378889999999998888899999999987667888887

MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+) domains are found in the N-terminal termini of proteins with a variety of functions; they are components of the proteasome regulatory subunits, the signalosome (CSN), eukaryotic translation initiation factor 3 (eIF3) complexes, and regulators of transcription factors. These domains are isopeptidases that release ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. Catalytically active MPN domains contain a metalloprotease signature known as the JAB1/MPN/Mov34 metalloenzyme (JAMM) motif. For example, Rpn11 (also known as POH1 or PSMD14), a subunit of the 19S proteasome lid is involved in the ATP-dependent degradation of ubiquitinated proteins, contains the conserved JAMM motif involved in zinc ion coordination. Poh1 is a regulator of c-Jun, an important regulator of cell proliferation, differentiation, survival and death. J

>cd08067 MPN_2A_DUB Mov34/MPN/PAD-1 family: Histone H2A deubiquitinase

Probab=99.63  E-value=9.7e-15  Score=123.09  Aligned_cols=145  Identities=15%  Similarity=0.091  Sum_probs=113.5

Q ss_pred             CceEEEehhhHhHHHHHHhhccCCCceEEEEEeeeEe--CCEEEEEEEEeeccccCchhhHhhHHHHHHHHHHHhhhCCC
Q psy4542           4 NVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVD--KGVVEVTNCFCVPHKEYDEMVEAELNYAQDMFEMNQKVNPS   81 (273)
Q Consensus         4 ~~~V~lhPlvll~I~dh~~r~~~~~~~v~G~LLG~~~--~~~veV~~sF~vp~~~~~~~~~id~~~~~~m~~l~k~v~p~   81 (273)
                      ..+|.|++.|+|+|..|+...   ...++|.|+|..+  ++.++|+++|++|...+.+.+.+|.+++.+|++..++.+  
T Consensus         4 pf~V~Is~~all~m~~Ha~~~---~~EvcGlL~G~~d~~~~~l~Vt~~~p~~~~~~~~~~e~dp~~q~e~~~~l~~~g--   78 (187)
T cd08067           4 PFKVTVSSNALLLMDFHCHLT---TSEVIGYLGGTWDPNTQNLTILQAFPCRSRLTGLDCEMDPVSETEIRESLESRG--   78 (187)
T ss_pred             CEEEEECHHHHHHHHHHhcCC---CcEEEEEEEeEEcCCCCeEEEEEEEecCCCCCCcccccCHHHHHHHHHHHHHcC--
Confidence            468999999999999999764   2789999999964  578999999999986655667789999999999988766  


Q ss_pred             CCeEEeecCCC----CCCcccHHHHHHHHhhCC-------CcEEEEEcCCCC---CCCcceeEEEeeecCCCCCccccee
Q psy4542          82 ELIVGWWATGD----EVTSQSSVIHDYYIRECK-------NPVHMTLDTNLK---GPNMGIKGYVHVPIGVPGGKSGIMF  147 (273)
Q Consensus        82 ~~iVGWY~~g~----~~~~~~~~i~~~~~~~~~-------~pi~L~~D~~~~---~~~l~ikay~~~~~~~~~~~~~~~f  147 (273)
                      +.+||||++.+    .++..|+..|..||...+       +.|.++++|..+   +.+-.|+||...+..-.    ...-
T Consensus        79 l~vVGwYHSHP~~~~~pS~~Di~tQ~~yQ~~~~~~~~~~~p~v~~I~~P~~~~~~~~~s~i~~f~~~~~~~~----~~~~  154 (187)
T cd08067          79 LSVVGWYHSHPTFPPNPSLRDIDTQLDYQIMFKGSDSGYEPCVGLICSPYDRRNSTPESQITCFWVMPPPEN----RPNE  154 (187)
T ss_pred             CEEEEEEecCCCCCcCCCHHHHHHHHHHHhhccccccCCCCeEEEEEccccCCCCCCCCcEEEEEEECCCCC----CCcc
Confidence            69999999965    567788888999987643       468999999764   34568999999864321    0123


Q ss_pred             eeeceEEecC
Q psy4542         148 TQIPAEVICY  157 (273)
Q Consensus       148 ~~ip~~i~~~  157 (273)
                      ..+|+.+.+.
T Consensus       155 ~~~p~~~~~~  164 (187)
T cd08067         155 YGVPMLMSYT  164 (187)
T ss_pred             CCcCeEEEec
Confidence            3466666654

This family includes histone H2A deubiquitinase (Histone H2A DUB;MYSM1; myb-like, SWIRM and MPN domains 1; 2ADUB; 2A-DUB; KIAA19152ADUB, or KIAA1915/MYSM1), a member of JAMM/MPN+ deubiquitinases (DUBs), with possible Zn2+-dependent ubiquitin isopeptidase activity. It contains the SWIRM (Swi3p, Rsc8p and Moira), and SANT (SWI-SNF, ADA N-CoR, TFIIIB)/Myb domains; the SANT, but not the SWIRM, domain can bind directly to DNA. 2A-DUB is specific for monoubiquitinated H2A (uH2A), regulating transcription by coordinating histone acetylation and deubiquitination, and destabilizing the association of linker histone H1 with nucleosomes. 2A-DUB interacts with p/CAF (p300/CBP-associated factor) in a co-regulatory protein complex, where the status of acetylation of nucleosomal histones modulates its deubiquitinase activity. 2A-DUB is a positive regulator of androgen receptor (AR) transactivation activity on a reporter gene; it p

>cd08058 MPN_euk_mb Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); eukaryotic

Probab=99.59  E-value=1.3e-14  Score=114.02  Aligned_cols=109  Identities=16%  Similarity=0.183  Sum_probs=88.1

Q ss_pred             hHhHHHHHHhhccCCCceEEEEEeeeEe-----CCEEEEEEEEeeccccCchhhHhhHHHHHHHHHHHhhhCCCCCeEEe
Q psy4542          13 VLFQIVDAFERRNLDSHRVIGTLLGTVD-----KGVVEVTNCFCVPHKEYDEMVEAELNYAQDMFEMNQKVNPSELIVGW   87 (273)
Q Consensus        13 vll~I~dh~~r~~~~~~~v~G~LLG~~~-----~~~veV~~sF~vp~~~~~~~~~id~~~~~~m~~l~k~v~p~~~iVGW   87 (273)
                      |+++|++|+.+.  .+..++|.|+|...     .+.++|+++|+.|...+.         .+.|..+.+....++.+|||
T Consensus         2 ~~~~i~~ha~~~--~p~E~cGlL~G~~~~~~~~~~~~~v~~~~p~~~~~~~---------~~~~~~~~~~~~~g~~~vG~   70 (119)
T cd08058           2 ALLKMLQHAESN--TGIEVMGLLCGELTHNEFTDKHVIVPKQSAGPDSCTG---------ENVEELFNVQTGRPLLVVGW   70 (119)
T ss_pred             HHHHHHHHhcCC--CCeEEEEEeeeEEecCccceeEEEEeecCCCCCCchh---------HHHHHHHHHHhCCCCeEEEE
Confidence            789999999884  47899999999865     456899999999875422         11444555678899999999


Q ss_pred             ecCCC----CCCcccHHHHHHHHhhCCCcEEEEEcCCCCCCCcceeEEEee
Q psy4542          88 WATGD----EVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNMGIKGYVHV  134 (273)
Q Consensus        88 Y~~g~----~~~~~~~~i~~~~~~~~~~pi~L~~D~~~~~~~l~ikay~~~  134 (273)
                      |++.+    .++..|+..|..|+...++.++|++||..+  .+++++|+++
T Consensus        71 YHSHP~~~~~pS~~Di~~~~~~q~~~p~~~~lI~s~~~~--~~~~~a~rl~  119 (119)
T cd08058          71 YHSHPTFTAWLSSVDIHTQASYQLMLPEAIAIVVSPKHR--NKDTGIFRLT  119 (119)
T ss_pred             EecCCCCCCccCHHHHHHHHHHhccCCCeEEEEECcCCC--CcccceEEeC
Confidence            99965    678888888888888878889999999763  8899999874

This family contains eukaryotic MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+) domains found in proteins with a variety of functions, including AMSH (associated molecule with the Src homology 3 domain (SH3) of STAM), H2A-DUB (histone H2A deubiquitinase), BRCC36 (BRCA1/BRCA2-containing complex subunit 36), as well as Rpn11 (regulatory particle number 11) and CSN5 (COP9 signalosome complex subunit 5). These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity. Rpn11 is responsible for substrate deubiquitination during proteasomal degradation. It is essential for maintaining a correct cell cycle and normal mitochondrial morphology and physiology. CSN5 is critical for nuclear export and the degradation of several tumor suppressor prot

>cd08068 MPN_BRCC36 Mov34/MPN/PAD-1 family: BRCC36, a subunit of BRCA1-A complex

Probab=99.37  E-value=2.6e-11  Score=105.70  Aligned_cols=148  Identities=11%  Similarity=0.179  Sum_probs=107.5

Q ss_pred             ceEEEehhhHhHHHHHHhhccCCCceEEEEEeeeEe-------CCEEEEEEEEeecccc-CchhhHhhHH----HHHHHH
Q psy4542           5 VSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVD-------KGVVEVTNCFCVPHKE-YDEMVEAELN----YAQDMF   72 (273)
Q Consensus         5 ~~V~lhPlvll~I~dh~~r~~~~~~~v~G~LLG~~~-------~~~veV~~sF~vp~~~-~~~~~~id~~----~~~~m~   72 (273)
                      .+|.|.+.++..|+.|..+.  .+..+||.|+|..+       +..+.|..-++.+..+ ..+.+.+|.+    ..+.+.
T Consensus         2 ~~V~Is~~~l~~il~HA~~~--~P~EvCGLL~G~~~~~~~~~~~~~v~i~~~~~~~~~~~s~~r~eidPee~~~a~~ea~   79 (244)
T cd08068           2 SKVHLSADVYLVCLTHALST--EKEEVMGLLIGEIEVSKKGEEVAIVHISAVIILRRSDKRKDRVEISPEQLSAASTEAE   79 (244)
T ss_pred             cEEEECHHHHHHHHHHHHhC--CCcceeEEEEeecccccccccceeEEEeeeccccccCCCCceEEeCHHHHHHHHHHHH
Confidence            47899999999999999874  68899999999874       3455554444443322 2345666654    334566


Q ss_pred             HHHhhhCCCCCeEEeecCCC----CCCcccHHHHHHHHhhCCCcEEEEEcCCCC-----CCCcceeEEEeeecCCCCCcc
Q psy4542          73 EMNQKVNPSELIVGWWATGD----EVTSQSSVIHDYYIRECKNPVHMTLDTNLK-----GPNMGIKGYVHVPIGVPGGKS  143 (273)
Q Consensus        73 ~l~k~v~p~~~iVGWY~~g~----~~~~~~~~i~~~~~~~~~~pi~L~~D~~~~-----~~~l~ikay~~~~~~~~~~~~  143 (273)
                      ++.+.+..++.+||||++.+    .++..|+..|..|+...+..+++++++...     .++..++||+..+.. +  ..
T Consensus        80 ~~~~~~~rgl~vVGwYHSHP~~~a~PS~~Dv~tq~~~q~~~p~~v~lIvS~~~~~~~~~~~~~~i~aFr~~~g~-~--~~  156 (244)
T cd08068          80 RLTEETGRPMRVVGWYHSHPHITVWPSHVDVRTQAMYQMMDSGFVGLIFSCFNEDKSTKMGEVQVTCFQSVQGN-K--AG  156 (244)
T ss_pred             HHHhhccCCceEEEEEecCCCCCCCCCHhHHHHHHHHHhhCCCcEEEEEEecCCccccccCCEEEEEEEecCCC-C--CC
Confidence            66778899999999999965    577888888888887667778999876432     367899999997521 1  12


Q ss_pred             cceeeeeceEEecC
Q psy4542         144 GIMFTQIPAEVICY  157 (273)
Q Consensus       144 ~~~f~~ip~~i~~~  157 (273)
                      .....++|+.|...
T Consensus       157 ~~~~~e~pl~i~~~  170 (244)
T cd08068         157 QYERIEVPLEIVPT  170 (244)
T ss_pred             cceEEEeeeEEecC
Confidence            35678899888763

BRCC36 (BRCA1-A complex subunit BRCC36; BRCA1/BRCA2-containing complex subunit 36; BRCA1/BRCA2-containing complex subunit 3; BRCC3; BRISC complex subunit BRCC36; BRCC36 isopeptidase complex; Lys-63-specific deubiquitinase BRCC36) and BRCC36-like domains are members of JAMM/MPN+ deubiquitinases (DUBs), possibly with Zn2+-dependent ubiquitin isopeptidase activity. BRCC36 is part of the BRCA1/BRCA2/BARD1-containing nuclear complex that displays an E3 ubiquitin ligase activity. It is targeted to DNA damage foci after irradiation; RAP80 recruits the Abraxas-BRCC36-BRCA1-BARD1 complex to DNA double strand breaks (DSBs) for DNA repair through specific recognition of Lys 63-linked polyubiquitinated proteins by its tandem ubiquitin-interacting motifs. A new protein, MERIT40 (mediator of RAP80 interactions and targeting 40 kDa), also named NBA1 (new component of the BRCA1 A complex), exists in the same BRCA1-contai

>KOG1555|consensus

Probab=99.07  E-value=4.4e-10  Score=100.28  Aligned_cols=131  Identities=15%  Similarity=0.265  Sum_probs=108.0

Q ss_pred             CCceEEEehhhHhHHHHHHhhccCCCc-eEEEEE-ee---e-EeCCEEEEEEEEeeccccCchh---hHhhHHHHHHHHH
Q psy4542           3 LNVSIKVHPVVLFQIVDAFERRNLDSH-RVIGTL-LG---T-VDKGVVEVTNCFCVPHKEYDEM---VEAELNYAQDMFE   73 (273)
Q Consensus         3 ~~~~V~lhPlvll~I~dh~~r~~~~~~-~v~G~L-LG---~-~~~~~veV~~sF~vp~~~~~~~---~~id~~~~~~m~~   73 (273)
                      .+.+|.++.++++.+++|-.-.  .+. .++|.+ +|   . .+..++.|.+.|+.|....+-.   -++|.-|+.+|.+
T Consensus        29 ~~e~v~i~slall~m~rh~r~~--~p~e~v~Glm~lg~~~~fv~~~Tv~vv~v~am~~sg~~is~~~e~~d~V~q~q~~~  106 (316)
T KOG1555|consen   29 EKETVYISSLALLKMLRHDRAG--SPEETVMGLMSLGRLPEFVDDYTVRVVDVFAMPQSGTGISKFVEAVDPVFQTQMMD  106 (316)
T ss_pred             CcceeeeehhhhhhcccccccC--CchhhccceeecccccceeeecceeeeeeeccccccceecccchhccHHHHHHHHH
Confidence            4678999999999999876322  233 489999 99   3 4778899999999998875332   2589999999999


Q ss_pred             HHhhhCCCCCeEEeecCC----CCCCcccHHHHHHHHhhCCCcEEEEEcCCCC-CCCcceeEEEeee
Q psy4542          74 MNQKVNPSELIVGWWATG----DEVTSQSSVIHDYYIRECKNPVHMTLDTNLK-GPNMGIKGYVHVP  135 (273)
Q Consensus        74 l~k~v~p~~~iVGWY~~g----~~~~~~~~~i~~~~~~~~~~pi~L~~D~~~~-~~~l~ikay~~~~  135 (273)
                      +.++....+.+||||++.    .+++..|+..|..|+...+..+..++||..+ .|+.-+.||+..+
T Consensus       107 ~l~~tGrp~~VVGWYHSHP~f~~wpS~vDi~tQ~syq~~~~r~~a~~v~~i~S~~g~vv~d~f~~In  173 (316)
T KOG1555|consen  107 LLKQTGRPELVVGWYHSHPGFGCWPSLVDIDTQQSYQALSSRAVAVVVDPIQSPYGKVVPDAFSSIN  173 (316)
T ss_pred             HHHhcCCcceEEeeccCCCCCCCCccccchhHHHHHhhhccCCcceeeecccCCCCCccCChhhhcC
Confidence            999999889999999994    4778899999999999988999999999877 5666666888764

>cd08066 MPN_AMSH_like Mov34/MPN/PAD-1 family

Probab=99.06  E-value=4.6e-09  Score=87.64  Aligned_cols=123  Identities=12%  Similarity=0.176  Sum_probs=90.2

Q ss_pred             EEEehhhHhHHHHHHhhccCCCceEEEEEeeeEeCCEEEEEEEEeeccccCchhhH-hhHHHHHHHHHHHhhhCCCCCeE
Q psy4542           7 IKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVE-AELNYAQDMFEMNQKVNPSELIV   85 (273)
Q Consensus         7 V~lhPlvll~I~dh~~r~~~~~~~v~G~LLG~~~~~~veV~~sF~vp~~~~~~~~~-id~~~~~~m~~l~k~v~p~~~iV   85 (273)
                      +.|-.-.+-+|+.|..++-..+..++|.|+|...++..+|++.|-.|...+...+. .|..   ++++.  .-..++.+|
T Consensus         4 l~Ipk~il~~~l~~A~~~~~~p~E~cGlL~G~~~~~~~~I~~i~~~~q~~~~~~~~~~~~~---e~~~~--~~~~gle~v   78 (173)
T cd08066           4 VVVPADLMDKFLQLAEPNTSRNLETCGILCGKLSNNAFFITHLIIPKQSGTSDSCQTTNEE---ELFDF--QDQHDLITL   78 (173)
T ss_pred             EEECHHHHHHHHHHHHhCCCCCCeEEEEEEeEcCCCeEEEEEEEeccccCCCceecCCCHH---HHHHH--HHhCCCeeE
Confidence            45666677888888877522357899999999877888999887777665544322 2321   12211  124589999


Q ss_pred             EeecCCC----CCCcccHHHHHHHHhhCCCcEEEEEcCCCCCCCcceeEEEee-ecCC
Q psy4542          86 GWWATGD----EVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNMGIKGYVHV-PIGV  138 (273)
Q Consensus        86 GWY~~g~----~~~~~~~~i~~~~~~~~~~pi~L~~D~~~~~~~l~ikay~~~-~~~~  138 (273)
                      |||+|.+    .++..|+..|..|+...+..++|+++|.    ...++||++. +.|+
T Consensus        79 GwyHSHP~~~~~pS~~Dv~t~~~~~~~~p~~~~lIvSp~----~~~l~afrl~~~~g~  132 (173)
T cd08066          79 GWIHTHPTQTCFLSSVDLHTHCSYQLMLPEAIAIVCAPK----YNEFGIFRLTDPPGL  132 (173)
T ss_pred             EEEeccCCCCCccCHHHHHHHHHHHhcCCCeEEEEECCC----CcEEeEEEeecCCcc
Confidence            9999954    6789999999999888788899999973    6789999998 6554

AMSH (associated molecule with the Src homology 3 domain (SH3) of STAM (signal-transducing adapter molecule, also known as STAMBP)) and AMSH-like proteins (AMSH-LP) are members of JAMM/MPN+ deubiquitinases (DUBs), with Zn2+-dependent ubiquitin isopeptidase activity. AMSH specifically cleaves Lys 63 and not Lys48-linked polyubiquitin (poly-Ub) chains, thus facilitating the recycling and subsequent trafficking of receptors to the cell surface. AMSH and AMSH-LP are anchored on the early endosomal membrane via interaction with the clathrin coat. AMSH shares a common SH3-binding site with another endosomal DUB, UBPY (ubiquitin-specific protease Y; also known as USP8), the latter being a cysteine protease that does not discriminate between Lys48 and Lys63-linked ubiquitin. AMSH is involved in the degradation of EGF receptor (EGFR) and possibly other ubiquitinated endocytosed proteins. AMSH also interacts with CHMP1, CHMP2, and CHMP3 proteins, al

>cd08060 MPN_UPF0172 Mov34/MPN/PAD-1 family: UPF0172 family of unknown function includes neighbor of COX4 (Noc4p)

Probab=98.52  E-value=1.3e-06  Score=73.50  Aligned_cols=118  Identities=17%  Similarity=0.213  Sum_probs=80.2

Q ss_pred             ehhhHhHHHHHHhhccCCCceEEEEEeeeEe-CCEEEEEEEEeeccccCchhhHhhHHH--HHHHHHHHhhhCCCCCeEE
Q psy4542          10 HPVVLFQIVDAFERRNLDSHRVIGTLLGTVD-KGVVEVTNCFCVPHKEYDEMVEAELNY--AQDMFEMNQKVNPSELIVG   86 (273)
Q Consensus        10 hPlvll~I~dh~~r~~~~~~~v~G~LLG~~~-~~~veV~~sF~vp~~~~~~~~~id~~~--~~~m~~l~k~v~p~~~iVG   86 (273)
                      .+.+..+|..|..+.  .+..|+|+|+|... ++.+.|++++|+.+..    +.++...  ...+.+.+-+. .++.|||
T Consensus         2 s~~ay~ki~~HA~k~--p~~evcGlLlG~~~~~~~~~V~d~vPl~h~~----~~l~P~~Eval~~ve~~~~~-~gl~IvG   74 (182)
T cd08060           2 STLAYVKMLLHAAKY--PHCAVNGLLLGKKSSGGSVEITDAVPLFHSC----LALAPMLEVALALVDAYCKS-SGLVIVG   74 (182)
T ss_pred             CHHHHHHHHHHHHHc--CCchheEEEEeeecCCCCEEEEEEEEcCCCc----cccCHHHHHHHHHHHHHHHH-CCCEEEE
Confidence            456788999999884  35699999999987 7789999999999852    3344332  22233333333 3799999


Q ss_pred             eecCCCCCCc-----ccHHHHHHHHhhCCCcEEEEEcCCCCC---CCcceeEEEee
Q psy4542          87 WWATGDEVTS-----QSSVIHDYYIRECKNPVHMTLDTNLKG---PNMGIKGYVHV  134 (273)
Q Consensus        87 WY~~g~~~~~-----~~~~i~~~~~~~~~~pi~L~~D~~~~~---~~l~ikay~~~  134 (273)
                      +|++.+.+.+     ....|=+.+.+.+++++++++|-..-.   ..-.+.+|...
T Consensus        75 ~Yhsh~~~~d~~~~~~a~kIadki~~~~~~a~ll~vdn~~l~~~~~~~~~~~~~~~  130 (182)
T cd08060          75 YYQANERLDDSSPSPVAKKIADKIAENFSNACLLMVDNEKLTLDCKGNALVVYKDK  130 (182)
T ss_pred             EEecCCcccCCCCcHHHHHHHHHHHHhCCCCEEEEEeCccccccccCCceEEEEec
Confidence            9999875543     334455667777788999999876532   22245555554

This family includes Noc4p (neighbor of COX4; neighbor of Cytochrome c Oxidase 4; nucleolar complex associated 4 homolog) which belongs to the family of unknown function, UPF0172, with MPN/JAMM-like domains. Proteins in this family are homologs of the NOC4 gene which is conserved in eukaryotic members including human, dog, mouse, rat, chicken, zebrafish, fruit fly, mosquito, S.pombe, K.lactis, E.gossypii, M.grisea, N.crassa, A.thaliana, and rice. NOC4 highly expressed in the pancreas and moderately in liver, heart, lung, kidney, brain, skeletal muscle, and placenta. This nucleolar protein forms a complex with Nop14p that mediates maturation and nuclear export of 40S ribosomal subunits. This family of eukaryotic MPN-like domains lacks the key residues that coordinate a metal ion and therefore does not show catalytic isopeptidase activity.

>PF03665 UPF0172: Uncharacterised protein family (UPF0172); InterPro: IPR005366 This is a small family of proteins of unknown function

Probab=98.50  E-value=9.5e-06  Score=69.05  Aligned_cols=124  Identities=17%  Similarity=0.228  Sum_probs=87.1

Q ss_pred             ceEEEehhhHhHHHHHHhhccCCCceEEEEEeeeEeCC--EEEEEEEEeeccccCchhhHhhHHHHHHHHHHHhhhCCCC
Q psy4542           5 VSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKG--VVEVTNCFCVPHKEYDEMVEAELNYAQDMFEMNQKVNPSE   82 (273)
Q Consensus         5 ~~V~lhPlvll~I~dh~~r~~~~~~~v~G~LLG~~~~~--~veV~~sF~vp~~~~~~~~~id~~~~~~m~~l~k~v~p~~   82 (273)
                      .+|.+.+.+..+|+=|..+.+  ...|.|+|||...++  .|+|++|.|+=|....  ...-.+-.-.+.+.|-+. .++
T Consensus         2 ~~v~is~~AY~K~~LHaaKyP--~~aVnGvLlg~~~~~~~~v~i~DaVPLfH~~~~--L~PmlEvAL~qvd~~~~~-~gl   76 (196)
T PF03665_consen    2 SSVEISSRAYAKMILHAAKYP--HCAVNGVLLGKSSKSSSEVEIVDAVPLFHHWLS--LSPMLEVALAQVDAYAKS-NGL   76 (196)
T ss_pred             ceEEEcHHHHHHHHHHhccCC--CCceeeEEEeccCCCCceEEEeeceeccccccC--cchHHHHHHHHHHHHHhh-CCC
Confidence            368999999999999998863  468999999998543  4999999999985432  222233344445555543 579


Q ss_pred             CeEEeecCCCCC-----CcccHHHHHHHHhhCCCcEEEEEcCCCC---CCCcceeEEEe
Q psy4542          83 LIVGWWATGDEV-----TSQSSVIHDYYIRECKNPVHMTLDTNLK---GPNMGIKGYVH  133 (273)
Q Consensus        83 ~iVGWY~~g~~~-----~~~~~~i~~~~~~~~~~pi~L~~D~~~~---~~~l~ikay~~  133 (273)
                      .|||+|+....+     ++....|=+.+.+.++.++++++|-..-   .+..++.+|..
T Consensus        77 ~IvGyY~Ane~~~d~~~~~~a~kiad~I~~~~~~a~ll~idn~kl~~~~~~~~~~~~~~  135 (196)
T PF03665_consen   77 VIVGYYQANERLDDNSPSPVAEKIADKIAENFSDACLLMIDNKKLSSDCKAPAISVYQR  135 (196)
T ss_pred             EEEEEEEeccccccCCCCHHHHHHHHHHHhhCCCcEEEEEECcccccccCCCcceeeee
Confidence            999999996543     3333445566777778899999997643   23445567773

>cd08070 MPN_like Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding)

Probab=98.47  E-value=1.8e-06  Score=68.54  Aligned_cols=112  Identities=12%  Similarity=0.055  Sum_probs=78.8

Q ss_pred             hHhHHHHHHhhccCCCceEEEEEeeeEeCCEEEEEEEEeeccccCc--hhhHhhHHHHHHHHHHHhhhCCCCCeEEeecC
Q psy4542          13 VLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYD--EMVEAELNYAQDMFEMNQKVNPSELIVGWWAT   90 (273)
Q Consensus        13 vll~I~dh~~r~~~~~~~v~G~LLG~~~~~~veV~~sF~vp~~~~~--~~~~id~~~~~~m~~l~k~v~p~~~iVGWY~~   90 (273)
                      ++-+|++|..+.  .+..++|.|+|..++....|+..|++|....+  ..+.+|.+.+.+..+..++.  ++.+||||+|
T Consensus         3 ~~~~il~ha~~~--~P~E~cGlL~G~~~~~~~~i~~~~p~~n~~~~~~~~f~~d~~~~~~~~~~~~~~--g~~~vG~~HS   78 (128)
T cd08070           3 LLEAILAHAEAE--YPEECCGLLLGKGGGVTAIVTEVYPVRNVAESPRRRFEIDPAEQLAAQREARER--GLEVVGIYHS   78 (128)
T ss_pred             HHHHHHHHHHhC--CCCceEEEEEeecCCCCceEEEEEEccCCCCCCCceEEECHHHHHHHHHHHHHC--CCeEEEEEeC
Confidence            456788888774  57899999999987666677899999875543  35567877777766666544  6999999999


Q ss_pred             CCC----CCcccHHHHHHHHhhCCCcEEEEEcCCCCCCCcceeEEEeee
Q psy4542          91 GDE----VTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNMGIKGYVHVP  135 (273)
Q Consensus        91 g~~----~~~~~~~i~~~~~~~~~~pi~L~~D~~~~~~~l~ikay~~~~  135 (273)
                      .+.    ++..|....  .   ....+++++.....  ...+++|....
T Consensus        79 HP~~~~~PS~~D~~~~--~---~~~~~~lIv~~~~~--~~~~~~~~~~~  120 (128)
T cd08070          79 HPDGPARPSETDLRLA--W---PPGVSYLIVSLAGG--APELRAWRLEG  120 (128)
T ss_pred             CCCCCCCCCHHHHHhc--c---CCCCeEEEEECCCC--CcEEEEEEEcC
Confidence            764    344443321  1   12467888876543  56789999863

This family contains archaeal and bacterial MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains. These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.

>COG1310 Predicted metal-dependent protease of the PAD1/JAB1 superfamily [General function prediction only]

Probab=98.12  E-value=2.2e-05  Score=62.75  Aligned_cols=101  Identities=18%  Similarity=0.255  Sum_probs=64.5

Q ss_pred             EEEehhhHhHHHHHHhhccCCCceEEEEEeeeEeCCEEEEEEEEeeccccC--chhhHhhHHHHHHHHHHHhhhCCCCCe
Q psy4542           7 IKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEY--DEMVEAELNYAQDMFEMNQKVNPSELI   84 (273)
Q Consensus         7 V~lhPlvll~I~dh~~r~~~~~~~v~G~LLG~~~~~~veV~~sF~vp~~~~--~~~~~id~~~~~~m~~l~k~v~p~~~i   84 (273)
                      +.+-..++-.|+.|..|.  .+..++|.|.|...+     ...|+++....  .+...++.++.. +....+..  ++.+
T Consensus         2 ~~i~~~~l~~il~~a~~~--~p~E~~g~l~~~~~~-----~~~~~~~n~~~~~~~~~~~~~~~~~-~~~~~~~~--g~~v   71 (134)
T COG1310           2 LVIPKEVLGAILEHARRE--HPREVCGLLAGTREG-----ERYFPLKNVSVEPVEYFEIDPEYSL-FYLAAEDA--GEVV   71 (134)
T ss_pred             ceecHHHHHHHHHHHHhc--CChheEEEEEeeccc-----ceeeccccccCCcceeEeeCHHHHH-HHHHHhhC--CCEE
Confidence            346677888999999885  468999999999876     44555554332  112234455444 33333333  3999


Q ss_pred             EEeecCCCC--CCcccHHHHHHHHhhCCCcEEEEEcC
Q psy4542          85 VGWWATGDE--VTSQSSVIHDYYIRECKNPVHMTLDT  119 (273)
Q Consensus        85 VGWY~~g~~--~~~~~~~i~~~~~~~~~~pi~L~~D~  119 (273)
                      ||||+|++.  ...++..++  +++..+.|.+++..+
T Consensus        72 vg~yHSHP~~~~~pS~~D~~--~~~~~~~~~~iv~~~  106 (134)
T COG1310          72 VGWYHSHPGGPPYPSEADRR--LSKLGPLPWLIVSVP  106 (134)
T ss_pred             EEEEcCCCCCCCCcCHHHHh--hccccCCCEEEEEcC
Confidence            999999773  334444444  677767777776654

>KOG3289|consensus

Probab=97.71  E-value=0.00091  Score=55.13  Aligned_cols=122  Identities=16%  Similarity=0.224  Sum_probs=86.8

Q ss_pred             eEEEehhhHhHHHHHHhhccCCCceEEEEEeee--EeCCEEEEEEEEeeccccCchhhHhhHHHHHHHHHHHhhhCCCCC
Q psy4542           6 SIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGT--VDKGVVEVTNCFCVPHKEYDEMVEAELNYAQDMFEMNQKVNPSEL   83 (273)
Q Consensus         6 ~V~lhPlvll~I~dh~~r~~~~~~~v~G~LLG~--~~~~~veV~~sF~vp~~~~~~~~~id~~~~~~m~~l~k~v~p~~~   83 (273)
                      .|++..++..+|+=|+.|.+  ...|-|.|+|.  ..|+.++|++|.|+=|+..  .+..-.|-...|++-+- +--.+.
T Consensus         3 ~veis~~aY~kmiLH~akyp--h~aVnGLLla~~~~kg~~v~itdcVPLfH~~l--aLaPmlEvAl~lId~~~-~~~Glv   77 (199)
T KOG3289|consen    3 EVEISALAYVKMILHAAKYP--HAAVNGLLLAPATGKGECVEITDCVPLFHSHL--ALAPMLEVALNLIDVWG-AQAGLV   77 (199)
T ss_pred             ceeehhhHHHHHHHHhccCc--ccceeeEEEeccCCCCCeEEEEecchhhcccc--ccccHHHHHHHHHHHHH-HhcCeE
Confidence            57889999999999999963  46899999994  5678999999999977642  12223344444555443 345899


Q ss_pred             eEEeecCCCCCCcc-----cHHHHHHHHhhCCCcEEEEEcCCC-C-C-CCcceeEEE
Q psy4542          84 IVGWWATGDEVTSQ-----SSVIHDYYIRECKNPVHMTLDTNL-K-G-PNMGIKGYV  132 (273)
Q Consensus        84 iVGWY~~g~~~~~~-----~~~i~~~~~~~~~~pi~L~~D~~~-~-~-~~l~ikay~  132 (273)
                      |+|.|++...+++.     -..|-+.++++.+++.++++|-.. . + ..-|+-+|+
T Consensus        78 iaGyy~Ane~~~D~s~~~~A~kiadrIse~f~~A~ilv~dn~~l~~~~e~~~v~v~e  134 (199)
T KOG3289|consen   78 IAGYYHANERVNDQSLNPVALKIADRISEFFPDAAILVLDNKKLVPQCERPPVIVLE  134 (199)
T ss_pred             EEEEeecCCCccccCccHHHHHHHHHHHhhCCCCeEEEEeccccccccCCCCEEEee
Confidence            99999997655432     244667788888877767766543 2 2 446888888

>cd08056 MPN_PRP8 Mpr1p, Pad1p N-terminal (MPN) domains without isopeptidase activity found in splicing factor Prp8

Probab=97.07  E-value=0.0025  Score=56.05  Aligned_cols=102  Identities=18%  Similarity=0.248  Sum_probs=70.8

Q ss_pred             CceEEEEEeeeEe---CCEEEEEEEEeeccccCchhhHhhHHHHHHHHHHHhhhCCCCCeEEeecCCC----CCCcccHH
Q psy4542          28 SHRVIGTLLGTVD---KGVVEVTNCFCVPHKEYDEMVEAELNYAQDMFEMNQKVNPSELIVGWWATGD----EVTSQSSV  100 (273)
Q Consensus        28 ~~~v~G~LLG~~~---~~~veV~~sF~vp~~~~~~~~~id~~~~~~m~~l~k~v~p~~~iVGWY~~g~----~~~~~~~~  100 (273)
                      +..++|.|.|...   .+.-||+.....|...+.+.+.+..+-     -.+ +---++..|||=+|.+    .+++.|+.
T Consensus        55 rtQ~~GyLyG~~~~d~~~vkeI~cIvipPQ~gt~~sv~l~~~~-----~~~-~~l~~Le~LGWIHTqp~e~~~Lss~Dv~  128 (252)
T cd08056          55 RTQIAGYLYGKSPPDNPQVKEIRCIVLVPQLGTHQTVTLPQQL-----PQH-EYLEDLEPLGWIHTQPNELPQLSPQDVT  128 (252)
T ss_pred             cceEEEEEeccCCCCCCCeEEEEEEEECCEeCCcCcEECCccC-----ccc-hhhCCCEeeEEEEcCCCCccccCHHHHH
Confidence            3589999999953   356688877777877655544321110     111 1134688999999953    67889999


Q ss_pred             HHHHHHhhCC-----CcEEEEEcCCCCCCCcceeEEEeeecC
Q psy4542         101 IHDYYIRECK-----NPVHMTLDTNLKGPNMGIKGYVHVPIG  137 (273)
Q Consensus       101 i~~~~~~~~~-----~pi~L~~D~~~~~~~l~ikay~~~~~~  137 (273)
                      .|..|+...+     +.|.+++-  ++.|...+.||.+++.|
T Consensus       129 tha~~~~~~~~w~~~~~V~it~S--ftpGs~sl~ay~LT~~G  168 (252)
T cd08056         129 THAKILADNPSWDGEKTVILTCS--FTPGSCSLTAYKLTPEG  168 (252)
T ss_pred             HHHHHHHhccccCCCcEEEEEEc--CCCCceEEEEEecCHHH
Confidence            9999988775     45555554  34678999999998765

Members of this family are found in pre-mRNA-processing factor 8 (Prp8) which is a critical splicing factor, interacting with several other spliceosomal proteins, snRNAs, and the pre-mRNA, thus organizing and stabilizing the spliceosome catalytic core. Prp8 is one of the largest and most highly conserved of nuclear proteins, occupying a central position in the catalytic core of the spliceosome. Its C-terminal domain exhibits a JAB1/MPN-like core similar to deubiquitinating enzymes, but does not show catalytic isopeptidase activity, possibly because the putative isopeptidase center is covered by insertions and terminal appendices that are grafted onto this core, thus impairing the metal binding site. It is proposed that this domain is a protein interaction domain instead of a Zn(2+)-dependent metalloenzyme as proposed for some MPN proteins. The DEAD-box protein Brr2 and t

>TIGR02256 ICE_VC0181 integrative and conjugative element protein, VC0181 family

Probab=97.01  E-value=0.0089  Score=47.53  Aligned_cols=104  Identities=13%  Similarity=0.114  Sum_probs=65.2

Q ss_pred             hHhHHHHHHhhccCCCceEEEEEeeeEeCCEEEEEEEEeeccccC-c--hhhHhhHHHHHHHHH-HHhhhCCCCCeEEee
Q psy4542          13 VLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEY-D--EMVEAELNYAQDMFE-MNQKVNPSELIVGWW   88 (273)
Q Consensus        13 vll~I~dh~~r~~~~~~~v~G~LLG~~~~~~veV~~sF~vp~~~~-~--~~~~id~~~~~~m~~-l~k~v~p~~~iVGWY   88 (273)
                      +++++...|......+....|+|+|...+..+.|+.+- .|...+ .  ..+..+.+.+++.++ .+++.+-....||=+
T Consensus         1 ~v~~~~~~~~Q~~~~~~EtGGiLiG~~~~~~~ii~~~t-~P~p~d~~tr~~F~r~~~~~q~~i~~~~~~s~g~~~ylGeW   79 (131)
T TIGR02256         1 VVVAMLKSYRQWHDLSTETGGVLIGERRGAHAVITKIS-EPGSGDIRTRKRFSRDGEHHQSEVDEHFEVSGGVDTYLGEW   79 (131)
T ss_pred             CHHHHHHHHHhCcCCCCccceEEEEEEcCCcEEEEEEE-cCCCCcccCceEEEeCcHHHHHHHHHHHHHhCCceEEEEec
Confidence            46777888877666678999999999987777787744 443332 1  133446666666554 455566669999999


Q ss_pred             cCCCC----CCcccHHHHHHHHhhCCCcEEEEE
Q psy4542          89 ATGDE----VTSQSSVIHDYYIRECKNPVHMTL  117 (273)
Q Consensus        89 ~~g~~----~~~~~~~i~~~~~~~~~~pi~L~~  117 (273)
                      +|.+.    ++..|...-....+..+..+++++
T Consensus        80 HtHP~~~p~PS~~D~~~~~~~~~~~~~~l~iIv  112 (131)
T TIGR02256        80 HTHPEDQPEPSWTDRRSWRTIIRSPEAMLLLIV  112 (131)
T ss_pred             CcCCCCCCCCCHHHHHHHHHHHhCCCeeEEEEE
Confidence            99764    334444333333333334445554

This uncharacterized protein is found in several Proteobacteria, among them Rhizobium sp. NGR234, Vibrio cholerae, Myxococcus xanthus, and E. coli strain ECOR31. In the latter, it is part of an integrative and conjugative element that is readily induced to excise and circularize.

>cd08072 MPN_archaeal Mov34/MPN/PAD-1 family: archaeal JAB1/MPN/Mov34 metalloenzyme

Probab=96.61  E-value=0.035  Score=43.26  Aligned_cols=99  Identities=17%  Similarity=0.183  Sum_probs=62.1

Q ss_pred             hHhHHHHHHhhccCCCceEEEEEeeeEeCCEEEEEEEEeeccccCchhhH-hhHHHHHHHHHHHhhhCCCCCeEEeecCC
Q psy4542          13 VLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVE-AELNYAQDMFEMNQKVNPSELIVGWWATG   91 (273)
Q Consensus        13 vll~I~dh~~r~~~~~~~v~G~LLG~~~~~~veV~~sF~vp~~~~~~~~~-id~~~~~~m~~l~k~v~p~~~iVGWY~~g   91 (273)
                      .+-.|.+|..+.  .+..++|.|+|...    .|++.+++|....++... .+.+    |.      -.+..++|-|++.
T Consensus         5 ~~~~i~~ha~~~--~P~E~CGlL~G~~~----~v~~~~~~~n~~~~~~~~~f~~~----~~------~~g~~ivgi~HSH   68 (117)
T cd08072           5 LLDSILEAAKSS--HPNEFAALLRGKDG----VITELLILPGTESGEVSAVFPLL----ML------PLDMSIVGSVHSH   68 (117)
T ss_pred             HHHHHHHHHhhc--CCceEEEEEEeecc----EEEEEEECCCCCCCCcceeechH----Hh------cCCCeEEEEEEcC
Confidence            345678888764  58899999999764    588999999654432111 1221    11      2489999999997


Q ss_pred             CC----CCcccHHHHHHHHhhCCCcEEEEEcCCCCCCCcceeEEEee
Q psy4542          92 DE----VTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNMGIKGYVHV  134 (273)
Q Consensus        92 ~~----~~~~~~~i~~~~~~~~~~pi~L~~D~~~~~~~l~ikay~~~  134 (273)
                      +.    ++..|..    ++.. +..+++++....  +.-.++||...
T Consensus        69 P~~~~~PS~~D~~----~~~~-~~~~~lIvs~~~--~~~~~~a~~~~  108 (117)
T cd08072          69 PSGSPRPSDADLS----FFSK-TGLVHIIVGYPY--DEDDWRAYDSD  108 (117)
T ss_pred             CCCCCCCCHHHHH----hhhc-CCCEEEEEECcC--CCCCEEEEecC
Confidence            63    4445432    2222 345677776432  22468899875

This family contains only archaeal MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains. These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.

>PF14464 Prok-JAB: Prokaryotic homologs of the JAB domain; PDB: 1OI0_A 1R5X_B 2KKS_A 2KCQ_A

Probab=95.96  E-value=0.075  Score=39.89  Aligned_cols=66  Identities=23%  Similarity=0.211  Sum_probs=41.9

Q ss_pred             hHhHHHHHHhhccCCCceEEEEEeeeEeCCEEEEEEEEeeccccCchhhHhhHHHHHHHHHHHhhhCCCCCeEEeecCCC
Q psy4542          13 VLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAELNYAQDMFEMNQKVNPSELIVGWWATGD   92 (273)
Q Consensus        13 vll~I~dh~~r~~~~~~~v~G~LLG~~~~~~veV~~sF~vp~~~~~~~~~id~~~~~~m~~l~k~v~p~~~iVGWY~~g~   92 (273)
                      ++-.|.+|..+.  .+...+|.|+|...+..+.++......-.   +.+.....         +....+..+||+|+|.+
T Consensus         4 ~~~~i~~~~~~~--~p~E~~G~L~g~~~~~~~~~~~~~~~~p~---~~~~~~~~---------~~~~~~~~~vg~~HSHP   69 (104)
T PF14464_consen    4 VLEQIIAHARAA--YPNEACGLLLGRRDDQRFIVVPNVNPDPR---DSFRRERF---------EARERGLEIVGIWHSHP   69 (104)
T ss_dssp             HHHHHHHHHHHH--TTS-EEEEEEEEEECCEEEEEEEEE--HH---CHHHHHH----------HHHHHT-EEEEEEEEES
T ss_pred             HHHHHHHHHhhC--CCCeEEEEEEEEecCCEEEEEeCCCCCcH---HHHHHHhh---------hhhcccceeeEEEEcCC
Confidence            455677777665  57899999999997777777776652111   11111111         45567899999999955

>cd08061 MPN_NPL4 Mov34/MPN/PAD-1 family: nuclear protein localization-4 (Npl4) domain

Probab=92.48  E-value=0.86  Score=40.88  Aligned_cols=108  Identities=14%  Similarity=0.135  Sum_probs=69.8

Q ss_pred             CceEEEEEeeeEeC-------CEEEEEEEEeeccccCchhhHhhHHHHHHHHHHHhhhCCCCCeEEeecCCC--------
Q psy4542          28 SHRVIGTLLGTVDK-------GVVEVTNCFCVPHKEYDEMVEAELNYAQDMFEMNQKVNPSELIVGWWATGD--------   92 (273)
Q Consensus        28 ~~~v~G~LLG~~~~-------~~veV~~sF~vp~~~~~~~~~id~~~~~~m~~l~k~v~p~~~iVGWY~~g~--------   92 (273)
                      ...-+|.|.|+.+.       .++.|.--|+=|...+.+.+.+..+-..+..+... ..-.+..|||=-|..        
T Consensus        33 ~~QR~G~LyG~y~~~~~~plgika~VeaIYEPPQ~~~~d~~~~l~d~~~~~vd~iA-~~lGL~~VG~IfT~l~~~~~d~~  111 (274)
T cd08061          33 GQQRIGFLYGRYDEDEDVPLGIKAVVEAIYEPPQEGTPDGFELLEDPNADTVDAIA-AALGLERVGWIFTDLPREDKDGY  111 (274)
T ss_pred             cceeEEEEEEEeecccCCCCceEEEEEEEECCCccCCCCCeEEccchhhhHHHHHH-HHcCCeEEEEEEecCCCCCCCce
Confidence            35678999999743       48899999998887665544433222222233322 345799999987743        


Q ss_pred             CCCcccHHHHHHHHh-----hCC-CcEEEEEcCCCCCCCcceeEEEeeecC
Q psy4542          93 EVTSQSSVIHDYYIR-----ECK-NPVHMTLDTNLKGPNMGIKGYVHVPIG  137 (273)
Q Consensus        93 ~~~~~~~~i~~~~~~-----~~~-~pi~L~~D~~~~~~~l~ikay~~~~~~  137 (273)
                      .++..++.....+|.     ... +-+-+++.+.. ++.+.+.||..++..
T Consensus       112 ~LSs~Evi~aA~~Q~~~~~g~~gskFvT~vvs~~~-~g~i~~~ayQvSdq~  161 (274)
T cd08061         112 FLSAEEVILAAKFQLKHPTGKFGSKFVTVVVTGDK-DGQIHFEAYQVSDQA  161 (274)
T ss_pred             eECHHHHHHHHHHhhhcccCCcCCeEEEEEEecCC-CCceeeeeeeecHHH
Confidence            345555555566663     223 33557777765 478999999998753

Npl4p (nuclear protein localization-4) is identical to Hmg-CoA reductase degradation 4 (HRD4) protein and contains a domain that is part of the pfam clan MPN/Mov34-like. Npl4 plays an intermediate role between endoplasmic reticulum-associated degradation (ERAD) substrate ubiquitylation and proteasomal degradation. Npl4p associates with Cdc48p (Cdc48 in yeast and p97 or valosin-containing protein (VCP) in higher eukaryotes), the highly conserved ATPase of the AAA family, via ubiquitin fusion degradation-1 protein (Ufd1p) to form a Cdc48p-Ufd1p-Npl4p complex which then functions in the recognition of several polyubiquitin-tagged proteins and facilitates their presentation to the 26S proteasome for processive degradation. This family of eukaryotic MPN-like domains lacks the key residues that coordinate a metal ion and therefore does not show catalytic isopeptidase activity.

>cd08073 MPN_NLPC_P60 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains

Probab=91.97  E-value=1.5  Score=33.48  Aligned_cols=63  Identities=13%  Similarity=0.031  Sum_probs=39.0

Q ss_pred             hHHHHHHhhccCCCceEEEEEeeeEeCCEEEEEEEEeeccccC--chhhHhhHH-HHHHHHHHHhhhCCCCCeEEeecCC
Q psy4542          15 FQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEY--DEMVEAELN-YAQDMFEMNQKVNPSELIVGWWATG   91 (273)
Q Consensus        15 l~I~dh~~r~~~~~~~v~G~LLG~~~~~~veV~~sF~vp~~~~--~~~~~id~~-~~~~m~~l~k~v~p~~~iVGWY~~g   91 (273)
                      -.|.+|..+.  .+...+|.|+|..     .++..|+++....  ...+.+|.+ +.+-+    +    ...+||.|++.
T Consensus         4 ~~i~~ha~~~--~P~E~CGll~g~~-----~~~~~~p~~N~~~~p~~~F~idp~e~~~a~----~----~~~ivgi~HSH   68 (108)
T cd08073           4 DAILAHAKAE--YPREACGLVVRKG-----RKLRYIPCRNIAADPEEHFEISPEDYAAAE----D----EGEIVAVVHSH   68 (108)
T ss_pred             HHHHHHHhHC--CCCcceEEEEecC-----CceEEEECccCCCCccceEEeCHHHHHHHh----c----CCCEEEEEEcC
Confidence            3677777664  5789999999966     2344566653221  134566653 33222    1    33899999997


Q ss_pred             C
Q psy4542          92 D   92 (273)
Q Consensus        92 ~   92 (273)
                      +
T Consensus        69 P   69 (108)
T cd08073          69 P   69 (108)
T ss_pred             C
Confidence            5

This family contains bacterial MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains at the N-terminus of NlpC/P60 phage tail protein domains. These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.

>KOG2880|consensus

Probab=86.17  E-value=0.47  Score=43.58  Aligned_cols=96  Identities=16%  Similarity=0.204  Sum_probs=66.1

Q ss_pred             CceEEEEEeeeEeCCEEEEEEEEeecccc-Cchhh-HhhHHHHHHHHHHHh-hhCCCCCeEEeecCCC----CCCcccHH
Q psy4542          28 SHRVIGTLLGTVDKGVVEVTNCFCVPHKE-YDEMV-EAELNYAQDMFEMNQ-KVNPSELIVGWWATGD----EVTSQSSV  100 (273)
Q Consensus        28 ~~~v~G~LLG~~~~~~veV~~sF~vp~~~-~~~~~-~id~~~~~~m~~l~k-~v~p~~~iVGWY~~g~----~~~~~~~~  100 (273)
                      +-..||+|-|.-..|..-||+-. +|..+ +.|.+ ..+.+      ++|. +---++-.+||-+|.+    ++++.|+.
T Consensus       275 nlETCGiL~g~L~~n~f~IThli-iPkQeatsd~C~t~nee------elF~vQdq~~L~tlGWIHTHPTQt~FmSSVDlH  347 (424)
T KOG2880|consen  275 NLETCGILAGKLERNEFYITHLI-IPKQEATSDSCNTMNEE------ELFEVQDQHELLTLGWIHTHPTQTCFMSSVDLH  347 (424)
T ss_pred             cchHHHHhhhHhhcCcEEEEEEE-eecccCCCccccccCHH------HHheecccccceeeeeeecCCccchhheecccc
Confidence            35789999999888899998765 45444 33311 11111      1221 2224677899999965    67888899


Q ss_pred             HHHHHHhhCCCcEEEEEcCCCCCCCcceeEEEee
Q psy4542         101 IHDYYIRECKNPVHMTLDTNLKGPNMGIKGYVHV  134 (273)
Q Consensus       101 i~~~~~~~~~~pi~L~~D~~~~~~~l~ikay~~~  134 (273)
                      .|-.||-..+.+|+++.-|...+    --.|++.
T Consensus       348 THcSYQiMlPEAiAIV~aPk~~~----tGiFrLt  377 (424)
T KOG2880|consen  348 THCSYQIMLPEAIAIVCAPKSKT----TGIFRLT  377 (424)
T ss_pred             ccceeeeecchheeEEeccccCC----cceEEec
Confidence            99999988888999999887542    2367776

>PF05021 NPL4: NPL4 family; InterPro: IPR007717 The HRD4 gene is identical to NPL4, a gene previously implicated in nuclear transport

Probab=83.13  E-value=8.2  Score=35.20  Aligned_cols=103  Identities=12%  Similarity=0.091  Sum_probs=60.7

Q ss_pred             EEEEeeeEeC-------CEEEEEEEEeeccccCchhhHhhHHHHHHHHHHHhhhCCCCCeEEeecCCCC-----------
Q psy4542          32 IGTLLGTVDK-------GVVEVTNCFCVPHKEYDEMVEAELNYAQDMFEMNQKVNPSELIVGWWATGDE-----------   93 (273)
Q Consensus        32 ~G~LLG~~~~-------~~veV~~sF~vp~~~~~~~~~id~~~~~~m~~l~k~v~p~~~iVGWY~~g~~-----------   93 (273)
                      +|.|.|+.+.       -++.|.--|+=|...+.+.+.+..+-.++..+... ..-++..|||=-|...           
T Consensus         2 ~G~LYG~Y~~~~~vplGika~VeaIYEPpQ~~~~d~~~l~~d~~~~~vd~iA-~~lGL~rVG~IfTdl~~~~~~~g~v~~   80 (306)
T PF05021_consen    2 FGFLYGRYEEYDDVPLGIKAVVEAIYEPPQEGEPDGFTLLPDENEERVDAIA-SALGLERVGWIFTDLTDDGSGDGTVKC   80 (306)
T ss_pred             eEEEEEEEeccCCCCCceEEEEEEEECCCcCCCCCCEEEcCCccHHHHHHHH-HHCCCEEEEEEEecCcccccCCCceee
Confidence            7999999742       27899999999987665544432222222222222 1228999999877422           


Q ss_pred             --------CCcccHHHHHHHHhhCC------------C-cEEEEEcCCCCCCCcceeEEEeeec
Q psy4542          94 --------VTSQSSVIHDYYIRECK------------N-PVHMTLDTNLKGPNMGIKGYVHVPI  136 (273)
Q Consensus        94 --------~~~~~~~i~~~~~~~~~------------~-pi~L~~D~~~~~~~l~ikay~~~~~  136 (273)
                              ++...+..=..+|...+            + -|-+++.+. .++.+.+.||..++.
T Consensus        81 ~r~~~~~~LSs~Eii~aA~~Q~~~p~~~~~s~~g~fgSkFVT~vvsg~-~~g~i~~~ayQvS~q  143 (306)
T PF05021_consen   81 KRHKDSYFLSSLEIIFAAKLQNKHPNPCKYSETGYFGSKFVTCVVSGD-EEGEIHFEAYQVSNQ  143 (306)
T ss_pred             ccccccccccHHHHHHHHHHHHhcCccccccCCCccCCeEEEEEEeCC-CCCceeeEEeeehHH
Confidence                    33333333333443221            2 245666653 468899999999874

Using a diverse set of substrates and direct ubiquitination assays, analysis revealed that HRD4/NPL4 is required for a poorly characterised step in ER-associated degradation following ubiquitination of target proteins but preceding their recognition by the 26S proteasome []. Npl4p physically associates with Cdc48p via Ufd1p to form a Cdc48p-Ufd1p-Npl4p complex. The Cdc48-Ufd1-Npl4 complex functions in the recognition of several polyubiquitin-tagged proteins and facilitates their presentation to the 26S proteasome for processive degradation or even more specific processing [].

>cd08059 MPN_prok_mb Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); prokaryotic

Probab=81.82  E-value=6.7  Score=29.16  Aligned_cols=70  Identities=11%  Similarity=0.069  Sum_probs=42.5

Q ss_pred             HHHHHHhhccCCCceEEEEEeeeEeCCEEEEEEEEeeccccCchhhHhhHHHHHHHHHHHhhhCCCCCeEEeecCCC---
Q psy4542          16 QIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAELNYAQDMFEMNQKVNPSELIVGWWATGD---   92 (273)
Q Consensus        16 ~I~dh~~r~~~~~~~v~G~LLG~~~~~~veV~~sF~vp~~~~~~~~~id~~~~~~m~~l~k~v~p~~~iVGWY~~g~---   92 (273)
                      .|.+|+.+.  .+...+|+|+|...+   .+.+..++|....    ..+..+      ......-+..+||-|++.+   
T Consensus         5 ~i~~~~~~~--~p~E~~gll~~~~~~---~~~~~~~~~~~~~----~~~~~~------~~~a~~~~~~~v~i~HsHP~g~   69 (101)
T cd08059           5 TILVHAKDA--HPDEFCGFLSGSKDN---VMDELIFLPFVSG----SVSAVI------DLAALEIGMKVVGLVHSHPSGS   69 (101)
T ss_pred             HHHHHHHhc--CChhhheeeecCCCC---eEEEEEeCCCcCC----ccChHH------HHHHhhCCCcEEEEEecCcCCC
Confidence            345555443  367899999997643   5777788875431    122222      2233445778999999955   


Q ss_pred             -CCCcccHH
Q psy4542          93 -EVTSQSSV  100 (273)
Q Consensus        93 -~~~~~~~~  100 (273)
                       .++..|..
T Consensus        70 ~~PS~~D~~   78 (101)
T cd08059          70 CRPSEADLS   78 (101)
T ss_pred             CCCCHHHHH
Confidence             45555544

This family contains bacterial and archaeal MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains. These catalytically active domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	273
4b4t_U	338	Near-Atomic Resolution Structural Model Of The Yeas		6e-16
2o95_A	187	Crystal Structure Of The Metal-Free Dimeric Human M		2e-15
2o96_A	178	Crystal Structure Of The Metal-Free Dimeric Human M		3e-15

>pdb|4B4T|U Chain U, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 338

Iteration: 1
 Score = 81.3 bits (199), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 55/233 (23%), Positives = 120/233 (51%), Gaps = 7/233 (3%)
Query: 6   SIKVHPVVLFQIVDAFER-RNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEA- 63
            + + P+VL   +D +ER +  ++ R +G +LG  +   + VTN F +P +E ++  +  
Sbjct: 7   KVTIAPLVLLSALDHYERTQTKENKRCVGVILGDANSSTIRVTNSFALPFEEDEKNSDVW 66
Query: 64  --ELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECK-NPVHMTLDTN 120
             + NY ++M EM +K+N  E ++GW+ +G ++ +    I++ + +  + NP+ + +D  
Sbjct: 67  FLDHNYIENMNEMCKKINAKEKLIGWYHSGPKLRASDLKINELFKKYTQNNPLLLIVDVK 126
Query: 121 LKGPNMGIKGYVHVP-IGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSIKQGAVQPL 179
            +G  +    YV +  +   G  +   F  +P  +    +E  G+  L + ++  A   L
Sbjct: 127 QQGVGLPTDAYVAIEQVKDDGTSTEKTFLHLPCTIEAEEAEEIGVEHLLRDVRDQAAGGL 186
Query: 180 S-ELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSM 231
           S  LT   ++   L   +  V+ Y+D+V+   +  +++I  +L D+ N +P++
Sbjct: 187 SIRLTNQLKSLKGLQSKLKDVVEYLDKVINKELPINHTILGKLQDVFNLLPNL 239

>pdb|2O95|A Chain A, Crystal Structure Of The Metal-Free Dimeric Human Mov34 Mpn Domain (Residues 1-186) Length = 187

Iteration: 1
 Score = 79.0 bits (193), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 57/177 (32%), Positives = 91/177 (51%), Gaps = 12/177 (6%)
Query: 9   VHPVVLFQIVDAFER--RNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDE---MVEA 63
           VHP+VL  +VD F R  +  +  RV+G LLG+  K V++V+N F VP  E D+   +   
Sbjct: 12  VHPLVLLSVVDHFNRIGKVGNQKRVVGVLLGSWQKKVLDVSNSFAVPFDEDDKDDSVWFL 71
Query: 64  ELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNLKG 123
           + +Y ++M+ M +KVN  E IVGW+ TG ++      I++   R C N V + +D   K 
Sbjct: 72  DHDYLENMYGMFKKVNARERIVGWYHTGPKLHKNDIAINELMKRYCPNSVLVIIDVKPKD 131
Query: 124 PNMGIKGYVHVP----IGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSIKQGAV 176
             +  + Y+ V      G P  K+   F  + +E+    +E  G+  L + IK   V
Sbjct: 132 LGLPTEAYISVEEVHDDGTPTSKT---FEHVTSEIGAEEAEEVGVEHLLRDIKDTTV 185

>pdb|2O96|A Chain A, Crystal Structure Of The Metal-Free Dimeric Human Mov34 Mpn Domain (Residues 1-177) Length = 178

Iteration: 1
 Score = 79.0 bits (193), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 51/155 (32%), Positives = 82/155 (52%), Gaps = 12/155 (7%)
Query: 9   VHPVVLFQIVDAFER--RNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDE---MVEA 63
           VHP+VL  +VD F R  +  +  RV+G LLG+  K V++V+N F VP  E D+   +   
Sbjct: 12  VHPLVLLSVVDHFNRIGKVGNQKRVVGVLLGSWQKKVLDVSNSFAVPFDEDDKDDSVWFL 71
Query: 64  ELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNLKG 123
           + +Y ++M+ M +KVN  E IVGW+ TG ++      I++   R C N V + +D   K 
Sbjct: 72  DHDYLENMYGMFKKVNARERIVGWYHTGPKLHKNDIAINELMKRYCPNSVLVIIDVKPKD 131
Query: 124 PNMGIKGYVHVP----IGVPGGKSGIMFTQIPAEV 154
             +  + Y+ V      G P  K+   F  + +E+
Sbjct: 132 LGLPTEAYISVEEVHDDGTPTSKT---FEHVTSEI 163

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	273
2o95_A	187	26S proteasome non-ATPase regulatory subunit 7; PS	2e-44
4e0q_A	141	COP9 signalosome complex subunit 6; MPN (MPR1P and	8e-39
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-04

>2o95_A 26S proteasome non-ATPase regulatory subunit 7; PSMD7, MOV34, JAB1/MPN, metal-free dimer, UN function; HET: SO4 12P ETE PG4 PGE; 1.95A {Homo sapiens} PDB: 2o96_A Length = 187

 Score =  147 bits (372), Expect = 2e-44
 Identities = 55/177 (31%), Positives = 87/177 (49%), Gaps = 6/177 (3%)

Query: 6   SIKVHPVVLFQIVDAFERRNLD--SHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEA 63
            + VHP+VL  +VD F R        RV+G LLG+  K V++V+N F VP  E D+    
Sbjct: 9   KVVVHPLVLLSVVDHFNRIGKVGNQKRVVGVLLGSWQKKVLDVSNSFAVPFDEDDKDDSV 68

Query: 64  EL---NYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTN 120
                +Y ++M+ M +KVN  E IVGW+ TG ++      I++   R C N V + +D  
Sbjct: 69  WFLDHDYLENMYGMFKKVNARERIVGWYHTGPKLHKNDIAINELMKRYCPNSVLVIIDVK 128

Query: 121 LKGPNMGIKGYVHVP-IGVPGGKSGIMFTQIPAEVICYNSEVTGLRLLHKSIKQGAV 176
            K   +  + Y+ V  +   G  +   F  + +E+    +E  G+  L + IK   V
Sbjct: 129 PKDLGLPTEAYISVEEVHDDGTPTSKTFEHVTSEIGAEEAEEVGVEHLLRDIKDTTV 185

>4e0q_A COP9 signalosome complex subunit 6; MPN (MPR1P and PAD1P N-terminal) domain, unknown function; 2.50A {Drosophila melanogaster} Length = 141

 Score =  131 bits (332), Expect = 8e-39
 Identities = 26/137 (18%), Positives = 60/137 (43%), Gaps = 4/137 (2%)

Query: 2   SLNVSIKVHPVVLFQIVDAFER---RNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYD 58
            ++V+I +HP+V+  I + + R   ++ +  +V G L+G      +E+ N F +      
Sbjct: 3   HMSVTISLHPLVIMNISEHWTRFRAQHGEPRQVYGALIGKQKGRNIEIMNSFELKTDVIG 62

Query: 59  EMVEAELNYAQDMFEMNQKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLD 118
           +      +Y     +  ++V      +GW+ TGD  T+    I        + P+ + L+
Sbjct: 63  DETVINKDYYNKKEQQYKQVFSDLDFIGWYTTGDNPTADDIKIQRQIAAINECPIMLQLN 122

Query: 119 TNLKGPN-MGIKGYVHV 134
              +  + + +K +  +
Sbjct: 123 PLSRSVDHLPLKLFESL 139

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

 Score = 40.2 bits (93), Expect = 6e-04
 Identities = 35/254 (13%), Positives = 79/254 (31%), Gaps = 75/254 (29%)

Query: 8   KVHPVVLF--------QIVDAFERRNLDSHRVIG--TLLGTVDKGVVEVTNCFCVPHKEY 57
           K +   L         +  +AF          +    LL T  K V +  +     H   
Sbjct: 241 KPYENCLLVLLNVQNAKAWNAFN---------LSCKILLTTRFKQVTDFLSAATTTHISL 291

Query: 58  DEMVEA-ELNYAQDMF-------------EMNQKVNPSEL-IVGWWATGDEVTSQSSVIH 102
           D        +  + +              E+    NP  L I+       E         
Sbjct: 292 DHHSMTLTPDEVKSLLLKYLDCRPQDLPREV-LTTNPRRLSIIA------ESIRDGLATW 344

Query: 103 DYYIRECKNPVHMTLDTNLKG--PNMGIKGYVHVPIGVPGGKSGIMF---TQIPAEVIC- 156
           D +     + +   ++++L    P    K +  + +          F     IP  ++  
Sbjct: 345 DNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSV----------FPPSAHIPTILLSL 394

Query: 157 --YNSEVTGLRLLHKSIKQGAVQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPD 214
             ++   + + ++        V  L + +LV +   + T+ I   + Y++     ++  +
Sbjct: 395 IWFDVIKSDVMVV--------VNKLHKYSLVEKQPKESTISI-PSI-YLEL----KVKLE 440

Query: 215 N--SIGRQLLDMVN 226
           N  ++ R ++D  N
Sbjct: 441 NEYALHRSIVDHYN 454

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	273
4b4t_U	338	RPN8, 26S proteasome regulatory subunit RPN8; hydr	100.0
2o95_A	187	26S proteasome non-ATPase regulatory subunit 7; PS	100.0
4e0q_A	141	COP9 signalosome complex subunit 6; MPN (MPR1P and	100.0
4b4t_V	306	26S proteasome regulatory subunit RPN11; hydrolase	100.0
2znr_A	178	AMSH-like protease; metal binding protein, alterna	99.42
3rzv_A	211	STAM-binding protein; ubiquitin hydrolase, endosom	99.31
2kks_A	146	Uncharacterized protein; NESG, structural genomics	98.97
2kcq_A	153	MOV34/MPN/PAD-1 family; NESG, structure, structura	98.73
1oi0_A	124	AF2198, hypothetical protein AF2198; proteasome, d	98.0
2p8r_A	273	PRP8, PRE-mRNA-splicing factor PRP8; alpha-beta, t	96.68
2og4_A	254	PRE-mRNA-splicing factor 8; isopeptidase, JAB1/MPN	96.28
3sbg_A	565	PRE-mRNA-splicing factor 8; PRP8P, rnaseh domain,	94.96

>4b4t_U RPN8, 26S proteasome regulatory subunit RPN8; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=4.9e-68  Score=484.95  Aligned_cols=270  Identities=22%  Similarity=0.447  Sum_probs=185.4

Q ss_pred             CC-CCceEEEehhhHhHHHHHHhhcc-CCCceEEEEEeeeEeCCEEEEEEEEeeccccCch---hhHhhHHHHHHHHHHH
Q psy4542           1 MS-LNVSIKVHPVVLFQIVDAFERRN-LDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDE---MVEAELNYAQDMFEMN   75 (273)
Q Consensus         1 ~~-~~~~V~lhPlvll~I~dh~~r~~-~~~~~v~G~LLG~~~~~~veV~~sF~vp~~~~~~---~~~id~~~~~~m~~l~   75 (273)
                      |+ ...+|.|||+|||+|+|||+|++ .++.+|+|+|||.++|+.|||+|||++|++++++   .+.+|.+|+++|+++|
T Consensus         1 ~s~~~~~V~vhPlVll~I~dH~~R~~~~~~~rViG~LLG~~~~~~veV~nsF~~p~~e~~~~~~~~~~D~~y~~~m~~~~   80 (338)
T 4b4t_U            1 MSLQHEKVTIAPLVLLSALDHYERTQTKENKRCVGVILGDANSSTIRVTNSFALPFEEDEKNSDVWFLDHNYIENMNEMC   80 (338)
T ss_dssp             -CCCCSEEEECHHHHHHHHHHHHHHTTTCCSCCEEEEEEEECSSEEEEEEEEECCEEECSSSTTCEEECHHHHHHHHHHH
T ss_pred             CCCCCCEEEEecHHHHHHHHHHHHhhcCCCCeEEEEEEeEEcCCEEEEEEEEEeccccCCCCCccccccHHHHHHHHHHH
Confidence            55 45689999999999999999954 3467999999999999999999999999987643   4678999999999999


Q ss_pred             hhhCCCCCeEEeecCCCCCCcccHHHHHHHHhhCC-CcEEEEEcCCCCCCCcceeEEEeeecCCCCC-cccceeeeeceE
Q psy4542          76 QKVNPSELIVGWWATGDEVTSQSSVIHDYYIRECK-NPVHMTLDTNLKGPNMGIKGYVHVPIGVPGG-KSGIMFTQIPAE  153 (273)
Q Consensus        76 k~v~p~~~iVGWY~~g~~~~~~~~~i~~~~~~~~~-~pi~L~~D~~~~~~~l~ikay~~~~~~~~~~-~~~~~f~~ip~~  153 (273)
                      |+|||++.+||||+||+.+++.|+.||++|+++++ +|++|++|+...++++|++||++.+....++ ..+..|+++|++
T Consensus        81 kkV~~~e~iVGWY~tg~~~~~~d~~Ih~~~~~~~~~~pi~l~~d~~~~~~~lpi~aY~s~~~~~~~~~~~~~~F~~lp~~  160 (338)
T 4b4t_U           81 KKINAKEKLIGWYHSGPKLRASDLKINELFKKYTQNNPLLLIVDVKQQGVGLPTDAYVAIEQVKDDGTSTEKTFLHLPCT  160 (338)
T ss_dssp             HHHCCSCEEEEEEECCSSCCSTHHHHHHHHGGGCCSCCCEEEECSCCCSSSCSEEEEEEEEECSSCSTTCEEEEEEECEE
T ss_pred             hhcCccCCEEEEEecCCCCCccHHHHHHHHHhccCCCcEEEEecCCCCCCCcceEEEEeehhccCCCcccccEEEEeeeE
Confidence            99999999999999999999999999999999985 8999999999989999999999987665543 456789999999


Q ss_pred             EecCchHHHHHHHHHhhccCCC-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHhhcCCCCC
Q psy4542         154 VICYNSEVTGLRLLHKSIKQGA-VQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRITPDNSIGRQLLDMVNSVPSMT  232 (273)
Q Consensus       154 i~~~e~E~i~v~~l~~~~~~~~-~~~~~~l~~~~~a~~~L~~~l~~i~~Yl~~V~~g~~~~d~~ilr~l~~~~~~lp~~~  232 (273)
                      |+++|+||||++++++...+.+ .++..++..+.+++++|+.||+.|++|+++|.+|+.++|++|||+|+++|+++|.++
T Consensus       161 i~~~eaE~Igv~~l~r~~~~~~~~~l~~~l~~~~~al~~L~~~l~~i~~Yl~~V~~g~~~~n~~ilr~l~~~~~~lP~l~  240 (338)
T 4b4t_U          161 IEAEEAEEIGVEHLLRDVRDQAAGGLSIRLTNQLKSLKGLQSKLKDVVEYLDKVINKELPINHTILGKLQDVFNLLPNLG  240 (338)
T ss_dssp             ECSCHHHHHHHHHHHHHHSSCC---CHHHHHHHHHHHHHHHHHHHHHHHHHHHC--------------------------
T ss_pred             eecCcHHHHHHHHHHhccccCcccccchhHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCHHHHHHHHHHHhhCCcCC
Confidence            9999999999999999887665 347889999999999999999999999999999999999999999999999999986


Q ss_pred             H-----------------HHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHhc
Q psy4542         233 Q-----------------EQFETMFNSNIKDLLMIMTLSQLTKTQLLLNEKLTLL  270 (273)
Q Consensus       233 ~-----------------~~f~~~~~~~~~D~lmv~yLs~ltk~~~~l~e~l~~~  270 (273)
                      +                 ++|+++|+.+.||++|++|||+|||+|++|+|++++-
T Consensus       241 ~~~~~~~~~~~~~~~~~~~~f~~~f~~~~nD~Lmv~YLs~L~rs~~al~eli~nk  295 (338)
T 4b4t_U          241 TPDDDEIDVENHDRINISNNLQKALTVKTNDELMVIYISNLVRSIIAFDDLIENK  295 (338)
T ss_dssp             -------------------------------------------------------
T ss_pred             cccccccccccccccchhHHHHHHHHhhcccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4                 4689999999999999999999999999999999763

>2o95_A 26S proteasome non-ATPase regulatory subunit 7; PSMD7, MOV34, JAB1/MPN, metal-free dimer, UN function; HET: SO4 12P ETE PG4 PGE; 1.95A {Homo sapiens} PDB: 2o96_A

Probab=100.00  E-value=9.5e-42  Score=287.48  Aligned_cols=173  Identities=31%  Similarity=0.531  Sum_probs=154.0

Q ss_pred             CCceEEEehhhHhHHHHHHhhcc--CCCceEEEEEeeeEeCCEEEEEEEEeeccccCch---hhHhhHHHHHHHHHHHhh
Q psy4542           3 LNVSIKVHPVVLFQIVDAFERRN--LDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDE---MVEAELNYAQDMFEMNQK   77 (273)
Q Consensus         3 ~~~~V~lhPlvll~I~dh~~r~~--~~~~~v~G~LLG~~~~~~veV~~sF~vp~~~~~~---~~~id~~~~~~m~~l~k~   77 (273)
                      ...+|.|||+|+++|+|||+|++  ..+.+|+|+|||.+.++.++|+|||++|+.++++   .+.+|.+|+.+|++++|+
T Consensus         6 ~~~~V~i~plvllkI~~H~~r~~~~~~~~~V~G~LLG~~~~~~v~V~~~f~lp~~~~~~~~~~~~~d~ey~~~m~~~~~~   85 (187)
T 2o95_A            6 AVQKVVVHPLVLLSVVDHFNRIGKVGNQKRVVGVLLGSWQKKVLDVSNSFAVPFDEDDKDDSVWFLDHDYLENMYGMFKK   85 (187)
T ss_dssp             SCSEEEECHHHHHHHHHHHHHHHHTTCCSCCEEEEEEEESSSEEEEEEEEEECEEECSSCTTSEEECHHHHHHHHHHHHT
T ss_pred             CCCEEEEchHHHHHHHHHHhhhcccCCCcEEEEEEEEEEcCCEEEEEEEEEeCCcccCCCcchhhcCHHHHHHHHHHHHH
Confidence            45699999999999999999985  2578999999999999999999999999987644   357999999999999999


Q ss_pred             hCCCCCeEEeecCCCCCCcccHHHHHHHHhhCCCcEEEEEcCCCCCCCcceeEEEeeecCCCCC-cccceeeeeceEEec
Q psy4542          78 VNPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNMGIKGYVHVPIGVPGG-KSGIMFTQIPAEVIC  156 (273)
Q Consensus        78 v~p~~~iVGWY~~g~~~~~~~~~i~~~~~~~~~~pi~L~~D~~~~~~~l~ikay~~~~~~~~~~-~~~~~f~~ip~~i~~  156 (273)
                      ++|++.+||||++++..+..|..||++|++.+++|++|++||....++++++||++.+.+..++ +....|+++|++|.+
T Consensus        86 v~~~~~iVGWY~s~~~~s~~d~~i~~~~~~~~~~~v~Livd~~~~~~~l~i~ay~~~~~~~~~~~~~~~~F~~ip~~I~~  165 (187)
T 2o95_A           86 VNARERIVGWYHTGPKLHKNDIAINELMKRYCPNSVLVIIDVKPKDLGLPTEAYISVEEVHDDGTPTSKTFEHVTSEIGA  165 (187)
T ss_dssp             TSSSCEEEEEEECCSSCCTTHHHHHHHHTTTCTTCEEEEECCCTTC-CCSEEEEEEEEECC----CCEEEEEEEEEEECC
T ss_pred             hCCCCCEEEEEcCCCcCCcccHHHHHHHHhcCCCCEEEEECCCCCCCCcCeEEEEEechhcCCCCcccCEEEEeeEEEec
Confidence            9999999999999999999999999999999999999999998875569999999988766543 457889999999999


Q ss_pred             CchHHHHHHHHHhhccCCC
Q psy4542         157 YNSEVTGLRLLHKSIKQGA  175 (273)
Q Consensus       157 ~e~E~i~v~~l~~~~~~~~  175 (273)
                      +|+||||++++++...+.+
T Consensus       166 ~eaE~i~v~~l~~~~~~~~  184 (187)
T 2o95_A          166 EEAEEVGVEHLLRDIKDTT  184 (187)
T ss_dssp             CHHHHHHHHHHHHHCCSCC
T ss_pred             CcHHHHHHHHHHhcCCCcc
Confidence            9999999999999987654

>4e0q_A COP9 signalosome complex subunit 6; MPN (MPR1P and PAD1P N-terminal) domain, unknown function; 2.50A {Drosophila melanogaster}

Probab=100.00  E-value=1.1e-41  Score=273.93  Aligned_cols=133  Identities=20%  Similarity=0.373  Sum_probs=114.5

Q ss_pred             CCCceEEEehhhHhHHHHHHhhccC---CCceEEEEEeeeEeCCEEEEEEEEeeccccCchhhHhhHHHHHHHHHHHhhh
Q psy4542           2 SLNVSIKVHPVVLFQIVDAFERRNL---DSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAELNYAQDMFEMNQKV   78 (273)
Q Consensus         2 ~~~~~V~lhPlvll~I~dh~~r~~~---~~~~v~G~LLG~~~~~~veV~~sF~vp~~~~~~~~~id~~~~~~m~~l~k~v   78 (273)
                      +++.+|+|||+|||+|+|||+|++.   .+.+|+|+|||.++++.+||+|||++|++++++++.+|.+|+++|++++|+|
T Consensus         3 ~~~~~V~ihplvll~I~dH~~R~~~~~g~~~~V~G~LLG~~~~~~veV~nsF~~p~~~~~~~~~~d~~y~~~m~~~~k~v   82 (141)
T 4e0q_A            3 HMSVTISLHPLVIMNISEHWTRFRAQHGEPRQVYGALIGKQKGRNIEIMNSFELKTDVIGDETVINKDYYNKKEQQYKQV   82 (141)
T ss_dssp             --CEEEEECHHHHHHHHHHHHCC------CCEEEEEEEEEEETTEEEEEEEEECCEEEETTEEEECHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEecHHHHHHHHHHhhhcccCCCCcEEEEEEEEEEeCCEEEEEEEEEecccCCCCceeecHHHHHHHHHHHHHh
Confidence            3678999999999999999999743   3679999999999999999999999999987777899999999999999999


Q ss_pred             CCCCCeEEeecCCCCCCcccHHHHHHHHhhCCCcEEEEEcCCCCC-CCcceeEEEee
Q psy4542          79 NPSELIVGWWATGDEVTSQSSVIHDYYIRECKNPVHMTLDTNLKG-PNMGIKGYVHV  134 (273)
Q Consensus        79 ~p~~~iVGWY~~g~~~~~~~~~i~~~~~~~~~~pi~L~~D~~~~~-~~l~ikay~~~  134 (273)
                      ||++.+||||++|+.++..|+.||++|++++++||+|++||..+. |+||++||++.
T Consensus        83 ~~~e~iVGWY~s~~~~~~~d~~i~~~~~~~~~~pV~L~~Dp~~~~~g~Lp~~ay~sv  139 (141)
T 4e0q_A           83 FSDLDFIGWYTTGDNPTADDIKIQRQIAAINECPIMLQLNPLSRSVDHLPLKLFESL  139 (141)
T ss_dssp             STTCEEEEEEEEEC-------CHHHHHHHTTCCCEEEEESCSCCCCTTHHHHHHCC-
T ss_pred             CCCccEEEEEeCCCCCCcchHHHHHHHHHHCCCCEEEEECCCccCCCeEEEEEEEEE
Confidence            999999999999999999999999999999999999999999874 67999999874

>4b4t_V 26S proteasome regulatory subunit RPN11; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=6.2e-35  Score=262.60  Aligned_cols=238  Identities=14%  Similarity=0.199  Sum_probs=188.9

Q ss_pred             CceEEEehhhHhHHHHHHhhccCCCceEEEEEeeeE-eCCEEEEEEEEeeccccCchhh-HhhHHHHHHHHHHHhhhCCC
Q psy4542           4 NVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTV-DKGVVEVTNCFCVPHKEYDEMV-EAELNYAQDMFEMNQKVNPS   81 (273)
Q Consensus         4 ~~~V~lhPlvll~I~dh~~r~~~~~~~v~G~LLG~~-~~~~veV~~sF~vp~~~~~~~~-~id~~~~~~m~~l~k~v~p~   81 (273)
                      ..+|.|+|+|+|+|++|+.+  ..+..|+|+|||.. +++.++|+|||++|+.++++.+ ++|.+|+.+|++++++++++
T Consensus        24 ~~~V~is~lallkm~~Ha~~--~~~~eV~GlLlG~~~~~~~v~Vt~~f~~P~~~~~~~v~~~d~~y~~~m~~~~~~v~~~  101 (306)
T 4b4t_V           24 KETVYISSIALLKMLKHGRA--GVPMEVMGLMLGEFVDDYTVNVVDVFAMPQSGTGVSVEAVDDVFQAKMMDMLKQTGRD  101 (306)
T ss_dssp             CCEEEECHHHHHHHHHHTCS--CSSSCCEEEEEEEEETTTEEEEEEEECCCCEESSSCEECCCHHHHHHHHHHHHHHSCC
T ss_pred             CCEEEEeHHHHHHHHHHhcC--CCCceEEEEEeeEEcCCeEEEEEEEEeCCcCCCCCchhcCCHHHHHHHHHHHHHhCCC
Confidence            57899999999999999954  35789999999985 5668999999999998876655 58999999999999999999


Q ss_pred             CCeEEeecCCC----CCCcccHHHHHHHHhhCCCcEEEEEcCCCC-CCCcceeEEEeeecCCC-----C-----------
Q psy4542          82 ELIVGWWATGD----EVTSQSSVIHDYYIRECKNPVHMTLDTNLK-GPNMGIKGYVHVPIGVP-----G-----------  140 (273)
Q Consensus        82 ~~iVGWY~~g~----~~~~~~~~i~~~~~~~~~~pi~L~~D~~~~-~~~l~ikay~~~~~~~~-----~-----------  140 (273)
                      +.+||||++++    +++..|+.+|..|++.++++|+|++||..+ +|+++++||++.+.+..     .           
T Consensus       102 ~~vVGWYhShP~~~~~~S~~Di~tq~~yQ~~~~~~V~lV~Dp~~t~~G~~~i~Afr~~~~~~~~~~~~~~~~~s~~~~~~  181 (306)
T 4b4t_V          102 QMVVGWYHSHPGFGCWLSSVDVNTQKSFEQLNSRAVAVVVDPIQSVKGKVVIDAFRLIDTGALINNLEPRQTTSNTGLLN  181 (306)
T ss_dssp             CCCSEEEEECCSSSCCCCHHHHHHHHHHHHHCSSCEEEEECSSSSSSCSSCEEEEECCHHHHHHCCCCCSCC--------
T ss_pred             cceeeEEecCCCCCCcCCHHHHHHHHHHHhcCCCcEEEEECCCcCCCCceeeeEEEecCccccccccCcccccccccccC
Confidence            99999999965    577889999999999999999999999876 69999999999864310     0           


Q ss_pred             --------CcccceeeeeceEEecCchHHHHHHHHHhhccCCCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCC
Q psy4542         141 --------GKSGIMFTQIPAEVICYNSEVTGLRLLHKSIKQGAVQPLSELTLVSEAADKLTVLIDHVLRYVDEVLANRIT  212 (273)
Q Consensus       141 --------~~~~~~f~~ip~~i~~~e~E~i~v~~l~~~~~~~~~~~~~~l~~~~~a~~~L~~~l~~i~~Yl~~V~~g~~~  212 (273)
                              ......|.++|+++..++.|+..++.+.+..+..+.+..........+.+.+.++++.+.+|.+.|.+|+..
T Consensus       182 ~~~~~~~~~~~~~~yy~l~i~~~ks~le~~~L~~L~~~~w~~~l~~~~~~~~~~~~~~~i~~m~~~~~~y~k~v~~e~~~  261 (306)
T 4b4t_V          182 KANIQALIHGLNRHYYSLNIDYHKTAKETKMLMNLHKEQWQSGLKMYDYEEKEESNLAATKSMVKIAEQYSKRIEEEKEL  261 (306)
T ss_dssp             --------------CEEECSCCCCCSSCTHHHHHHHHC----------CHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHH
T ss_pred             chhhhhhhccccceEEEeeeEEEeCcHHHHHHHHHHhcccccccccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHccccC
Confidence                    012346999999999999999999999987765443444556677788899999999999999999998866


Q ss_pred             CChHHHHHHHHHhhcCCCCCH-----HHHHHHHHhhhhhHHH
Q psy4542         213 PDNSIGRQLLDMVNSVPSMTQ-----EQFETMFNSNIKDLLM  249 (273)
Q Consensus       213 ~d~~ilr~l~~~~~~lp~~~~-----~~f~~~~~~~~~D~lm  249 (273)
                      .+.++.      ...+|+.++     +.++..++++..+.+-
T Consensus       262 ~~~~l~------~~~vgk~dp~~~l~~~~~~l~~~ni~~~l~  297 (306)
T 4b4t_V          262 TEEELK------TRYVGRQDPKKHLSETADETLENNIVSVLT  297 (306)
T ss_dssp             HHHHHH------HTCSCSSCCSSSSHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHH------hhccCccChHHHHHHHHHHHHHHHHHHHHH
Confidence            666654      466777775     6777777777665443

>2znr_A AMSH-like protease; metal binding protein, alternative splicing, hydrolase, metal-binding, metalloprotease, UBL conjugation pathway, zinc; 1.20A {Homo sapiens} PDB: 2znv_A

Probab=99.42  E-value=7.1e-13  Score=109.98  Aligned_cols=125  Identities=12%  Similarity=0.160  Sum_probs=97.4

Q ss_pred             CceEEEehhhHhHHHHHHhhccCCCceEEEEEeeeEeCCEEEEEEEEeeccccCchhhH-hhHHHHHHHHHHHhhhCCCC
Q psy4542           4 NVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVE-AELNYAQDMFEMNQKVNPSE   82 (273)
Q Consensus         4 ~~~V~lhPlvll~I~dh~~r~~~~~~~v~G~LLG~~~~~~veV~~sF~vp~~~~~~~~~-id~~~~~~m~~l~k~v~p~~   82 (273)
                      -..|.|...++.+|+.|+.++...+..++|.|+|...++..+|+++|++|...+.+.+. .+.+-   .++.  ....++
T Consensus         8 ~~~v~i~~~~l~k~l~hA~~~~~~~~EvcGlL~G~~~~~~~~V~~v~~~pq~~t~~~~~~~~~~e---~~~~--~~~~~l   82 (178)
T 2znr_A            8 LRCVVLPEDLCHKFLQLAESNTVRGIETCGILCGKLTHNEFTITHVIVPKQSAGPDYCDMENVEE---LFNV--QDQHDL   82 (178)
T ss_dssp             CCCEEEETTHHHHHHHHHHHHHTTTCCCEEEEEEEEETTEEEEEEEEECCEEEETTEEEECCHHH---HHHH--HHHHTC
T ss_pred             cEEEEECHHHHHHHHHHHHhCCCCCceEEEEEeeEecCCCeEEEEEEeCCcCCCCCeeccCCHHH---HHHH--HHhCCC
Confidence            35788999999999999988643456899999999988899999999999866544332 22211   1111  334689


Q ss_pred             CeEEeecCC----CCCCcccHHHHHHHHhhCCCcEEEEEcCCCCCCCcceeEEEeeecC
Q psy4542          83 LIVGWWATG----DEVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNMGIKGYVHVPIG  137 (273)
Q Consensus        83 ~iVGWY~~g----~~~~~~~~~i~~~~~~~~~~pi~L~~D~~~~~~~l~ikay~~~~~~  137 (273)
                      .+||||+|.    ..++..|+..|..|+...+..++++++|..+    .++||++.+.+
T Consensus        83 ~~vGwyHSHP~~~~~pS~~Dv~tq~~yq~~~~~~v~iIvsp~~~----~~~afrl~~~g  137 (178)
T 2znr_A           83 LTLGWIHTHPTQTAFLSSVDLHTHCSYQLMLPEAIAIVCSPKHK----DTGIFRLTNAG  137 (178)
T ss_dssp             EEEEEEEECSSSCSCCCHHHHHHHHHHHHHCTTCEEEEEEGGGT----EEEEEEECHHH
T ss_pred             EEEEEEeCCCCCCCCCCHHHHHHHHHHHhhcCCEEEEEEcCCCC----cceEEEEECCc
Confidence            999999995    4788899999999998888899999999863    37999998754

>3rzv_A STAM-binding protein; ubiquitin hydrolase, endosome-associated deubiquitinat enzyme, hydrolase; 1.67A {Homo sapiens} PDB: 3rzu_A

Probab=99.31  E-value=1.3e-11  Score=104.50  Aligned_cols=124  Identities=11%  Similarity=0.080  Sum_probs=95.1

Q ss_pred             ceEEEehhhHhHHHHHHhhccCCCceEEEEEeeeEeCCEEEEEEEEeeccccCchhhHh-h-HHHHHHHHHHHhhhCCCC
Q psy4542           5 VSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEA-E-LNYAQDMFEMNQKVNPSE   82 (273)
Q Consensus         5 ~~V~lhPlvll~I~dh~~r~~~~~~~v~G~LLG~~~~~~veV~~sF~vp~~~~~~~~~i-d-~~~~~~m~~l~k~v~p~~   82 (273)
                      ..|.|-.-++-+|+.|...+...+..++|.|+|...++..+|+++|..|...+++.+.. + .+.++-+.+      .++
T Consensus        42 r~v~Ipk~ll~kfL~~A~~~tp~~~EvcGlL~Gk~~~~~~~I~~v~~ppq~gt~~~v~~~~~~e~~~~~~~------~~l  115 (211)
T 3rzv_A           42 RHVVVPGRLCPQFLQLASANTARGVATCGILCGKLMRNEFTITHVLIPKQSAGSDYCNTENEEELFLIQDQ------QGL  115 (211)
T ss_dssp             CCEEEETTHHHHHHHHHHHHHHTTCCCEEEEEEEEETTEEEEEEEEECCEEECSSCEEECCHHHHHHHHHH------HTC
T ss_pred             EEEEECHHHHHHHHHHHHhCCCCCceEEEEEEeEcCCCCEEEEEEEeCCccCCCCceeccChHHHHHHHhh------CCC
Confidence            46788888999999998775333568999999999889999999998887665443321 1 111111111      499


Q ss_pred             CeEEeecCC----CCCCcccHHHHHHHHhhCCCcEEEEEcCCCCCCCcceeEEEeeecCC
Q psy4542          83 LIVGWWATG----DEVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNMGIKGYVHVPIGV  138 (273)
Q Consensus        83 ~iVGWY~~g----~~~~~~~~~i~~~~~~~~~~pi~L~~D~~~~~~~l~ikay~~~~~~~  138 (273)
                      .+||||+|.    .+++..|+..|..|+...+..|++++||...    ++.||++.+.|+
T Consensus       116 ~~vGWyHSHP~~~~~pS~~Dl~tq~~~q~~~~~~I~IVvsP~~~----~lgaFrLtp~G~  171 (211)
T 3rzv_A          116 ITLGWIHTHPTQTAFLSSVDLHTHCSYQMMLPESVAIVCSPKFQ----ETGFFKLTDHGL  171 (211)
T ss_dssp             EEEEEEEECTTSCSCCCHHHHHHHHHHHHHCTTCEEEEEETTTT----EEEEEEECHHHH
T ss_pred             EEEEEEeCCCCCCCCCCHHHHHHHHHHHhcCCCeEEEEEcCCCC----eeeEEEeccchh
Confidence            999999995    4788999999999998888889999999742    799999998654

>2kks_A Uncharacterized protein; NESG, structural genomics, PSI-2, protein structure initiati northeast structural genomics consortium; NMR {Desulfitobacterium hafniense}

Probab=98.97  E-value=8.2e-09  Score=82.68  Aligned_cols=131  Identities=8%  Similarity=-0.018  Sum_probs=93.6

Q ss_pred             EEEehhhHhHHHHHHhhccCCCceEEEEEeeeEeCCEEEEEEEEeeccccC-chhhHhhHHHHHHHHHHHhhhCCCCCeE
Q psy4542           7 IKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEY-DEMVEAELNYAQDMFEMNQKVNPSELIV   85 (273)
Q Consensus         7 V~lhPlvll~I~dh~~r~~~~~~~v~G~LLG~~~~~~veV~~sF~vp~~~~-~~~~~id~~~~~~m~~l~k~v~p~~~iV   85 (273)
                      +.|...++..|..|..+.  .+..++|.|+|..+++...|+..|++|.... .+.+.+|.+.+.+..+..++  .++.+|
T Consensus         2 l~i~~~~l~~i~~ha~~~--~p~E~cGlL~G~~~~~~~~v~~~~p~~n~~~~~~~f~~dp~~~~~~~~~~~~--~g~~iv   77 (146)
T 2kks_A            2 ITLTKKQMEEMLAHARQA--LPNEACGLLGGRRDGDDRWVERVYPLNNLDQSPEHFSMDPREQLTAVKDMRK--NGWVML   77 (146)
T ss_dssp             EEEEHHHHHHHHHHHHHH--TTSCEEEEEEEEEETTEEEEEEEECCCCCSCCSSSCCCCHHHHHHHHHHHHH--HTCEEE
T ss_pred             EEECHHHHHHHHHHHHhc--CCcceEEEEEEEEcCCCcEEEEEEECCCcCCCCceEEECHHHHHHHHHHHHH--CCCEEE
Confidence            678889999999998775  5789999999999888899999999995443 23566776666555544443  358999


Q ss_pred             EeecCCC----CCCcccHHHHHHHHhhCCCcEEEEEcCCCCCCCcceeEEEeeecCCCCCcccceeeeeceEEec
Q psy4542          86 GWWATGD----EVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNMGIKGYVHVPIGVPGGKSGIMFTQIPAEVIC  156 (273)
Q Consensus        86 GWY~~g~----~~~~~~~~i~~~~~~~~~~pi~L~~D~~~~~~~l~ikay~~~~~~~~~~~~~~~f~~ip~~i~~  156 (273)
                      |||+|.+    .++..|...    +. .+..+++++.+.. ++...+++|+...         ..|.++|+.+..
T Consensus        78 G~~HSHP~~~~~PS~~D~~~----~~-~~~~~~lIvs~~~-~~~~~~~af~~~~---------~~~~e~~i~~~~  137 (146)
T 2kks_A           78 GNFHSHPATPARPSAEDKRL----AF-DPSLSYLIISLAE-PQKPVCKSFLIKK---------DGVDEEEIILKE  137 (146)
T ss_dssp             EEEEEESSSCSSCCHHHHTT----CC-SSSCEEEEEECSC-SSSCEEEEEEECS---------SCEEEECEEEES
T ss_pred             EEEeCCCcCCCCCCHHHHHh----hh-cCCCeEEEEEccC-CCceEEEEEEEeC---------CeEEEEEEEEeh
Confidence            9999954    445544331    11 1345788887653 3456899999842         258999988754

>2kcq_A MOV34/MPN/PAD-1 family; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Salinibacter ruber dsm 13855}

Probab=98.73  E-value=1.6e-08  Score=81.64  Aligned_cols=132  Identities=15%  Similarity=0.046  Sum_probs=89.4

Q ss_pred             EEehhhHhHHHHHHhhccCCCceEEEEEeeeEe-CCEEEEEEEEeeccc--cC-chhhHhhHHHHHHHHHHHhhhCCCCC
Q psy4542           8 KVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVD-KGVVEVTNCFCVPHK--EY-DEMVEAELNYAQDMFEMNQKVNPSEL   83 (273)
Q Consensus         8 ~lhPlvll~I~dh~~r~~~~~~~v~G~LLG~~~-~~~veV~~sF~vp~~--~~-~~~~~id~~~~~~m~~l~k~v~p~~~   83 (273)
                      .|.+.++..|..|..+.  .+..++|.|+|..+ ++.+.|+..|++|..  .+ ...+.+|.+.+.+..+..++.  ++.
T Consensus         2 ~i~~~~l~~i~~ha~~~--~p~E~cGlL~G~~~~~~~~~v~~~~p~~n~~~~~~~~~f~~dp~~~~~~~~~~~~~--g~~   77 (153)
T 2kcq_A            2 KTTPDILDQIRVHGADA--YPEEGCGFLLGTVTDDGDNRVAALHRATNRRSEQRTRRYELTADDYRAADAAAQEQ--GLD   77 (153)
T ss_dssp             BCCHHHHHHHHHHHHHH--TTSCCCEEEEEEECTTSCEEEEEEEESSCCCCCCCSCCSSCCCCSHHHHHHHHHHH--TCE
T ss_pred             EeCHHHHHHHHHHHHhc--CCcceEEEEEEeeccCCCeEEEEEEECCCCCCCCCCcEEEECHHHHHHHHHHHHHC--CCe
Confidence            46678899999999875  57899999999987 788899999999875  32 334556644444444443332  689


Q ss_pred             eEEeecCCC----CCCcccHHHHHHHHhhCCCcEEEEEcCCCCCCC-cceeEEEeeecCCCCCcccceeeeeceEEecC
Q psy4542          84 IVGWWATGD----EVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPN-MGIKGYVHVPIGVPGGKSGIMFTQIPAEVICY  157 (273)
Q Consensus        84 iVGWY~~g~----~~~~~~~~i~~~~~~~~~~pi~L~~D~~~~~~~-l~ikay~~~~~~~~~~~~~~~f~~ip~~i~~~  157 (273)
                      +||||+|.+    .++..|..  .  + ..+..+++++.+..  ++ ..+++|+....       ...|.+.++.+...
T Consensus        78 ivG~yHSHP~~~~~PS~~D~~--~--~-~~~~~~~lIvs~~~--~~~~~~~af~~~~~-------~g~~~e~~i~v~~~  142 (153)
T 2kcq_A           78 VVGVYHSHPDHPARPSATDLE--E--A-TFPGFTYVIVSVRD--GAPEALTAWALAPD-------RSEFHREDIVRPDP  142 (153)
T ss_dssp             EEEEEEECSSSSSSCCHHHHH--T--C-CCTTSEEEEEEEET--TEEEEEEEEEECTT-------CSCEEEECCBCCCS
T ss_pred             EEEEEeCCCCCCCCCCHHHHH--h--h-hcCCCeEEEEECCC--CCccEEEEEEEeCC-------CCcEEEEEEEEecC
Confidence            999999965    45555532  1  1 12456788886532  33 46999998421       12588888887543

>1oi0_A AF2198, hypothetical protein AF2198; proteasome, deubiquitination, archaea, hydrolase; 1.5A {Archaeoglobus fulgidus} SCOP: c.97.3.1 PDB: 1r5x_A

Probab=98.00  E-value=3.9e-05  Score=59.35  Aligned_cols=105  Identities=15%  Similarity=0.141  Sum_probs=66.9

Q ss_pred             eEEEehhhHhHHHHHHhhccCCCceEEEEEeeeEeCCEEEEEEEEeeccccCchhhHhhHHHHHHHHHHHhhhCCCCCeE
Q psy4542           6 SIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAELNYAQDMFEMNQKVNPSELIV   85 (273)
Q Consensus         6 ~V~lhPlvll~I~dh~~r~~~~~~~v~G~LLG~~~~~~veV~~sF~vp~~~~~~~~~id~~~~~~m~~l~k~v~p~~~iV   85 (273)
                      .+.|...++..|.+|..+.  .+..++|.|+|...    .|+..|++| ...+.   ....|...|..      .++.+|
T Consensus         3 ~v~i~~~~l~~i~~ha~~~--~P~E~cGlL~g~~~----~v~~~~~~p-~~~~~---~~~~f~~~~~~------~~~~iv   66 (124)
T 1oi0_A            3 SMKISRGLLKTILEAAKSA--HPDEFIALLSGSKD----VMDELIFLP-FVSGS---VSAVIHLDMLP------IGMKVF   66 (124)
T ss_dssp             SCEECHHHHHHHHHHHHHH--TTSCCEEEEEESTT----EECEEEECC-CCC----------------------CCCEEE
T ss_pred             EEEEcHHHHHHHHHHHHhc--CCCeeEEEEecccC----EEEEEEECC-CCCCC---cCceeeeeecc------CCCEEE
Confidence            4678889999999999875  57899999999863    788999999 54322   11122222221      579999


Q ss_pred             EeecCCC----CCCcccHHHHHHHHhhCCCcEEEEEcCCCCCCCcceeEEEe
Q psy4542          86 GWWATGD----EVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNMGIKGYVH  133 (273)
Q Consensus        86 GWY~~g~----~~~~~~~~i~~~~~~~~~~pi~L~~D~~~~~~~l~ikay~~  133 (273)
                      |||++.+    .++..|.....    . ...+++++.+..  +.-.+++|..
T Consensus        67 G~~HSHP~~~~~PS~~D~~~~~----~-~~~~~lIvs~~~--~~~~~~~f~~  111 (124)
T 1oi0_A           67 GTVHSHPSPSCRPSEEDLSLFT----R-FGKYHIIVCYPY--DENSWKCYNR  111 (124)
T ss_dssp             EEEEEESSSCCSCCHHHHHHHH----H-SCSEEEEEETTC--CTTCEEEEET
T ss_pred             EEEEECcCCCCccCHHHHHhhh----c-CCCEEEEEEccC--CCceEEEEec
Confidence            9999955    45555543221    2 345777776532  2346788775

>2p8r_A PRP8, PRE-mRNA-splicing factor PRP8; alpha-beta, translation; 2.10A {Caenorhabditis elegans} PDB: 2p87_A

Probab=96.68  E-value=0.0032  Score=54.61  Aligned_cols=110  Identities=17%  Similarity=0.254  Sum_probs=74.8

Q ss_pred             HHHHHHhhccCCCceEEEEEeeeEe---CCEEEEEEEEeeccccCchhhHh-----hHHHHHHHHHHHhhhCCCCCeEEe
Q psy4542          16 QIVDAFERRNLDSHRVIGTLLGTVD---KGVVEVTNCFCVPHKEYDEMVEA-----ELNYAQDMFEMNQKVNPSELIVGW   87 (273)
Q Consensus        16 ~I~dh~~r~~~~~~~v~G~LLG~~~---~~~veV~~sF~vp~~~~~~~~~i-----d~~~~~~m~~l~k~v~p~~~iVGW   87 (273)
                      +|++.+.....-+..++|.|.|...   .+.-||+..--+|...+.+.+..     ..+|           .-++.++||
T Consensus        46 nllkkFi~IADlrTq~~G~LyG~s~~d~~~vkeI~~ivipPQ~gt~~sv~~~~~~p~~~~-----------l~dLe~LGW  114 (273)
T 2p8r_A           46 NILKKFITISDLRTQIAGFMYGVSPPDNPQVKEIRCIVLVPQTGSHQQVNLPTQLPDHEL-----------LRDFEPLGW  114 (273)
T ss_dssp             HHHHHHHHTSCSSSCCEEEEEEECCTTCTTEEEEEEEECCSBEECSSCEECCSSCCCCTT-----------TTTSEEEEE
T ss_pred             HHHHHHHHHhhccceEEEEEeccCCCCCCCeEEEEEEEECCccCCCceEECCCcCcchhh-----------hccccccce
Confidence            5556665554345689999999962   35677876656665544332211     1122           279999999


Q ss_pred             ecCC----CCCCcccHHHHHHHHhh---C--CCcEEEEEcCCCCCCCcceeEEEeeecCC
Q psy4542          88 WATG----DEVTSQSSVIHDYYIRE---C--KNPVHMTLDTNLKGPNMGIKGYVHVPIGV  138 (273)
Q Consensus        88 Y~~g----~~~~~~~~~i~~~~~~~---~--~~pi~L~~D~~~~~~~l~ikay~~~~~~~  138 (273)
                      =+|.    +.+++.|+..|..|+..   -  +.+|.+++-+.  .|..++.||++.+.|.
T Consensus       115 IHTqp~e~~~LSs~Dl~tH~~~~~~~~~~~~~e~I~Ivcsft--pgs~sl~af~LT~~G~  172 (273)
T 2p8r_A          115 MHTQPNELPQLSPQDVTTHAKLLTDNISWDGEKTVMITCSFT--PGSVSLTAYKLTPSGY  172 (273)
T ss_dssp             EEEESSCCSSCCHHHHHHHHHHHHHCTTCCTTTCEEEEEEEE--TTEEEEEEEEECHHHH
T ss_pred             EeeCCCCCCCcCHHHHHHHHHHHhcccccCCCceEEEEEecC--CCCceeEEEEcChHHh
Confidence            9994    46889999999988864   2  36788877543  3667899999987653

>2og4_A PRE-mRNA-splicing factor 8; isopeptidase, JAB1/MPN domain, protein-PR interaction, PRP8P, pseudoenzyme, spliceosome activation; 2.00A {Saccharomyces cerevisiae}

Probab=96.28  E-value=0.0056  Score=52.57  Aligned_cols=111  Identities=13%  Similarity=0.178  Sum_probs=74.3

Q ss_pred             HHHHHHhhccCCCceEEEEEeeeEe---CCEEEEEEEEeeccccCchhhHh-----hHHHHHHHHHHHhhhCCCCCeEEe
Q psy4542          16 QIVDAFERRNLDSHRVIGTLLGTVD---KGVVEVTNCFCVPHKEYDEMVEA-----ELNYAQDMFEMNQKVNPSELIVGW   87 (273)
Q Consensus        16 ~I~dh~~r~~~~~~~v~G~LLG~~~---~~~veV~~sF~vp~~~~~~~~~i-----d~~~~~~m~~l~k~v~p~~~iVGW   87 (273)
                      +|++.+.....-+..++|.|.|...   .+.-||+.---+|...+.+.+..     ..+|..         --++.++||
T Consensus        45 nLlkkFi~IAD~~Tq~cG~LyG~~~~d~~~v~eI~~ivippQ~gt~~s~~~~~~~p~~~~~~---------l~dLe~LGW  115 (254)
T 2og4_A           45 NLLKKFIEISDVKIQVAAFIYGMSAKDHPKVKEIKTVVLVPQLGHVGSVQISNIPDIGDLPD---------TEGLELLGW  115 (254)
T ss_dssp             HHHHHHHHTSCSSSCCEEEEEEEECSSCTTEEEEEEEECCCEEEETTEEEECCCCCCTTSTT---------CTTCEEEEE
T ss_pred             HHHHHHHHHhhccceEEEEEEccCCCCCCCeEEEEEEEECCccCCCceEECCCcCccccchh---------hcCCEecce
Confidence            4555555553335689999999973   34667865555555443332211     011111         368999999


Q ss_pred             ecCC----CCCCcccHHHHHHHHh-hCCCcEEEEEcCCCCCCCcceeEEEeeecC
Q psy4542          88 WATG----DEVTSQSSVIHDYYIR-ECKNPVHMTLDTNLKGPNMGIKGYVHVPIG  137 (273)
Q Consensus        88 Y~~g----~~~~~~~~~i~~~~~~-~~~~pi~L~~D~~~~~~~l~ikay~~~~~~  137 (273)
                      =+|.    +.+++.|+..|..|+. ..+.+|.+++-+.  .|..++.||++.+.|
T Consensus       116 IHTqptq~~fLSs~Dl~tH~~~~~~~~~eaIaIvcsft--pgs~sl~af~LT~~G  168 (254)
T 2og4_A          116 IHTQTEELKFMAASEVATHSKLFADKKRDCIDISIFST--PGSVSLSAYNLTDEG  168 (254)
T ss_dssp             EEEESSCCSSCCHHHHHHHHHHHTTTCTTCEEEEEEEE--TTEEEEEEEEECHHH
T ss_pred             EeeCCCCCcccCHHHHHHHHHHHHhcCCCeEEEEEecC--CCCceeEEEEcChhh
Confidence            9994    4788999999999887 4467888888554  366789999998765

>3sbg_A PRE-mRNA-splicing factor 8; PRP8P, rnaseh domain, JAB1/MPN domain; 3.28A {Saccharomyces cerevisiae}

Probab=94.96  E-value=0.016  Score=54.25  Aligned_cols=102  Identities=14%  Similarity=0.173  Sum_probs=66.6

Q ss_pred             CceEEEEEeeeEe---CCEEEEEEEEeeccccCchhhHhhHHHHHHHHHHHh--hhCCCCCeEEeecCC----CCCCccc
Q psy4542          28 SHRVIGTLLGTVD---KGVVEVTNCFCVPHKEYDEMVEAELNYAQDMFEMNQ--KVNPSELIVGWWATG----DEVTSQS   98 (273)
Q Consensus        28 ~~~v~G~LLG~~~---~~~veV~~sF~vp~~~~~~~~~id~~~~~~m~~l~k--~v~p~~~iVGWY~~g----~~~~~~~   98 (273)
                      ..+++|.|.|...   .+..||+..--+|.-.+.+.+... +     +..+.  ..-.++.++||=+|.    +.+++.|
T Consensus       368 rTQicGyLyG~sp~dn~nVkEI~cIVipPQ~Gt~~sv~lp-~-----lp~he~~~~l~dLe~LGWIHTqp~et~fLSs~D  441 (565)
T 3sbg_A          368 KIQVAAFIYGMSAKDHPKVKEIKTVVLVPQLGHVGSVQIS-N-----IPDIGDLPDTEGLELLGWIHTQTEELKFMAASE  441 (565)
T ss_dssp             SSCCEEEEEEEEETTEEEEEEEEEEECCCEEECSSCEEEC-C-----CCCCTTSTTCTTCEEEEEEEEESSCCSSCCHHH
T ss_pred             cceeEEEEecCCCCCCCCeEEEEEEEECCccCCCceEECC-C-----CCccccccccccCEecceeeecCCcccccCHHH
Confidence            4679999999974   245677655555655544433221 0     00000  013689999999984    4688999


Q ss_pred             HHHHHHHHhhC-CCcEEEEEcCCCCCCCcceeEEEeeecC
Q psy4542          99 SVIHDYYIREC-KNPVHMTLDTNLKGPNMGIKGYVHVPIG  137 (273)
Q Consensus        99 ~~i~~~~~~~~-~~pi~L~~D~~~~~~~l~ikay~~~~~~  137 (273)
                      +..|..+...+ ++.|.+++.  ++.|..++.||.+.+.|
T Consensus       442 l~THakl~~~n~~~~I~itvs--ftPGS~SLsAy~LT~eG  479 (565)
T 3sbg_A          442 VATHSKLFADKKRDCIDISIF--STPGSVSLSAYNLTDEG  479 (565)
T ss_dssp             HHHHHHHHSSSCTTCEEEEEE--EETTEEEEEEEEECHHH
T ss_pred             HHHHHHHHHhCCCCeEEEEEE--ecCCceEEEEEecCHhH
Confidence            99998876554 245655553  34588999999999876

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	273
d1oi0a_	121	Hypothetical protein AF2198 {Archaeon Archaeoglobu	97.57

>d1oi0a_ c.97.3.1 (A:) Hypothetical protein AF2198 {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: Cytidine deaminase-like
superfamily: JAB1/MPN domain
family: JAB1/MPN domain
domain: Hypothetical protein AF2198
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=97.57  E-value=0.00014  Score=54.14  Aligned_cols=107  Identities=14%  Similarity=0.122  Sum_probs=66.0

Q ss_pred             CceEEEehhhHhHHHHHHhhccCCCceEEEEEeeeEeCCEEEEEEEEeeccccCchhhHhhHHHHHHHHHHHhhhCCCCC
Q psy4542           4 NVSIKVHPVVLFQIVDAFERRNLDSHRVIGTLLGTVDKGVVEVTNCFCVPHKEYDEMVEAELNYAQDMFEMNQKVNPSEL   83 (273)
Q Consensus         4 ~~~V~lhPlvll~I~dh~~r~~~~~~~v~G~LLG~~~~~~veV~~sF~vp~~~~~~~~~id~~~~~~m~~l~k~v~p~~~   83 (273)
                      +.+++|..-++-.|.+|..+.  .+..++|.|+|...    .|+..+.+|....+. ...+   .   .++.   -.++.
T Consensus         1 g~~l~I~~~~l~~i~~hA~~~--~P~E~cGlL~G~~~----~i~~~~~~~n~~~~~-~~~~---~---~~~~---~~~~~   64 (121)
T d1oi0a_           1 GSSMKISRGLLKTILEAAKSA--HPDEFIALLSGSKD----VMDELIFLPFVSGSV-SAVI---H---LDML---PIGMK   64 (121)
T ss_dssp             CCSCEECHHHHHHHHHHHHHH--TTSCCEEEEEESTT----EECEEEECCCCC-----------------------CCCE
T ss_pred             CCeEEECHHHHHHHHHHHHhc--CCceeEEEEEecCC----cEEEEEEcCCCCCCc-cccc---c---cchh---hcCCe
Confidence            356788888999999999886  57899999999642    456777777544221 1111   1   1111   24789


Q ss_pred             eEEeecCCC----CCCcccHHHHHHHHhhCCCcEEEEEcCCCCCCCcceeEEEe
Q psy4542          84 IVGWWATGD----EVTSQSSVIHDYYIRECKNPVHMTLDTNLKGPNMGIKGYVH  133 (273)
Q Consensus        84 iVGWY~~g~----~~~~~~~~i~~~~~~~~~~pi~L~~D~~~~~~~l~ikay~~  133 (273)
                      ++|||++.+    .+++.|+.....     ..-+++++.+...  .-.++||..
T Consensus        65 ivgi~HSHP~~~a~PS~~D~~~~~~-----~g~~~~Ivs~p~~--~~~~~~~~~  111 (121)
T d1oi0a_          65 VFGTVHSHPSPSCRPSEEDLSLFTR-----FGKYHIIVCYPYD--ENSWKCYNR  111 (121)
T ss_dssp             EEEEEEEESSSCCSCCHHHHHHHHH-----SCSEEEEEETTCC--TTCEEEEET
T ss_pred             EEEEEEecCCCCCCcCHHHHHhhhc-----cCCEEEEEeCCCC--CCCEEEEeC
Confidence            999999955    455555433221     2346777765432  336889974