Citrus Sinensis ID: 031148

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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-----
Protein Sequence
MGELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQVSAVFVCIELSNYGVSVSFLAIKRFWL
Secondary Structure (PSIPRED)
cccEEEEEcHHHHHHHHHcHHccccccccEEEEEEEcccccccEEEEEcEEcccccccccHHHHHHHHHHHHHHHHcccEEEEEEEcccccccccccHHHHHHHHHHHHHccccEEEEEEccccccccccccccccEEEcccEEEEEcccccccccEEEEEcccc
Secondary Structure Prediction (SSPRO)
cccEEEEEcHHHHHHHHHHHHccccccEEEEEEEEcccccccEEEEEEccHHHHcccccHHHHHHHHHHHHHHHHHcccEEEEEEEcccccccccccHHHHHHHHHHHHHccccEEEEEEcccccccccccccccEEEEEEEEEccccccccHHHHHHHHHHccc
Coil and Loop (DISEMBL)
MGELKYELSQNAYIKLVLHARKHKTAAVNGVLlgrvspqndavVEIADsvplfhshlgllpnlEISLIMIEEHYsaqglgivgyfhanerfddlelDSIAKNIGNHICRYFPQCAVLLLDnkklealpkgkdrspvmQVSAVFVCIELSNYGVSVSFLAIKRFWL
Flexible Loop (DISEMBL)
mgelkyelSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEalpkgkdrspvMQVSAVFVCIElsnygvsvsflaikRFWL
Low Complexity Region (SEG)
MGELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQVSAVFVCIELSNYGVSVSFLAIKRFWL
Disordered region (IsUnstruct)
*******LSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALP******PVMQVSAVFVCIELSNYGVSVSFLAIKRFW*
Disordered Region (DISOPRED)
****KYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSP****VVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLE************QVSAVFVCIELSNYGVSVSFLAIKRFWL
Disordered Region (DISEMBL)
MGELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQVSAVFVCIELSNYGVSVSFLAIKRFWL
Disordered Region (DISPRO)
*GELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQVSAVFVCIELSNYGVSVSFLAIKRFWL
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQVSAVFVCIELSNYGVSVSFLAIKRFWL
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	165	2.2.26 [Sep-21-2011]
Q9FG71	208	ER membrane protein compl	yes	no	0.836	0.663	0.797	3e-60
Q5U1W7	206	ER membrane protein compl	yes	no	0.763	0.611	0.403	7e-20
Q9DB76	206	ER membrane protein compl	yes	no	0.763	0.611	0.403	1e-19
Q9Y3B6	208	ER membrane protein compl	yes	no	0.763	0.605	0.387	1e-18
Q9W1Y1	203	ER membrane protein compl	yes	no	0.703	0.571	0.389	3e-16
O70378	207	ER membrane protein compl	no	no	0.715	0.570	0.336	5e-14
Q5FVL2	207	ER membrane protein compl	no	no	0.715	0.570	0.336	6e-14
O43402	210	ER membrane protein compl	no	no	0.715	0.561	0.320	2e-13
Q32KL5	210	ER membrane protein compl	no	no	0.715	0.561	0.312	6e-13
Q55FM0	192	ER membrane protein compl	yes	no	0.654	0.562	0.327	1e-10

>sp|Q9FG71|EMC89_ARATH ER membrane protein complex subunit 8/9 homolog OS=Arabidopsis thaliana GN=EMB2731 PE=2 SV=1

 Score =  230 bits (586), Expect = 3e-60,   Method: Compositional matrix adjust.
 Identities = 110/138 (79%), Positives = 126/138 (91%)

Query: 2   GELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP 61
           GELKYE+SQNAYIKLVLH+ +HKTAAVNGVL+GR+SP++D VVEI+DSVPLFHS+L LLP
Sbjct: 7   GELKYEISQNAYIKLVLHSLRHKTAAVNGVLVGRISPKDDGVVEISDSVPLFHSNLALLP 66

Query: 62  NLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDN 121
            LEISLIMIEEHY AQGL IVGYFHANERFDD+EL  +AKNIG+HI RYFPQ  +LLL+N
Sbjct: 67  PLEISLIMIEEHYVAQGLSIVGYFHANERFDDVELCGVAKNIGDHISRYFPQAPILLLNN 126

Query: 122 KKLEALPKGKDRSPVMQV 139
           KKLEAL KGK+RSPVMQ+
Sbjct: 127 KKLEALSKGKERSPVMQL 144

Arabidopsis thaliana (taxid: 3702)

>sp|Q5U1W7|EMC9_RAT ER membrane protein complex subunit 9 OS=Rattus norvegicus GN=Emc9 PE=2 SV=1

 Score = 96.3 bits (238), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 52/129 (40%), Positives = 75/129 (58%), Gaps = 3/129 (2%)

Query: 1   MGELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLL 60
           MGE+  E+S  AY K+ LHA ++  AAVNG+LL   +   + +  + D VPLFHSHL L 
Sbjct: 1   MGEV--EISARAYGKMCLHASRYPHAAVNGLLLAPATRSGECLC-LTDCVPLFHSHLALS 57

Query: 61  PNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLD 120
             LE++L  ++   +  GL + GY+HAN   DD     +A  I   I  +FP   +++LD
Sbjct: 58  VMLEVALNQVDVWATQAGLVVAGYYHANAVLDDQSPGPLALKIAGRIAEFFPNAVLIMLD 117

Query: 121 NKKLEALPK 129
           NKKL   P+
Sbjct: 118 NKKLVTWPR 126

Rattus norvegicus (taxid: 10116)

>sp|Q9DB76|EMC9_MOUSE ER membrane protein complex subunit 9 OS=Mus musculus GN=Emc9 PE=2 SV=1

 Score = 95.5 bits (236), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 52/129 (40%), Positives = 76/129 (58%), Gaps = 3/129 (2%)

Query: 1   MGELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLL 60
           MGE+  E+S  AY K+ LHA ++  AAVNG+LL   +   + +  + D VPLFHSHL L 
Sbjct: 1   MGEV--EISARAYGKMCLHASRYPHAAVNGLLLAPATGSGECLC-LTDCVPLFHSHLALS 57

Query: 61  PNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLD 120
             LE++L  ++   +  GL + GY+HAN   DD     +A  I   I  +FP+  +++LD
Sbjct: 58  VMLEVALNQVDVWGAQAGLVVAGYYHANAVLDDQSPGPLALKIAGRIAEFFPRAVLIMLD 117

Query: 121 NKKLEALPK 129
           NKKL   P+
Sbjct: 118 NKKLVTRPR 126

Mus musculus (taxid: 10090)

>sp|Q9Y3B6|EMC9_HUMAN ER membrane protein complex subunit 9 OS=Homo sapiens GN=EMC9 PE=1 SV=3

 Score = 92.4 bits (228), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 50/129 (38%), Positives = 77/129 (59%), Gaps = 3/129 (2%)

Query: 1   MGELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLL 60
           MGE+  E+S  AY+K+ LHA ++  AAVNG+ L   +P++   + + D VPLFHSHL L 
Sbjct: 1   MGEV--EISALAYVKMCLHAARYPHAAVNGLFLAP-APRSGECLCLTDCVPLFHSHLALS 57

Query: 61  PNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLD 120
             LE++L  ++   +  GL + GY+HAN   +D     +A  I   I  +FP   +++LD
Sbjct: 58  VMLEVALNQVDVWGAQAGLVVAGYYHANAAVNDQSPGPLALKIAGRIAEFFPDAVLIMLD 117

Query: 121 NKKLEALPK 129
           N+KL   P+
Sbjct: 118 NQKLVPQPR 126

Homo sapiens (taxid: 9606)

>sp|Q9W1Y1|EMC89_DROME ER membrane protein complex subunit 8/9 homolog OS=Drosophila melanogaster GN=CG3501 PE=1 SV=1

 Score = 84.3 bits (207), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 46/118 (38%), Positives = 71/118 (60%), Gaps = 2/118 (1%)

Query: 6   YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEI 65
           Y++S+ AY KL+ HA K+   AVNG+LL   + +  + VEI D++PLFH  L + P  E+
Sbjct: 4   YKVSERAYAKLIFHAAKYPHQAVNGLLLAEKTSKG-SQVEIVDAIPLFHQCLYVTPMAEV 62

Query: 66  SLIMIEEHYSAQGLGIVGYFHANERFDDLELDSI-AKNIGNHICRYFPQCAVLLLDNK 122
           +L++I+ H   +GL I GY+ A E F D ++D   A  I + I   F     +++DNK
Sbjct: 63  ALMLIDAHAEREGLVIAGYYAAPENFYDNQVDKTPAAKIADKIQENFKNACFVVVDNK 120

Drosophila melanogaster (taxid: 7227)

>sp|O70378|EMC8_MOUSE ER membrane protein complex subunit 8 OS=Mus musculus GN=Emc8 PE=1 SV=1

 Score = 77.0 bits (188), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 42/125 (33%), Positives = 66/125 (52%), Gaps = 7/125 (5%)

Query: 7   ELSQNAYIKLVLHARKHKTAAVNGVLLG-RVSPQND------AVVEIADSVPLFHSHLGL 59
           +L+  AY K+VLH  K+   AVNG+L+  R  P+ +      +     D +PLFH  L L
Sbjct: 5   KLTTQAYCKMVLHGAKYPHCAVNGLLVAERQRPRKEHPPGAGSHTLFVDCIPLFHGTLAL 64

Query: 60  LPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLL 119
            P LE++L +I+         I GY+ ANER  D   + +A+ + + I   F   A++++
Sbjct: 65  TPMLEVALTLIDSWCKDNSYVIAGYYQANERVKDASPNQVAEKVASRIAEGFGDAALIMV 124

Query: 120 DNKKL 124
           DN K 
Sbjct: 125 DNAKF 129

Mus musculus (taxid: 10090)

>sp|Q5FVL2|EMC8_RAT ER membrane protein complex subunit 8 OS=Rattus norvegicus GN=Emc8 PE=2 SV=1

 Score = 76.6 bits (187), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 42/125 (33%), Positives = 65/125 (52%), Gaps = 7/125 (5%)

Query: 7   ELSQNAYIKLVLHARKHKTAAVNGVLLG-RVSPQNDAV------VEIADSVPLFHSHLGL 59
           +L+  AY K+VLH  K+   AVNG+L+  R  P+ +            D +PLFH  L L
Sbjct: 5   KLTTQAYCKMVLHGAKYPHCAVNGLLVAERQRPRKEHPPGAGNHTLFVDCIPLFHGTLAL 64

Query: 60  LPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLL 119
            P LE++L +I+         I GY+ ANER  D   + +A+ + + I   F   A++++
Sbjct: 65  TPMLEVALTLIDSWCKDNSYVIAGYYQANERVKDASPNQVAEKVASRIAEGFSDAALIMV 124

Query: 120 DNKKL 124
           DN K 
Sbjct: 125 DNAKF 129

Rattus norvegicus (taxid: 10116)

>sp|O43402|EMC8_HUMAN ER membrane protein complex subunit 8 OS=Homo sapiens GN=EMC8 PE=1 SV=1

 Score = 74.7 bits (182), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 41/128 (32%), Positives = 66/128 (51%), Gaps = 10/128 (7%)

Query: 7   ELSQNAYIKLVLHARKHKTAAVNGVLLG-RVSPQNDAV---------VEIADSVPLFHSH 56
           +L+  AY K+VLH  K+   AVNG+L+  +  P+ + +             D +PLFH  
Sbjct: 5   KLTTQAYCKMVLHGAKYPHCAVNGLLVAEKQKPRKEHLPLGGPGAHHTLFVDCIPLFHGT 64

Query: 57  LGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAV 116
           L L P LE++L +I+         I GY+ ANER  D   + +A+ + + I   F   A+
Sbjct: 65  LALAPMLEVALTLIDSWCKDHSYVIAGYYQANERVKDASPNQVAEKVASRIAEGFSDTAL 124

Query: 117 LLLDNKKL 124
           +++DN K 
Sbjct: 125 IMVDNTKF 132

Homo sapiens (taxid: 9606)

>sp|Q32KL5|EMC8_BOVIN ER membrane protein complex subunit 8 OS=Bos taurus GN=EMC8 PE=2 SV=1

 Score = 73.2 bits (178), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 40/128 (31%), Positives = 66/128 (51%), Gaps = 10/128 (7%)

Query: 7   ELSQNAYIKLVLHARKHKTAAVNGVLLG-RVSPQNDAV---------VEIADSVPLFHSH 56
           +L+  AY K+VLH  K+   AV+G+L+  +  P+ + +             D +PLFH  
Sbjct: 5   KLTTQAYCKMVLHGAKYPHCAVDGLLVAEKQKPRKEHLPLGGPGAHHTLFVDCIPLFHGT 64

Query: 57  LGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAV 116
           L L P LE++L +I+         I GY+ ANER  D   + +A+ + + I   F   A+
Sbjct: 65  LALAPMLEVALTLIDSWCKDNSYVIAGYYQANERVKDASPNQVAEKVASRIAEGFSDTAL 124

Query: 117 LLLDNKKL 124
           +++DN K 
Sbjct: 125 IMVDNTKF 132

Bos taurus (taxid: 9913)

>sp|Q55FM0|EMC89_DICDI ER membrane protein complex subunit 8/9 homolog OS=Dictyostelium discoideum GN=DDB_G0268048 PE=3 SV=1

 Score = 65.9 bits (159), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 37/113 (32%), Positives = 65/113 (57%), Gaps = 5/113 (4%)

Query: 8   LSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISL 67
           ++  A  K  LH+ KH  ++VNG+LLG+    +   + I D +PLFH+   LLP  E+++
Sbjct: 7   ITTEALSKAHLHSFKHHASSVNGILLGKADKNS---ILITDIIPLFHTQ-TLLPMFEVAM 62

Query: 68  IMIEEHYSAQGLGIVGYFHANERF-DDLELDSIAKNIGNHICRYFPQCAVLLL 119
           I IE++     + +VGY+H+N+   ++LE + IAK I + +         L++
Sbjct: 63  IQIEKYCRDNNIDMVGYYHSNQCIANELEPEPIAKKIADRLNNELNNMCFLMI 115

Dictyostelium discoideum (taxid: 44689)

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	165
21592839	206	unknown [Arabidopsis thaliana]	0.836	0.669	0.797	2e-58
18423805	208	uncharacterized protein [Arabidopsis tha	0.836	0.663	0.797	2e-58
297796469	208	EMB2731 [Arabidopsis lyrata subsp. lyrat	0.836	0.663	0.789	3e-57
255563580	204	Neighbor of COX4, putative [Ricinus comm	0.824	0.666	0.782	8e-56
147770366	206	hypothetical protein VITISV_040251 [Viti	0.836	0.669	0.742	2e-54
225461981	206	PREDICTED: UPF0172 protein At5g55940 [Vi	0.836	0.669	0.742	2e-54
351721567	204	uncharacterized protein LOC100527135 [Gl	0.818	0.661	0.764	1e-53
449453129	203	PREDICTED: ER membrane protein complex s	0.830	0.674	0.724	5e-53
449488319	145	PREDICTED: ER membrane protein complex s	0.842	0.958	0.721	5e-53
224061248	204	predicted protein [Populus trichocarpa]	0.818	0.661	0.760	1e-52

>gi|21592839|gb|AAM64789.1| unknown [Arabidopsis thaliana]

 Score =  230 bits (586), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 110/138 (79%), Positives = 126/138 (91%)

Query: 2   GELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP 61
           GELKYE+SQNAYIKLVLH+ +HKTAAVNGVL+GR+SP++D VVEI+DSVPLFHS+L LLP
Sbjct: 5   GELKYEISQNAYIKLVLHSLRHKTAAVNGVLVGRISPKDDGVVEISDSVPLFHSNLALLP 64

Query: 62  NLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDN 121
            LEISLIMIEEHY AQGL IVGYFHANERFDD+EL  +AKNIG+HI RYFPQ  +LLL+N
Sbjct: 65  PLEISLIMIEEHYVAQGLSIVGYFHANERFDDVELCGVAKNIGDHISRYFPQAPILLLNN 124

Query: 122 KKLEALPKGKDRSPVMQV 139
           KKLEAL KGK+RSPVMQ+
Sbjct: 125 KKLEALSKGKERSPVMQL 142

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18423805|ref|NP_568832.1| uncharacterized protein [Arabidopsis thaliana] gi|18202899|sp|Q9FG71.1|EMC89_ARATH RecName: Full=ER membrane protein complex subunit 8/9 homolog; AltName: Full=Protein EMBRYO DEFECTIVE 2731 gi|9758214|dbj|BAB08659.1| unnamed protein product [Arabidopsis thaliana] gi|18086571|gb|AAL57709.1| AT5g55940/MYN21_5 [Arabidopsis thaliana] gi|21689597|gb|AAM67420.1| AT5g55940/MYN21_5 [Arabidopsis thaliana] gi|110741034|dbj|BAE98611.1| hypothetical protein [Arabidopsis thaliana] gi|332009318|gb|AED96701.1| uncharacterized protein [Arabidopsis thaliana]

 Score =  230 bits (586), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 110/138 (79%), Positives = 126/138 (91%)

Query: 2   GELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP 61
           GELKYE+SQNAYIKLVLH+ +HKTAAVNGVL+GR+SP++D VVEI+DSVPLFHS+L LLP
Sbjct: 7   GELKYEISQNAYIKLVLHSLRHKTAAVNGVLVGRISPKDDGVVEISDSVPLFHSNLALLP 66

Query: 62  NLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDN 121
            LEISLIMIEEHY AQGL IVGYFHANERFDD+EL  +AKNIG+HI RYFPQ  +LLL+N
Sbjct: 67  PLEISLIMIEEHYVAQGLSIVGYFHANERFDDVELCGVAKNIGDHISRYFPQAPILLLNN 126

Query: 122 KKLEALPKGKDRSPVMQV 139
           KKLEAL KGK+RSPVMQ+
Sbjct: 127 KKLEALSKGKERSPVMQL 144

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297796469|ref|XP_002866119.1| EMB2731 [Arabidopsis lyrata subsp. lyrata] gi|297311954|gb|EFH42378.1| EMB2731 [Arabidopsis lyrata subsp. lyrata]

 Score =  226 bits (576), Expect = 3e-57,   Method: Compositional matrix adjust.
 Identities = 109/138 (78%), Positives = 125/138 (90%)

Query: 2   GELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP 61
           GELKYE+SQNAYIKLVLH+ +HKTAAVNGVL+GR+S ++D VVEI+DSVPLFHS+L LLP
Sbjct: 7   GELKYEISQNAYIKLVLHSLRHKTAAVNGVLVGRISHKDDGVVEISDSVPLFHSNLALLP 66

Query: 62  NLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDN 121
            LEISLIMIEEHY AQGL IVGYFHANERFDD+EL  +AKNIG+HI RYFPQ  +LLL+N
Sbjct: 67  PLEISLIMIEEHYVAQGLSIVGYFHANERFDDVELCGVAKNIGDHISRYFPQAPILLLNN 126

Query: 122 KKLEALPKGKDRSPVMQV 139
           KKLEAL KGK+RSPVMQ+
Sbjct: 127 KKLEALSKGKERSPVMQL 144

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255563580|ref|XP_002522792.1| Neighbor of COX4, putative [Ricinus communis] gi|223538030|gb|EEF39643.1| Neighbor of COX4, putative [Ricinus communis]

 Score =  221 bits (563), Expect = 8e-56,   Method: Compositional matrix adjust.
 Identities = 108/138 (78%), Positives = 123/138 (89%), Gaps = 2/138 (1%)

Query: 2   GELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP 61
           GELKYE+SQNAYIKLVLHA KHK+ +VNGVLLGR   ++  VVEI +SVPLFH+HLGLLP
Sbjct: 5   GELKYEISQNAYIKLVLHALKHKSTSVNGVLLGRSDKKD--VVEIVESVPLFHNHLGLLP 62

Query: 62  NLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDN 121
            LEISLIMIEE+Y AQGLGIVGYFHANERFDD EL ++AKNIG+HI RYFPQ A+LLLDN
Sbjct: 63  PLEISLIMIEEYYGAQGLGIVGYFHANERFDDFELGNVAKNIGDHIFRYFPQAAILLLDN 122

Query: 122 KKLEALPKGKDRSPVMQV 139
           KKLEAL KGKD+SPV+Q+
Sbjct: 123 KKLEALTKGKDQSPVLQL 140

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147770366|emb|CAN78153.1| hypothetical protein VITISV_040251 [Vitis vinifera]

 Score =  216 bits (551), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 104/140 (74%), Positives = 120/140 (85%), Gaps = 2/140 (1%)

Query: 2   GELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDA--VVEIADSVPLFHSHLGL 59
           GELKYE++QNAYIKLVLHA KHKTAAVN VLLGR+    D    ++I+D+VPLFHS + L
Sbjct: 3   GELKYEIAQNAYIKLVLHALKHKTAAVNAVLLGRLVTSTDGSHTLQISDAVPLFHSQITL 62

Query: 60  LPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLL 119
           LP LEI+LI IEE+Y AQ +GIVGYFHANERFDD EL S+AKNIG+HI RYFPQ AV+LL
Sbjct: 63  LPPLEIALIQIEEYYGAQDMGIVGYFHANERFDDAELSSVAKNIGDHIYRYFPQAAVILL 122

Query: 120 DNKKLEALPKGKDRSPVMQV 139
           DNKKLE+LPKGKDRSPVMQ+
Sbjct: 123 DNKKLESLPKGKDRSPVMQL 142

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225461981|ref|XP_002271498.1| PREDICTED: UPF0172 protein At5g55940 [Vitis vinifera] gi|296089957|emb|CBI39776.3| unnamed protein product [Vitis vinifera]

 Score =  216 bits (551), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 104/140 (74%), Positives = 120/140 (85%), Gaps = 2/140 (1%)

Query: 2   GELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDA--VVEIADSVPLFHSHLGL 59
           GELKYE++QNAYIKLVLHA KHKTAAVN VLLGR+    D    ++I+D+VPLFHS + L
Sbjct: 3   GELKYEIAQNAYIKLVLHALKHKTAAVNAVLLGRLVTSTDGSHTLQISDAVPLFHSQITL 62

Query: 60  LPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLL 119
           LP LEI+LI IEE+Y AQ +GIVGYFHANERFDD EL S+AKNIG+HI RYFPQ AV+LL
Sbjct: 63  LPPLEIALIQIEEYYGAQDMGIVGYFHANERFDDAELSSVAKNIGDHIYRYFPQAAVILL 122

Query: 120 DNKKLEALPKGKDRSPVMQV 139
           DNKKLE+LPKGKDRSPVMQ+
Sbjct: 123 DNKKLESLPKGKDRSPVMQL 142

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351721567|ref|NP_001235422.1| uncharacterized protein LOC100527135 [Glycine max] gi|255631632|gb|ACU16183.1| unknown [Glycine max]

 Score =  214 bits (544), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 104/136 (76%), Positives = 120/136 (88%), Gaps = 1/136 (0%)

Query: 4   LKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNL 63
           L+YE+ QNAYIKLVLH+ KH T+AVNGVL+GR+S  ND VVEIAD+VPLFHSH+ LLP L
Sbjct: 6   LRYEIEQNAYIKLVLHSLKHPTSAVNGVLIGRISASND-VVEIADAVPLFHSHIPLLPQL 64

Query: 64  EISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKK 123
           EISLIMIEE++SA+GL IVGYFHANER DD EL S+AKNIG+HICRYFPQ AVLLLDNKK
Sbjct: 65  EISLIMIEEYFSAKGLNIVGYFHANERSDDSELGSVAKNIGDHICRYFPQAAVLLLDNKK 124

Query: 124 LEALPKGKDRSPVMQV 139
           L+AL K KDRS +MQ+
Sbjct: 125 LDALKKSKDRSAIMQL 140

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449453129|ref|XP_004144311.1| PREDICTED: ER membrane protein complex subunit 8/9 homolog [Cucumis sativus]

 Score =  212 bits (539), Expect = 5e-53,   Method: Compositional matrix adjust.
 Identities = 100/138 (72%), Positives = 123/138 (89%), Gaps = 1/138 (0%)

Query: 2   GELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP 61
           G+L++E+SQNAYIKLVLHA KH+T AVNGVLLGR+S  ND V+EI+DSVPLFHS +GLLP
Sbjct: 3   GDLRFEISQNAYIKLVLHALKHRTTAVNGVLLGRISGPND-VIEISDSVPLFHSSIGLLP 61

Query: 62  NLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDN 121
            LEISL++IEE+Y+A+GL IVGYFHANERFDD E+  +AKNIG+HI R+FP  A+LLLD+
Sbjct: 62  QLEISLLLIEEYYAAKGLNIVGYFHANERFDDYEVGGVAKNIGDHISRFFPHAALLLLDH 121

Query: 122 KKLEALPKGKDRSPVMQV 139
           +KLEALPK KDRSPVM++
Sbjct: 122 RKLEALPKRKDRSPVMEL 139

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449488319|ref|XP_004158000.1| PREDICTED: ER membrane protein complex subunit 8/9 homolog [Cucumis sativus]

 Score =  212 bits (539), Expect = 5e-53,   Method: Compositional matrix adjust.
 Identities = 101/140 (72%), Positives = 123/140 (87%), Gaps = 1/140 (0%)

Query: 2   GELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP 61
           G+L++E+SQNAYIKLVLHA KH+T AVNGVLLGR+S  ND V+EI+DSVPLFHS +GLLP
Sbjct: 3   GDLRFEISQNAYIKLVLHALKHRTTAVNGVLLGRISGPND-VIEISDSVPLFHSSIGLLP 61

Query: 62  NLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDN 121
            LEISL++IEE+Y+A+GL IVGYFHANERFDD E+  +AKNIG+HI R+FP  A+LLLD+
Sbjct: 62  QLEISLLLIEEYYAAKGLNIVGYFHANERFDDYEVGGVAKNIGDHISRFFPHAALLLLDH 121

Query: 122 KKLEALPKGKDRSPVMQVSA 141
           +KLEALPK KDRSPVM+  A
Sbjct: 122 RKLEALPKRKDRSPVMENRA 141

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224061248|ref|XP_002300389.1| predicted protein [Populus trichocarpa] gi|222847647|gb|EEE85194.1| predicted protein [Populus trichocarpa]

 Score =  211 bits (536), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 105/138 (76%), Positives = 120/138 (86%), Gaps = 3/138 (2%)

Query: 2   GELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP 61
           GEL+YE+SQNAYIKLVLH+ KHKT+AVNGV +G      D  V+I DSVPLFH+HLGLLP
Sbjct: 6   GELRYEISQNAYIKLVLHSLKHKTSAVNGVFVGSSC---DDGVQIIDSVPLFHNHLGLLP 62

Query: 62  NLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDN 121
            LEISLIMIEE+YSA+GLGIVGYFHANER DD+EL ++AKNIG+HI RYFPQ A+LLLDN
Sbjct: 63  PLEISLIMIEEYYSARGLGIVGYFHANERSDDVELGNVAKNIGDHIYRYFPQAAILLLDN 122

Query: 122 KKLEALPKGKDRSPVMQV 139
           KKLEALPKGKD  PVMQ+
Sbjct: 123 KKLEALPKGKDGLPVMQL 140

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

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	165
TAIR|locus:2178403	208	emb2731 "AT5G55940" [Arabidops	0.836	0.663	0.797	8.6e-56
UNIPROTKB|F1SGM2	206	EMC9 "Uncharacterized protein"	0.757	0.606	0.406	4.9e-21
UNIPROTKB|E1BF12	208	EMC9 "Uncharacterized protein"	0.763	0.605	0.403	6.3e-21
MGI|MGI:1934682	206	Emc9 "ER membrane protein comp	0.763	0.611	0.403	1.3e-20
RGD|1308113	206	Emc9 "ER membrane protein comp	0.763	0.611	0.403	1.3e-20
UNIPROTKB|E2QSX7	207	FAM158A "Uncharacterized prote	0.757	0.603	0.418	3.5e-20
UNIPROTKB|Q9Y3B6	208	EMC9 "ER membrane protein comp	0.763	0.605	0.387	7.2e-20
FB|FBgn0034791	203	CG3501 [Drosophila melanogaste	0.703	0.571	0.389	1.6e-17
ZFIN|ZDB-GENE-040426-2692	202	emc8 "ER membrane protein comp	0.727	0.594	0.333	4.2e-15
MGI|MGI:1343095	207	Emc8 "ER membrane protein comp	0.709	0.565	0.338	1.1e-14

TAIR|locus:2178403 emb2731 "AT5G55940" [Arabidopsis thaliana (taxid:3702)]

 Score = 575 (207.5 bits), Expect = 8.6e-56, P = 8.6e-56
 Identities = 110/138 (79%), Positives = 126/138 (91%)

Query:     2 GELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP 61
             GELKYE+SQNAYIKLVLH+ +HKTAAVNGVL+GR+SP++D VVEI+DSVPLFHS+L LLP
Sbjct:     7 GELKYEISQNAYIKLVLHSLRHKTAAVNGVLVGRISPKDDGVVEISDSVPLFHSNLALLP 66

Query:    62 NLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDN 121
              LEISLIMIEEHY AQGL IVGYFHANERFDD+EL  +AKNIG+HI RYFPQ  +LLL+N
Sbjct:    67 PLEISLIMIEEHYVAQGLSIVGYFHANERFDDVELCGVAKNIGDHISRYFPQAPILLLNN 126

Query:   122 KKLEALPKGKDRSPVMQV 139
             KKLEAL KGK+RSPVMQ+
Sbjct:   127 KKLEALSKGKERSPVMQL 144

GO:0003674 "molecular_function" evidence=ND

GO:0009793 "embryo development ending in seed dormancy" evidence=NAS

GO:0005783 "endoplasmic reticulum" evidence=IDA

UNIPROTKB|F1SGM2 EMC9 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 247 (92.0 bits), Expect = 4.9e-21, P = 4.9e-21
 Identities = 52/128 (40%), Positives = 77/128 (60%)

Query:     1 MGELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLL 60
             MGE+  E+S  AY+K+ LHA ++  AAVNG+LL   +P++   + + D VPLFHSHL L 
Sbjct:     1 MGEV--EISARAYVKMCLHAARYPHAAVNGLLLAP-APRSGECLCLTDCVPLFHSHLALS 57

Query:    61 PNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLD 120
               LE++L  ++   +  GL + GY+HAN   DD     +A  I   I  +FP   +++LD
Sbjct:    58 VMLEVALNQVDVWGAQAGLVVAGYYHANAALDDQSPGPLALKIAGRIAEFFPDAVLIMLD 117

Query:   121 NKKLEALP 128
             N+KL   P
Sbjct:   118 NQKLVPQP 125

GO:0072546 "ER membrane protein complex" evidence=IEA

UNIPROTKB|E1BF12 EMC9 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 246 (91.7 bits), Expect = 6.3e-21, P = 6.3e-21
 Identities = 52/129 (40%), Positives = 77/129 (59%)

Query:     1 MGELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRV-SPQNDAVVEIADSVPLFHSHLGL 59
             MGE+  E+S  AY+K+ LHA ++  AAVNG+LL    +P++   + + D VPLFHSHL L
Sbjct:     1 MGEV--EISARAYVKMSLHAARYPHAAVNGLLLAPAPAPRSGECLCLTDCVPLFHSHLAL 58

Query:    60 LPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLL 119
                LE++L  ++   +  GL + GY+HAN   DD     +A  I   I  +FP   +++L
Sbjct:    59 SVMLEVALNQVDVWGAQAGLVVAGYYHANAALDDQSPGPLALKIAGRIAEFFPDAVLIML 118

Query:   120 DNKKLEALP 128
             DN+KL   P
Sbjct:   119 DNQKLVPQP 127

GO:0072546 "ER membrane protein complex" evidence=IEA

MGI|MGI:1934682 Emc9 "ER membrane protein complex subunit 9" [Mus musculus (taxid:10090)]

 Score = 243 (90.6 bits), Expect = 1.3e-20, P = 1.3e-20
 Identities = 52/129 (40%), Positives = 76/129 (58%)

Query:     1 MGELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLL 60
             MGE+  E+S  AY K+ LHA ++  AAVNG+LL   +   + +  + D VPLFHSHL L 
Sbjct:     1 MGEV--EISARAYGKMCLHASRYPHAAVNGLLLAPATGSGECLC-LTDCVPLFHSHLALS 57

Query:    61 PNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLD 120
               LE++L  ++   +  GL + GY+HAN   DD     +A  I   I  +FP+  +++LD
Sbjct:    58 VMLEVALNQVDVWGAQAGLVVAGYYHANAVLDDQSPGPLALKIAGRIAEFFPRAVLIMLD 117

Query:   121 NKKLEALPK 129
             NKKL   P+
Sbjct:   118 NKKLVTRPR 126

GO:0005737 "cytoplasm" evidence=ISO

GO:0072546 "ER membrane protein complex" evidence=ISO

RGD|1308113 Emc9 "ER membrane protein complex subunit 9" [Rattus norvegicus (taxid:10116)]

 Score = 243 (90.6 bits), Expect = 1.3e-20, P = 1.3e-20
 Identities = 52/129 (40%), Positives = 75/129 (58%)

Query:     1 MGELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLL 60
             MGE+  E+S  AY K+ LHA ++  AAVNG+LL   +   + +  + D VPLFHSHL L 
Sbjct:     1 MGEV--EISARAYGKMCLHASRYPHAAVNGLLLAPATRSGECLC-LTDCVPLFHSHLALS 57

Query:    61 PNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLD 120
               LE++L  ++   +  GL + GY+HAN   DD     +A  I   I  +FP   +++LD
Sbjct:    58 VMLEVALNQVDVWATQAGLVVAGYYHANAVLDDQSPGPLALKIAGRIAEFFPNAVLIMLD 117

Query:   121 NKKLEALPK 129
             NKKL   P+
Sbjct:   118 NKKLVTWPR 126

GO:0005737 "cytoplasm" evidence=ISO;ISS

GO:0072546 "ER membrane protein complex" evidence=ISO;ISS

UNIPROTKB|E2QSX7 FAM158A "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 239 (89.2 bits), Expect = 3.5e-20, P = 3.5e-20
 Identities = 54/129 (41%), Positives = 77/129 (59%)

Query:     1 MGELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLL 60
             MGE+  E+S  AY K+ LHA ++  A+VNG+LL   SP++   + + D VPLFHSHL L 
Sbjct:     1 MGEV--EISARAYGKMCLHAARYPHASVNGLLLAP-SPRSGECLCLTDCVPLFHSHLALS 57

Query:    61 PNLEISLIMIEEHYSAQ-GLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLL 119
               LE++L    + + AQ GL + GY+HAN   DD     +A  I   I  +FP   +++L
Sbjct:    58 VMLEVALNQQVDVWGAQAGLIVAGYYHANAALDDQSAGPLALKIAGRIAEFFPDAVLVML 117

Query:   120 DNKKLEALP 128
             DN+KL   P
Sbjct:   118 DNQKLVPQP 126

GO:0072546 "ER membrane protein complex" evidence=IEA

UNIPROTKB|Q9Y3B6 EMC9 "ER membrane protein complex subunit 9" [Homo sapiens (taxid:9606)]

 Score = 236 (88.1 bits), Expect = 7.2e-20, P = 7.2e-20
 Identities = 50/129 (38%), Positives = 77/129 (59%)

Query:     1 MGELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLL 60
             MGE+  E+S  AY+K+ LHA ++  AAVNG+ L   +P++   + + D VPLFHSHL L 
Sbjct:     1 MGEV--EISALAYVKMCLHAARYPHAAVNGLFLAP-APRSGECLCLTDCVPLFHSHLALS 57

Query:    61 PNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLD 120
               LE++L  ++   +  GL + GY+HAN   +D     +A  I   I  +FP   +++LD
Sbjct:    58 VMLEVALNQVDVWGAQAGLVVAGYYHANAAVNDQSPGPLALKIAGRIAEFFPDAVLIMLD 117

Query:   121 NKKLEALPK 129
             N+KL   P+
Sbjct:   118 NQKLVPQPR 126

GO:0072546 "ER membrane protein complex" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

FB|FBgn0034791 CG3501 [Drosophila melanogaster (taxid:7227)]

 Score = 214 (80.4 bits), Expect = 1.6e-17, P = 1.6e-17
 Identities = 46/118 (38%), Positives = 70/118 (59%)

Query:     6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEI 65
             Y++S+ AY KL+ HA K+   AVNG+LL   + +   V EI D++PLFH  L + P  E+
Sbjct:     4 YKVSERAYAKLIFHAAKYPHQAVNGLLLAEKTSKGSQV-EIVDAIPLFHQCLYVTPMAEV 62

Query:    66 SLIMIEEHYSAQGLGIVGYFHANERFDDLELDSI-AKNIGNHICRYFPQCAVLLLDNK 122
             +L++I+ H   +GL I GY+ A E F D ++D   A  I + I   F     +++DNK
Sbjct:    63 ALMLIDAHAEREGLVIAGYYAAPENFYDNQVDKTPAAKIADKIQENFKNACFVVVDNK 120

GO:0008150 "biological_process" evidence=ND

GO:0003674 "molecular_function" evidence=ND

GO:0005875 "microtubule associated complex" evidence=IDA

ZFIN|ZDB-GENE-040426-2692 emc8 "ER membrane protein complex subunit 8" [Danio rerio (taxid:7955)]

 Score = 191 (72.3 bits), Expect = 4.2e-15, P = 4.2e-15
 Identities = 41/123 (33%), Positives = 66/123 (53%)

Query:     4 LKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAV---VEIADSVPLFHSHLGLL 60
             +  +L+  AY K++LHA K+   AVNG+L+     + D     V   D VPLFH  L L 
Sbjct:     1 MSLKLTTQAYCKMLLHAAKYPHCAVNGLLVAEKHKKKDNPRDSVLCVDCVPLFHGALALA 60

Query:    61 PNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLD 120
             P LE++L +I+         I GY+ ANER  +   + +A+ +   I   F + A++++D
Sbjct:    61 PMLEVALTLIDTWCKENKYVIAGYYQANERIKETRPNQVAEKVAARISENFSEAAMIMMD 120

Query:   121 NKK 123
             N +
Sbjct:   121 NSR 123

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0003674 "molecular_function" evidence=ND

MGI|MGI:1343095 Emc8 "ER membrane protein complex subunit 8" [Mus musculus (taxid:10090)]

 Score = 187 (70.9 bits), Expect = 1.1e-14, P = 1.1e-14
 Identities = 42/124 (33%), Positives = 66/124 (53%)

Query:     7 ELSQNAYIKLVLHARKHKTAAVNGVLLG-RVSPQND------AVVEIADSVPLFHSHLGL 59
             +L+  AY K+VLH  K+   AVNG+L+  R  P+ +      +     D +PLFH  L L
Sbjct:     5 KLTTQAYCKMVLHGAKYPHCAVNGLLVAERQRPRKEHPPGAGSHTLFVDCIPLFHGTLAL 64

Query:    60 LPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLL 119
              P LE++L +I+         I GY+ ANER  D   + +A+ + + I   F   A++++
Sbjct:    65 TPMLEVALTLIDSWCKDNSYVIAGYYQANERVKDASPNQVAEKVASRIAEGFGDAALIMV 124

Query:   120 DNKK 123
             DN K
Sbjct:   125 DNAK 128

GO:0003674 "molecular_function" evidence=ND

GO:0005737 "cytoplasm" evidence=ISO

GO:0005739 "mitochondrion" evidence=IDA

GO:0008150 "biological_process" evidence=ND

GO:0072546 "ER membrane protein complex" evidence=ISO

---

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)
Q9FG71	EMC89_ARATH	No assigned EC number	0.7971	0.8363	0.6634	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	emb2731	emb2731 (embryo defective 2731); embryo defective 2731 (emb2731); FUNCTIONS IN- molecular_function unknown; INVOLVED IN- embryonic development ending in seed dormancy; LOCATED IN- endoplasmic reticulum; EXPRESSED IN- 23 plant structures; EXPRESSED DURING- 13 growth stages; CONTAINS InterPro DOMAIN/s- Uncharacterised protein family UPF0172 (InterPro-IPR005366); BEST Arabidopsis thaliana protein match is- unknown protein (TAIR-AT5G51620.3); Has 220 Blast hits to 219 proteins in 84 species- Archae - 0; Bacteria - 0; Metazoa - 140; Fungi - 10; Plants - 30; Viruses - 0; Other Eukaryotes - 4 [...] (208 aa)
		(Arabidopsis thaliana)
Predicted Functional Partners:
	emb2735	emb2735 (embryo defective 2735); embryo defective 2735 (emb2735); FUNCTIONS IN- molecular_funct [...] (162 aa)							•		0.821
	emb1513	emb1513 (embryo defective 1513); copper ion transmembrane transporter; embryo defective 1513 (e [...] (251 aa)							•		0.821
	emb2170	emb2170 (embryo defective 2170); embryo defective 2170 (emb2170); FUNCTIONS IN- molecular_funct [...] (248 aa)							•		0.821
	EMB2743	EMB2743 (EMBRYO DEFECTIVE 2743); EMBRYO DEFECTIVE 2743 (EMB2743); FUNCTIONS IN- molecular_funct [...] (103 aa)							•		0.788
	MIRO1	MIRO1 (Miro-related GTP-ase 1); GTP binding; Encodes a protein with similarity to GTPases that [...] (648 aa)							•		0.659
	AT2G37120	DNA-binding S1FA family protein; DNA-binding S1FA family protein; FUNCTIONS IN- DNA binding; IN [...] (76 aa)				•					0.573
	AT1G51630	unknown protein; unknown protein; FUNCTIONS IN- molecular_function unknown; INVOLVED IN- biolog [...] (423 aa)				•					0.546
	AT1G74280	hydrolase, alpha/beta fold family protein; hydrolase, alpha/beta fold family protein; FUNCTIONS [...] (372 aa)				•					0.538
	AT5G24760	alcohol dehydrogenase, putative; alcohol dehydrogenase, putative; FUNCTIONS IN- oxidoreductase [...] (381 aa)				•					0.537
	AT5G49830	unknown protein; EXPRESSED IN- 22 plant structures; EXPRESSED DURING- 13 growth stages; CONTAIN [...] (814 aa)				•					0.526

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	165
pfam03665	195	pfam03665, UPF0172, Uncharacterized protein family	6e-55
cd08060	182	cd08060, MPN_UPF0172, Mov34/MPN/PAD-1 family: UPF0	2e-48
cd07767	116	cd07767, MPN, Mpr1p, Pad1p N-terminal (MPN) domain	0.004

>gnl|CDD|217666 pfam03665, UPF0172, Uncharacterized protein family (UPF0172)

 Score =  171 bits (435), Expect = 6e-55
 Identities = 60/130 (46%), Positives = 84/130 (64%), Gaps = 2/130 (1%)

Query: 3   ELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPN 62
             + E+S  AY K++LHA K+   AVNG+LLG+ S ++ +V  I D+VPLFHS L L P 
Sbjct: 1   MTEVEISPLAYAKMILHAAKYPHCAVNGLLLGK-STKSSSV-LITDAVPLFHSTLALAPM 58

Query: 63  LEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNK 122
           LE++L  +E +   +GL IVGY+HANERFDD     +AK I + I   F    +LL+DN+
Sbjct: 59  LEVALAQVESYAKQKGLVIVGYYHANERFDDSSPSPVAKKIADKIAENFNNAVLLLVDNE 118

Query: 123 KLEALPKGKD 132
           KLE+ P+   
Sbjct: 119 KLESDPRVPA 128

In Chlamydomonas reinhardtii the protein TLA1 (truncated light-harvesting chlorophyll antenna size) apparently regulates genes that define the chlorophyll-a antenna size in the photosynthetic apparatus. This family was formerly known as UPF0172. Length = 195

>gnl|CDD|163691 cd08060, MPN_UPF0172, Mov34/MPN/PAD-1 family: UPF0172 family of unknown function includes neighbor of COX4 (Noc4p)

 Score =  154 bits (391), Expect = 2e-48
 Identities = 57/123 (46%), Positives = 78/123 (63%), Gaps = 2/123 (1%)

Query: 8   LSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISL 67
           LS  AY+K++LHA K+   AVNG+LLG+ S      VEI D+VPLFHS L L P LE++L
Sbjct: 1   LSTLAYVKMLLHAAKYPHCAVNGLLLGKKSS--GGSVEITDAVPLFHSCLALAPMLEVAL 58

Query: 68  IMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEAL 127
            +++ +  + GL IVGY+ ANER DD     +AK I + I   F    +L++DN+KL   
Sbjct: 59  ALVDAYCKSSGLVIVGYYQANERLDDSSPSPVAKKIADKIAENFSNACLLMVDNEKLTLD 118

Query: 128 PKG 130
            KG
Sbjct: 119 CKG 121

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. Length = 182

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

 Score = 35.2 bits (81), Expect = 0.004
 Identities = 16/77 (20%), Positives = 29/77 (37%), Gaps = 4/77 (5%)

Query: 14 IKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEH 73
             +  A+      V G+L G  + +    V   D V       G   +    L+ ++  
Sbjct: 2  KMFLDAAKSINGKEVIGLLYGSKTKK----VLDVDEVIAVPFDEGDKDDNVWFLMYLDFK 57

Query: 74 YSAQGLGIVGYFHANER 90
              GL IVG++H + +
Sbjct: 58 KLNAGLRIVGWYHTHPK 74

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	165
PF03665	196	UPF0172: Uncharacterised protein family (UPF0172);	100.0
KOG3289	199	consensus Uncharacterized conserved protein encode	100.0
cd08060	182	MPN_UPF0172 Mov34/MPN/PAD-1 family: UPF0172 family	100.0
cd07767	116	MPN Mpr1p, Pad1p N-terminal (MPN) domains. MPN (al	99.75
cd08069	268	MPN_RPN11_CSN5 Mov34/MPN/PAD-1 family: proteasomal	98.99
smart00232	135	JAB_MPN JAB/MPN domain. Domain in Jun kinase activ	98.91
PF01398	114	JAB: JAB1/Mov34/MPN/PAD-1 ubiquitin protease; Inte	98.89
cd08065	266	MPN_eIF3h Mpr1p, Pad1p N-terminal (MPN) domains wi	98.88
cd08057	157	MPN_euk_non_mb Mpr1p, Pad1p N-terminal (MPN) domai	98.83
cd08067	187	MPN_2A_DUB Mov34/MPN/PAD-1 family: Histone H2A deu	98.73
cd08062	280	MPN_RPN7_8 Mpr1p, Pad1p N-terminal (MPN) domains w	98.57
cd08058	119	MPN_euk_mb Mpr1p, Pad1p N-terminal (MPN) domains w	98.54
cd08064	265	MPN_eIF3f Mpr1p, Pad1p N-terminal (MPN) domains wi	98.44
cd08063	288	MPN_CSN6 Mpr1p, Pad1p N-terminal (MPN) domains wit	98.27
PLN03246	303	26S proteasome regulatory subunit; Provisional	98.18
cd08068	244	MPN_BRCC36 Mov34/MPN/PAD-1 family: BRCC36, a subun	98.13
cd08066	173	MPN_AMSH_like Mov34/MPN/PAD-1 family. AMSH (associ	98.07
KOG1554	347	consensus COP9 signalosome, subunit CSN5 [Posttran	97.67
cd08070	128	MPN_like Mpr1p, Pad1p N-terminal (MPN) domains wit	97.46
PF14464	104	Prok-JAB: Prokaryotic homologs of the JAB domain;	96.83
cd08072	117	MPN_archaeal Mov34/MPN/PAD-1 family: archaeal JAB1	95.62
KOG1556	309	consensus 26S proteasome regulatory complex, subun	94.76
COG1310	134	Predicted metal-dependent protease of the PAD1/JAB	94.44
TIGR02256	131	ICE_VC0181 integrative and conjugative element pro	93.24
cd08059	101	MPN_prok_mb Mpr1p, Pad1p N-terminal (MPN) domains	92.89
KOG1555	316	consensus 26S proteasome regulatory complex, subun	92.88
KOG2975	288	consensus Translation initiation factor 3, subunit	92.87
KOG1560	339	consensus Translation initiation factor 3, subunit	85.39
cd08073	108	MPN_NLPC_P60 Mpr1p, Pad1p N-terminal (MPN) domains	81.91
KOG3050	299	consensus COP9 signalosome, subunit CSN6 [Posttran	80.33

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

Probab=100.00  E-value=2.1e-56  Score=366.50  Aligned_cols=125  Identities=45%  Similarity=0.706  Sum_probs=118.1

Q ss_pred             ce-eEEeHHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcchHHHHHHHHHHHHhhhCCceEE
Q 031148            4 LK-YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIV   82 (165)
Q Consensus         4 M~-v~is~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsPmlEvAL~qId~~~~~~gl~Iv   82 (165)
                      |+ |+||++||+||+|||+|||||+|||+|||++++++ +.+.|+|||||||++++|+||+|+||+|||+||+++|++||
T Consensus         1 m~~v~is~~AY~K~~LHaaKyP~~aVnGvLlg~~~~~~-~~v~i~DaVPLfH~~~~L~PmlEvAL~qvd~~~~~~gl~Iv   79 (196)
T PF03665_consen    1 MSSVEISSRAYAKMILHAAKYPHCAVNGVLLGKSSKSS-SEVEIVDAVPLFHHWLSLSPMLEVALAQVDAYAKSNGLVIV   79 (196)
T ss_pred             CceEEEcHHHHHHHHHHhccCCCCceeeEEEeccCCCC-ceEEEeeceeccccccCcchHHHHHHHHHHHHHhhCCCEEE
Confidence            55 99999999999999999999999999999976552 35999999999999999999999999999999999999999


Q ss_pred             EEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCcccccccc
Q 031148           83 GYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPK  129 (165)
Q Consensus        83 GYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~kl~~l~k  129 (165)
                      ||||||||++|++|+++|+||||||+++|++|+++||||+||+..++
T Consensus        80 GyY~Ane~~~d~~~~~~a~kiad~I~~~~~~a~ll~idn~kl~~~~~  126 (196)
T PF03665_consen   80 GYYQANERLDDNSPSPVAEKIADKIAENFSDACLLMIDNKKLSSDCK  126 (196)
T ss_pred             EEEEeccccccCCCCHHHHHHHHHHHhhCCCcEEEEEECcccccccC
Confidence            99999999999999999999999999999999999999999987333

>KOG3289 consensus Uncharacterized conserved protein encoded by sequence overlapping the COX4 gene [General function prediction only]

Probab=100.00  E-value=2.4e-54  Score=352.18  Aligned_cols=130  Identities=48%  Similarity=0.773  Sum_probs=124.1

Q ss_pred             eEEeHHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcchHHHHHHHHHHHHhhhCCceEEEEE
Q 031148            6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYF   85 (165)
Q Consensus         6 v~is~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsPmlEvAL~qId~~~~~~gl~IvGYY   85 (165)
                      |++|++||+||+|||+||||++|||+|||+.++.| ++++|+|||||||+++.|+||+|+||++||+||.+.|++|+|||
T Consensus         4 veis~~aY~kmiLH~akyph~aVnGLLla~~~~kg-~~v~itdcVPLfH~~laLaPmlEvAl~lId~~~~~~GlviaGyy   82 (199)
T KOG3289|consen    4 VEISALAYVKMILHAAKYPHAAVNGLLLAPATGKG-ECVEITDCVPLFHSHLALAPMLEVALNLIDVWGAQAGLVIAGYY   82 (199)
T ss_pred             eeehhhHHHHHHHHhccCcccceeeEEEeccCCCC-CeEEEEecchhhccccccccHHHHHHHHHHHHHHhcCeEEEEEe
Confidence            99999999999999999999999999999876555 69999999999999999999999999999999999999999999


Q ss_pred             EeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCCceeE
Q 031148           86 HANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQV  139 (165)
Q Consensus        86 ~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~kl~~l~k~~~~~~~~~~  139 (165)
                      |||||++|.++.++|+||||||+|+||+|+++|+||+||+.   +.+++|++++
T Consensus        83 ~Ane~~~D~s~~~~A~kiadrIse~f~~A~ilv~dn~~l~~---~~e~~~v~v~  133 (199)
T KOG3289|consen   83 HANERVNDQSLNPVALKIADRISEFFPDAAILVLDNKKLVP---QCERPPVIVL  133 (199)
T ss_pred             ecCCCccccCccHHHHHHHHHHHhhCCCCeEEEEecccccc---ccCCCCEEEe
Confidence            99999999999999999999999999999999999998876   8888887765

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

Probab=100.00  E-value=1.1e-42  Score=282.54  Aligned_cols=117  Identities=47%  Similarity=0.758  Sum_probs=112.2

Q ss_pred             EeHHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcchHHHHHHHHHHHHhhhCCceEEEEEEe
Q 031148            8 LSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHA   87 (165)
Q Consensus         8 is~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsPmlEvAL~qId~~~~~~gl~IvGYY~A   87 (165)
                      |+++||.||++||+|||+++|||+|+|+.+.+  +.+.|+|+|||||+++.|+||+|+||.|||.||+++|+.||||||+
T Consensus         1 is~~ay~ki~~HA~k~p~~evcGlLlG~~~~~--~~~~V~d~vPl~h~~~~l~P~~Eval~~ve~~~~~~gl~IvG~Yhs   78 (182)
T cd08060           1 LSTLAYVKMLLHAAKYPHCAVNGLLLGKKSSG--GSVEITDAVPLFHSCLALAPMLEVALALVDAYCKSSGLVIVGYYQA   78 (182)
T ss_pred             CCHHHHHHHHHHHHHcCCchheEEEEeeecCC--CCEEEEEEEEcCCCccccCHHHHHHHHHHHHHHHHCCCEEEEEEec
Confidence            57899999999999999999999999997633  4689999999999999999999999999999999999999999999


Q ss_pred             CCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccc
Q 031148           88 NERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEA  126 (165)
Q Consensus        88 ne~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~kl~~  126 (165)
                      |++++|++|+++|+||||||+++|++|++++|||+|++.
T Consensus        79 h~~~~d~~~~~~a~kIadki~~~~~~a~ll~vdn~~l~~  117 (182)
T cd08060          79 NERLDDSSPSPVAKKIADKIAENFSNACLLMVDNEKLTL  117 (182)
T ss_pred             CCcccCCCCcHHHHHHHHHHHHhCCCCEEEEEeCccccc
Confidence            999999999999999999999999999999999999976

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.

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

Probab=99.75  E-value=3.7e-17  Score=119.08  Aligned_cols=107  Identities=24%  Similarity=0.291  Sum_probs=93.2

Q ss_pred             HHHHhhhhcCC-CCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcchHHHHHHHHHHHHhhhCCceEEEEEEeCCCCC
Q 031148           14 IKLVLHARKHK-TAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFD   92 (165)
Q Consensus        14 ~KmiLHAaKYP-~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsPmlEvAL~qId~~~~~~gl~IvGYY~Ane~~~   92 (165)
                      +|+++|++|++ ...|+|+|+|+.++    .+.++|++|++|+.....|+.+.++.+++.++...|+.||||||+++...
T Consensus         1 ~k~il~~a~~~~~~ev~G~L~G~~~~----~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iVGwyhshp~~~   76 (116)
T cd07767           1 LKMFLDAAKSINGKEVIGLLYGSKTK----KVLDVDEVIAVPFDEGDKDDNVWFLMYLDFKKLNAGLRIVGWYHTHPKPS   76 (116)
T ss_pred             CHhHHHHHhcCCCcEEEEEeEEEEcC----CEEEEEEEEecccCCCCCccHHHHHHHHHHHHhcCCCeEEEEEEcCCCCC
Confidence            48999999998 79999999998654    27788999999998888999999999999999999999999999987654


Q ss_pred             CCCCCHHHHHHHHHHHhhCCCcEEEEEeCcccc
Q 031148           93 DLELDSIAKNIGNHICRYFPQCAVLLLDNKKLE  125 (165)
Q Consensus        93 D~~~~~~a~kIadkI~~~~~~a~ll~vDn~kl~  125 (165)
                       ..+++......+++++.+++++.+++|.++..
T Consensus        77 -~~~s~~dv~~~~~~q~~~~~~v~li~~~~~~~  108 (116)
T cd07767          77 -CFLSPNDLATHELFQRYFPEKVMIIVDVKPKD  108 (116)
T ss_pred             -CccCHHHHHHHHHHHHhCCCCEEEEEECCCcc
Confidence             25666666677999999999999999999864

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

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

Probab=98.99  E-value=1.2e-08  Score=87.28  Aligned_cols=114  Identities=20%  Similarity=0.265  Sum_probs=83.7

Q ss_pred             eEEeHHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcch--HHHHHHHHHH-HHh--hhCCce
Q 031148            6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP--NLEISLIMIE-EHY--SAQGLG   80 (165)
Q Consensus         6 v~is~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsP--mlEvAL~qId-~~~--~~~gl~   80 (165)
                      |.|++.|+.||+.||.+-....|+|+|+|+..+   +.+.|+||.|+-|.......  -.|.-..+++ ...  ...+..
T Consensus        12 V~Is~~allkil~Ha~~~~p~Ev~GlLlG~~~~---~~v~Vt~~fp~p~~~t~~~v~~~~e~~~~m~~~~~~~~~~~~~~   88 (268)
T cd08069          12 VYISSLALLKMLKHARAGGPIEVMGLMLGKVDD---YTIIVVDVFALPVEGTETRVNAQDEFQEYMVQYEMLKQTGRPEN   88 (268)
T ss_pred             EEECHHHHHHHHHHHhccCCceEEEEEEeeecC---CeEEEEEEEECCcCCCCCceeccHHHHHHHHHHHHHHHhCCCce
Confidence            889999999999999888778999999998644   47999999999876443311  1122222232 122  346799


Q ss_pred             EEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCcc
Q 031148           81 IVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKK  123 (165)
Q Consensus        81 IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~k  123 (165)
                      +|||||...... .-|+.....+-..-++..+.++.+++|..+
T Consensus        89 vVGWYHSHP~~g-~~~S~~Dv~tq~~yq~~~~~~V~lViDP~~  130 (268)
T cd08069          89 VVGWYHSHPGYG-CWLSGIDVNTQQLNQQLQDPFVAVVVDPIR  130 (268)
T ss_pred             eEeeeccCCCcC-CcCCHHHHHHHHHHHhcCCCcEEEEEeCCc
Confidence            999999986555 457877777777777777889999999633

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

>smart00232 JAB_MPN JAB/MPN domain

Probab=98.91  E-value=1.3e-07  Score=70.10  Aligned_cols=114  Identities=20%  Similarity=0.255  Sum_probs=83.8

Q ss_pred             eEEeHHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCc----chHHHHHHHHHHH-HhhhCCce
Q 031148            6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGL----LPNLEISLIMIEE-HYSAQGLG   80 (165)
Q Consensus         6 v~is~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~L----sPmlEvAL~qId~-~~~~~gl~   80 (165)
                      +.+++.++.||+-|+.+.....++|+|+|+..+   +.+.|++++|+-...-.=    -++ +---.+.+. .....|+.
T Consensus         2 v~i~~~v~~~i~~h~~~~~p~e~~G~L~G~~~~---~~~~i~~~~~~p~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~   77 (135)
T smart00232        2 VKVHPLVPLNILKHAIRDGPEEVCGVLLGKSNK---DRPEVKEVFAVPNEPQDDSVQEYDE-DYSHLMDEELKKVNKDLE   77 (135)
T ss_pred             EEEcHHHHHHHHHHHhcCCCcEEEEEEEEEEcC---CEEEEEEEEecCcCCCCcchhhhhh-hHHHHHHHHHHhhCCCce
Confidence            678999999999999999889999999998754   379999999986542110    111 111122232 23468899


Q ss_pred             EEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccc
Q 031148           81 IVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKL  124 (165)
Q Consensus        81 IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~kl  124 (165)
                      +||+||..... ...|+..-.+++.......+.++.+.+|..+-
T Consensus        78 ~vGwyhshp~~-~~~pS~~D~~~~~~~~~~~~~~~~~~v~~~~s  120 (135)
T smart00232       78 IVGWYHSHPDE-SPFPSEVDVATHESYQAPWPISVVLIVDPIKS  120 (135)
T ss_pred             EEEEEEcCCCC-CCCcCHHHHHHHHHHHhcCCceEEEEECCCcc
Confidence            99999997663 34688888888888888888888777887664

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

>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=98.89  E-value=2.3e-08  Score=73.73  Aligned_cols=104  Identities=24%  Similarity=0.275  Sum_probs=75.5

Q ss_pred             eEEeHHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcc----hHHHHHHHHHHHHhhh-CCce
Q 031148            6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLL----PNLEISLIMIEEHYSA-QGLG   80 (165)
Q Consensus         6 v~is~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~Ls----PmlEvAL~qId~~~~~-~gl~   80 (165)
                      |.|++.+..||+-|+.+.+...|.|+|+|...++  ..+.|+|++|+=|....-.    +..+. -.+.+.+-+. ..+.
T Consensus         6 V~i~p~vll~i~~h~~r~~~~~v~G~LlG~~~~~--~~v~I~~~f~~p~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~   82 (114)
T PF01398_consen    6 VQIHPLVLLKIIDHATRSSPNEVIGLLLGTQDGD--NTVEITNSFPVPHSESEDDCDMDDEDFQ-KKMIELLKKVNPNLE   82 (114)
T ss_dssp             EEEEHHHHHHHHHHHHHHHCTEEEEEEEEEEETT---EEEEEEEEEESEEEESSEEEEECCHHH-HHHHHHHHHCSTTSE
T ss_pred             EEECHHHHHHHHHHHhcCCCCEEEEEEEEEecCc--eEEEEEEEEEeeEecCccccccchhhHH-HHHHhhhccccccce
Confidence            8899999999999999988889999999987664  2899999999988644322    22122 3455554432 5599


Q ss_pred             EEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCC
Q 031148           81 IVGYFHANERFDDLELDSIAKNIGNHICRYFPQ  113 (165)
Q Consensus        81 IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~  113 (165)
                      +|||||...... ..|++....+-+..++..++
T Consensus        83 iVGWY~s~p~~~-~~~S~~di~~q~~~q~~~~~  114 (114)
T PF01398_consen   83 IVGWYHSHPNIS-CFPSPTDIETQKQYQRMNPN  114 (114)
T ss_dssp             EEEEEEEESSS--SS--HHHHHHHHHHHHHTTT
T ss_pred             EEEEEEccCCcc-ccCCHHHHHHHHHHHHhCCC
Confidence            999999876553 46788888888877776553

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.

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

Probab=98.88  E-value=5.8e-08  Score=82.72  Aligned_cols=112  Identities=16%  Similarity=0.211  Sum_probs=78.2

Q ss_pred             eEEeHHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcch-----HHHHHHHHHHHHhhhCCc-
Q 031148            6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP-----NLEISLIMIEEHYSAQGL-   79 (165)
Q Consensus         6 v~is~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsP-----mlEvAL~qId~~~~~~gl-   79 (165)
                      |.|++.++.||+-||-+.....|.|+|||...+   +.++|+||.|+=|....-.+     ..+--+.+.+ ..++.|. 
T Consensus         3 V~I~~~vllkIv~H~~~~~p~~v~G~LLG~~~~---~~leVtn~Fp~P~~~~~~~~~~~~~~~~yq~~m~~-~~r~v~~~   78 (266)
T cd08065           3 VQIDGLVVLKIIKHCKEELPELVQGQLLGLDVG---GTLEVTNCFPFPKSEEDDSDRADEDIADYQLEMMR-LLREVNVD   78 (266)
T ss_pred             EEEeHHHHHHHHHHHhcCCCcEEEEEEeeeEcC---CEEEEEeccCCCCCCCCCcchhhhhHHHHHHHHHH-HHHHhCCC
Confidence            889999999999999999999999999998764   48999999999997543332     1122233333 3566776 


Q ss_pred             -eEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCcc
Q 031148           80 -GIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKK  123 (165)
Q Consensus        80 -~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~k  123 (165)
                       .+|||||+.. . +...++.-...--.-....++++.+++|-.+
T Consensus        79 e~iVGWY~S~p-~-~~~~~~s~id~~~~~q~~~~~~v~Li~D~~~  121 (266)
T cd08065          79 HNHVGWYQSTY-L-GSFFTRDLIETQYNYQEAIEESVVLVYDPSK  121 (266)
T ss_pred             CcEEEeEeecC-C-CCcCCHHHHHHHHHHhccCCCCEEEEECCCc
Confidence             9999999876 2 2333332222222223334778999999665

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

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

Probab=98.83  E-value=1.7e-07  Score=73.55  Aligned_cols=114  Identities=19%  Similarity=0.183  Sum_probs=83.7

Q ss_pred             eEEeHHhHHHHHhhhhcCC--CCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcc--hHHHHHHHHHHHHhh-hCCce
Q 031148            6 YELSQNAYIKLVLHARKHK--TAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLL--PNLEISLIMIEEHYS-AQGLG   80 (165)
Q Consensus         6 v~is~~AY~KmiLHAaKYP--~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~Ls--PmlEvAL~qId~~~~-~~gl~   80 (165)
                      |.+.+.+..||.=|+.+-.  ...|.|+|||...+   +.+.|+||.|+=|....-.  --.|---.+++.+-+ ..+..
T Consensus         1 V~ihplvll~I~dh~~R~~~~~~~v~G~LlG~~~~---~~veV~nsF~lp~~~~~~~~~~d~~y~~~m~~~~~~v~~~~~   77 (157)
T cd08057           1 VQLHPLVLLNISDHYTRRKYGIKRVIGVLLGYVDG---DKIEVTNSFELPFDEEEESIFIDTEYLEKRYNLHKKVYPQEK   77 (157)
T ss_pred             CEEccHHHhhHHHHHHhccCCCCeEEEEEEeEEeC---CEEEEEEeEEccccCCCcchhhhHHHHHHHHHHHHHhCCCCC
Confidence            4788999999999998887  78999999998764   4899999999998643221  123333344444433 25689


Q ss_pred             EEEEEEeCCCCCCCCCCHHHHHHHHHHHhh-CCCcEEEEEeCcc
Q 031148           81 IVGYFHANERFDDLELDSIAKNIGNHICRY-FPQCAVLLLDNKK  123 (165)
Q Consensus        81 IvGYY~Ane~~~D~~~~~~a~kIadkI~~~-~~~a~ll~vDn~k  123 (165)
                      +||||+...... +.+......|-+.+... .++++++++|-.+
T Consensus        78 vVGWY~~~~~~~-~~~~~~~~~i~~~~~~~~~~~~v~L~~D~~~  120 (157)
T cd08057          78 IVGWYSIGSNNS-NEISKSDNSLHSQFSLISEENPLILILDPSL  120 (157)
T ss_pred             EEEEEeecCCCC-CCCChhHHHHHHHHHhccCCCCEEEEEcCCc
Confidence            999999875433 44666677777777775 6778999999755

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

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

Probab=98.73  E-value=1.3e-06  Score=71.72  Aligned_cols=111  Identities=22%  Similarity=0.300  Sum_probs=79.1

Q ss_pred             eEEeHHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCC----CCcchHHHHHHHHHHHHhhhCCceE
Q 031148            6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSH----LGLLPNLEISLIMIEEHYSAQGLGI   81 (165)
Q Consensus         6 v~is~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~----l~LsPmlEvAL~qId~~~~~~gl~I   81 (165)
                      |+||..|..||+.||-.-. ..|+|+|+|+...++ ..+.|+++.|.-=..    ....|.-|   ..+..++++.|+.+
T Consensus         7 V~Is~~all~m~~Ha~~~~-~EvcGlL~G~~d~~~-~~l~Vt~~~p~~~~~~~~~~e~dp~~q---~e~~~~l~~~gl~v   81 (187)
T cd08067           7 VTVSSNALLLMDFHCHLTT-SEVIGYLGGTWDPNT-QNLTILQAFPCRSRLTGLDCEMDPVSE---TEIRESLESRGLSV   81 (187)
T ss_pred             EEECHHHHHHHHHHhcCCC-cEEEEEEEeEEcCCC-CeEEEEEEEecCCCCCCcccccCHHHH---HHHHHHHHHcCCEE
Confidence            8999999999999999988 999999999854321 478999999975422    12344333   33456678899999


Q ss_pred             EEEEEeCCCCCCCCCCHHHHHHHHHHHhhCC-------CcEEEEEeCc
Q 031148           82 VGYFHANERFDDLELDSIAKNIGNHICRYFP-------QCAVLLLDNK  122 (165)
Q Consensus        82 vGYY~Ane~~~D~~~~~~a~kIadkI~~~~~-------~a~ll~vDn~  122 (165)
                      |||||+..... ..||..-..---.-+..++       -.+.+++|-.
T Consensus        82 VGwYHSHP~~~-~~pS~~Di~tQ~~yQ~~~~~~~~~~~p~v~~I~~P~  128 (187)
T cd08067          82 VGWYHSHPTFP-PNPSLRDIDTQLDYQIMFKGSDSGYEPCVGLICSPY  128 (187)
T ss_pred             EEEEecCCCCC-cCCCHHHHHHHHHHHhhccccccCCCCeEEEEEccc
Confidence            99999987666 6677754444444444444       3566677643

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

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

Probab=98.57  E-value=1.2e-06  Score=75.67  Aligned_cols=109  Identities=18%  Similarity=0.246  Sum_probs=79.9

Q ss_pred             eEEeHHhHHHHHhhhhcCC---CCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcch-H----HHHHHHHHHHHhhh-
Q 031148            6 YELSQNAYIKLVLHARKHK---TAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP-N----LEISLIMIEEHYSA-   76 (165)
Q Consensus         6 v~is~~AY~KmiLHAaKYP---~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsP-m----lEvAL~qId~~~~~-   76 (165)
                      |.+.+.+..||+=|..+.+   ...|.|+|||...+   ..++|+||.|+-|....-.+ .    .|-.-.+.+.+-+- 
T Consensus         3 V~ihplVLl~I~dh~~R~~~~~~~~ViG~LLG~~~~---~~veItnsF~~p~~~~~~~~~~~~~d~~y~~~m~~~~kkv~   79 (280)
T cd08062           3 VVVHPLVLLSVVDHYNRVAKGTSKRVVGVLLGSWKK---GVLDVTNSFAVPFEEDEKDPSVWFLDHNYLENMYGMFKKVN   79 (280)
T ss_pred             EEEehHHHHHHHHHHhhhcCCCCceEEEEEEEEEeC---CEEEEEEeeecCccCCCCCcchhhhhHHHHHHHHHHHHHhC
Confidence            7899999999999998875   45699999998765   48999999999886433333 1    23333444444332 


Q ss_pred             CCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCc
Q 031148           77 QGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNK  122 (165)
Q Consensus        77 ~gl~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~  122 (165)
                      .+..+||||+....++     +....|-+-+.+.+++++++++|-.
T Consensus        80 ~~e~vVGWY~tg~~~~-----~~d~~ih~~~~~~~~~pv~l~vd~~  120 (280)
T cd08062          80 AKEKIVGWYSTGPKLR-----PNDLDINELFRRYCPNPVLVIIDVR  120 (280)
T ss_pred             CCCCeEEEecCCCCCC-----cchHHHHHHHHHhCCCCEEEEEecC
Confidence            5699999999875543     3444666777778888999999943

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.

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

Probab=98.54  E-value=2e-06  Score=64.54  Aligned_cols=105  Identities=19%  Similarity=0.272  Sum_probs=71.6

Q ss_pred             hHHHHHhhhhcCCCCeeeEEEEeeeCCCC--CceeEEEeeeecccCCCCcchHHHHHHHHHHHHhhhCCceEEEEEEeCC
Q 031148           12 AYIKLVLHARKHKTAAVNGVLLGRVSPQN--DAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANE   89 (165)
Q Consensus        12 AY~KmiLHAaKYP~~aVnGlLLG~~~~~~--~~~v~I~DaVPLfH~~l~LsPmlEvAL~qId~~~~~~gl~IvGYY~Ane   89 (165)
                      |..||+-||.+-....++|+|+|+...+.  +..+.|+++.|.-..   -.| .|  ..+......+.|+.+||+||+..
T Consensus         2 ~~~~i~~ha~~~~p~E~cGlL~G~~~~~~~~~~~~~v~~~~p~~~~---~~~-~~--~~~~~~~~~~~g~~~vG~YHSHP   75 (119)
T cd08058           2 ALLKMLQHAESNTGIEVMGLLCGELTHNEFTDKHVIVPKQSAGPDS---CTG-EN--VEELFNVQTGRPLLVVGWYHSHP   75 (119)
T ss_pred             HHHHHHHHhcCCCCeEEEEEeeeEEecCccceeEEEEeecCCCCCC---chh-HH--HHHHHHHHhCCCCeEEEEEecCC
Confidence            67899999999877899999999754211  135788888886442   223 22  22333445789999999999986


Q ss_pred             CCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCcc
Q 031148           90 RFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKK  123 (165)
Q Consensus        90 ~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~k  123 (165)
                      ... ..||+.-.+.-..-+...|+++.+++|-.+
T Consensus        76 ~~~-~~pS~~Di~~~~~~q~~~p~~~~lI~s~~~  108 (119)
T cd08058          76 TFT-AWLSSVDIHTQASYQLMLPEAIAIVVSPKH  108 (119)
T ss_pred             CCC-CccCHHHHHHHHHHhccCCCeEEEEECcCC
Confidence            444 356665544333334456889999988755

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

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

Probab=98.44  E-value=2.5e-06  Score=72.52  Aligned_cols=109  Identities=20%  Similarity=0.204  Sum_probs=78.9

Q ss_pred             eEEeHHhHHHHHhhhhc--CCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcchH--HHHHHHHHHHHhh-hCCce
Q 031148            6 YELSQNAYIKLVLHARK--HKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPN--LEISLIMIEEHYS-AQGLG   80 (165)
Q Consensus         6 v~is~~AY~KmiLHAaK--YP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsPm--lEvAL~qId~~~~-~~gl~   80 (165)
                      |.+.+.+..||+=|.-+  .....|.|.|||...+   +.++|+||.|+=|....-...  .|-...+.+.+-+ ..+..
T Consensus         1 v~ihPlVll~I~dH~~R~~~~~~~V~G~LLG~~~~---~~veItnsF~~p~~~~~~~~~~d~~y~~~m~~~~kkv~~~~~   77 (265)
T cd08064           1 VRVHPVVLFSILDSYERRNEGQERVIGTLLGTRSE---GEVEITNCFAVPHNESEDQVAVDMEYHRTMYELHQKVNPKEV   77 (265)
T ss_pred             CEEccHHHHhHHHHHhhhcCCCcEEEEEEEEEEeC---CEEEEEeCeecceeCCCCeEEEcHHHHHHHHHHHHHhCCCCc
Confidence            46889999999999887  3347899999998765   489999999998854321111  2233444444432 36689


Q ss_pred             EEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCC--CcEEEEEeCc
Q 031148           81 IVGYFHANERFDDLELDSIAKNIGNHICRYFP--QCAVLLLDNK  122 (165)
Q Consensus        81 IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~--~a~ll~vDn~  122 (165)
                      +||||++..     .+++....|-+.+++..+  +++.+.+|-.
T Consensus        78 vVGWY~tg~-----~~~~~~~~Ih~~~~~~~~~~~pI~L~~D~~  116 (265)
T cd08064          78 IVGWYATGS-----EITEHSALIHDYYSRECTSYNPIHLTVDTS  116 (265)
T ss_pred             EEeeeeCCC-----CCCccHHHHHHHHHhhCCCCCCEEEEEeCC
Confidence            999999875     344456678888888777  8999888864

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=98.27  E-value=9.6e-06  Score=69.83  Aligned_cols=112  Identities=21%  Similarity=0.257  Sum_probs=82.2

Q ss_pred             eeEEeHHhHHHHHhhhhcCC------CCeeeEEEEeeeCCCCCceeEEEeeeecccCCCC---cchHHHHHHHHHHHHhh
Q 031148            5 KYELSQNAYIKLVLHARKHK------TAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLG---LLPNLEISLIMIEEHYS   75 (165)
Q Consensus         5 ~v~is~~AY~KmiLHAaKYP------~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~---LsPmlEvAL~qId~~~~   75 (165)
                      .|.+.+.+..+|.=|..+..      ...|.|.|||...+   +.++|++|.|+-|....   ...=.|---.+.+.+-+
T Consensus         2 ~V~lHPlVll~I~dH~~R~~~~~~~~~~~v~G~LLG~~~~---~~veItnsF~~p~~~~~~~~~~id~~y~~~m~~~~kk   78 (288)
T cd08063           2 SVKLHPLVILNISDHITRHRAQSQSEPPRVVGALLGQQDG---REIEIENSFELKYDTNEDGEIVLDKEFLETRLEQFKQ   78 (288)
T ss_pred             eEEEecceeeeHHhhHhHHhccCCCCCCcEEEEEEEEEcC---CEEEEEEEEecccccCCCCceeeCHHHHHHHHHHHHH
Confidence            37888999999999998842      36899999998654   48999999999985322   11113334444454433


Q ss_pred             -hCCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCcc
Q 031148           76 -AQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKK  123 (165)
Q Consensus        76 -~~gl~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~k  123 (165)
                       -.+..+||||+....    .+.+....|-+.+.+.+++++++++|-..
T Consensus        79 V~~~~~vVGWY~tg~~----~~~~~~~~Ih~~~~~~~~~pv~L~~D~~~  123 (288)
T cd08063          79 VFKDLDFVGWYTTGPG----GPTESDLPIHKQILEINESPVLLLLDPEA  123 (288)
T ss_pred             hccCCceEEEEecCCC----CCCHHHHHHHHHHHhhCCCcEEEEEcccc
Confidence             266999999998644    46677788888888888889999999544

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

>PLN03246 26S proteasome regulatory subunit; Provisional

Probab=98.18  E-value=3.2e-05  Score=67.80  Aligned_cols=108  Identities=17%  Similarity=0.207  Sum_probs=79.5

Q ss_pred             eEEeHHhHHHHHhhhhcCCC---CeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcch---H--HHHHHHHHHHHhh-h
Q 031148            6 YELSQNAYIKLVLHARKHKT---AAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP---N--LEISLIMIEEHYS-A   76 (165)
Q Consensus         6 v~is~~AY~KmiLHAaKYP~---~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsP---m--lEvAL~qId~~~~-~   76 (165)
                      |.+.+.+..+|+=|.-+...   ..|.|.|||...+   +.++|++|.|+-|..-.=.+   .  .|-...+.+.+-+ .
T Consensus         8 V~vhPlVll~I~dh~~R~~~~~~~rviG~LLG~~~~---~~ieItnsF~~p~~e~~~~~~~~~~D~~y~~~m~~~~k~V~   84 (303)
T PLN03246          8 VVVHPLVLLSIVDHYNRVAKDTRKRVVGVLLGSSFR---GRVDVTNSFAVPFEEDDKDPSIWFLDHNYLESMFGMFKRIN   84 (303)
T ss_pred             EEECcHHHHHHHHHHHhccCCCCCeeEEEEEeeecC---CEEEEEeccccCcccCCCCccceeecHHHHHHHHHHHHHhC
Confidence            88999999999999988774   4599999998754   48999999999885322111   1  2334455555443 2


Q ss_pred             CCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeC
Q 031148           77 QGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDN  121 (165)
Q Consensus        77 ~gl~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn  121 (165)
                      .+..+||||+....+     ++....|=+-+.+.+++++++++|-
T Consensus        85 ~~~~vVGWY~tg~~i-----~~~d~~IH~~~~~~~~~Pv~L~vD~  124 (303)
T PLN03246         85 AKEHVVGWYSTGPKL-----RENDLDIHELFNDYVPNPVLVIIDV  124 (303)
T ss_pred             CCCcEEeeecCCCCC-----CcchHHHHHHHHhhCCCCeEEEEec
Confidence            568999999976444     3445677778888899999999983

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

Probab=98.13  E-value=8.7e-05  Score=63.58  Aligned_cols=114  Identities=18%  Similarity=0.258  Sum_probs=76.1

Q ss_pred             eEEeHHhHHHHHhhhhcCCCCeeeEEEEeeeCC----CCCceeEEEeeeecccC-----CCCcchHHHH-HHHHHHHHhh
Q 031148            6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSP----QNDAVVEIADSVPLFHS-----HLGLLPNLEI-SLIMIEEHYS   75 (165)
Q Consensus         6 v~is~~AY~KmiLHAaKYP~~aVnGlLLG~~~~----~~~~~v~I~DaVPLfH~-----~l~LsPmlEv-AL~qId~~~~   75 (165)
                      |.|+..+|.||+.||..==-..|+|+|+|+...    ..+..+.+...+|+-..     ...+.|.-.. |..+++...+
T Consensus         4 V~Is~~~l~~il~HA~~~~P~EvCGLL~G~~~~~~~~~~~~~v~i~~~~~~~~~~~s~~r~eidPee~~~a~~ea~~~~~   83 (244)
T cd08068           4 VHLSADVYLVCLTHALSTEKEEVMGLLIGEIEVSKKGEEVAIVHISAVIILRRSDKRKDRVEISPEQLSAASTEAERLTE   83 (244)
T ss_pred             EEECHHHHHHHHHHHHhCCCcceeEEEEeecccccccccceeEEEeeeccccccCCCCceEEeCHHHHHHHHHHHHHHHh
Confidence            789999999999999986558999999998642    01135666677776432     2345676443 5556665444


Q ss_pred             h--CCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEe
Q 031148           76 A--QGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLD  120 (165)
Q Consensus        76 ~--~gl~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vD  120 (165)
                      .  .|+.+||+||...... ..||..-.+-...-+...|+.+-++++
T Consensus        84 ~~~rgl~vVGwYHSHP~~~-a~PS~~Dv~tq~~~q~~~p~~v~lIvS  129 (244)
T cd08068          84 ETGRPMRVVGWYHSHPHIT-VWPSHVDVRTQAMYQMMDSGFVGLIFS  129 (244)
T ss_pred             hccCCceEEEEEecCCCCC-CCCCHhHHHHHHHHHhhCCCcEEEEEE
Confidence            3  7899999999986555 357766555333333344676766664

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

>cd08066 MPN_AMSH_like Mov34/MPN/PAD-1 family

Probab=98.07  E-value=0.00012  Score=59.24  Aligned_cols=109  Identities=14%  Similarity=0.154  Sum_probs=76.7

Q ss_pred             eEEeHHhHHHHHhhhhcC-C-CCeeeEEEEeeeCCCCCceeEEEeee-ecccCCCC-cchHHHHHHHHHHHHhhhCCceE
Q 031148            6 YELSQNAYIKLVLHARKH-K-TAAVNGVLLGRVSPQNDAVVEIADSV-PLFHSHLG-LLPNLEISLIMIEEHYSAQGLGI   81 (165)
Q Consensus         6 v~is~~AY~KmiLHAaKY-P-~~aVnGlLLG~~~~~~~~~v~I~DaV-PLfH~~l~-LsPmlEvAL~qId~~~~~~gl~I   81 (165)
                      +.|+...|-|++-||-+- | -..|+|+|.|+..+   +...|++.+ |--...-. ..++=+   .++..+++..|+.+
T Consensus         4 l~Ipk~il~~~l~~A~~~~~~p~E~cGlL~G~~~~---~~~~I~~i~~~~q~~~~~~~~~~~~---~e~~~~~~~~gle~   77 (173)
T cd08066           4 VVVPADLMDKFLQLAEPNTSRNLETCGILCGKLSN---NAFFITHLIIPKQSGTSDSCQTTNE---EELFDFQDQHDLIT   77 (173)
T ss_pred             EEECHHHHHHHHHHHHhCCCCCCeEEEEEEeEcCC---CeEEEEEEEeccccCCCceecCCCH---HHHHHHHHhCCCee
Confidence            789999999999999875 3 47899999998644   255677663 32111110 111111   12445677899999


Q ss_pred             EEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeC
Q 031148           82 VGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDN  121 (165)
Q Consensus        82 vGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn  121 (165)
                      +|+||.... ....|++.-.+.-.+.....|+++.++++-
T Consensus        78 vGwyHSHP~-~~~~pS~~Dv~t~~~~~~~~p~~~~lIvSp  116 (173)
T cd08066          78 LGWIHTHPT-QTCFLSSVDLHTHCSYQLMLPEAIAIVCAP  116 (173)
T ss_pred             EEEEeccCC-CCCccCHHHHHHHHHHHhcCCCeEEEEECC
Confidence            999999644 345788888887777777889999999874

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

>KOG1554 consensus COP9 signalosome, subunit CSN5 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=97.67  E-value=0.00038  Score=61.66  Aligned_cols=111  Identities=19%  Similarity=0.329  Sum_probs=73.2

Q ss_pred             eEEeHHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcchHHHH-HHHHHHHH---hhhCC--c
Q 031148            6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEI-SLIMIEEH---YSAQG--L   79 (165)
Q Consensus         6 v~is~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsPmlEv-AL~qId~~---~~~~g--l   79 (165)
                      |.||..|..||+.||-.=-.-.|-|++.|+..++   +++|-||.-|=-.-+-...-.+. |.+-.-+|   |+.-|  .
T Consensus        55 vkISalAllKm~~hA~~GgnlEiMGlm~Gkv~g~---t~IvmD~FaLPVeGTETRVNAq~~AyEYmv~Y~e~~k~~gr~e  131 (347)
T KOG1554|consen   55 VKISALALLKMVMHARSGGNLEIMGLMQGKVDGD---TIIVMDSFALPVEGTETRVNAQAEAYEYMVQYIEEAKNVGRLE  131 (347)
T ss_pred             hhhHHHHHHHHHHHHhcCCCeEEEeeecccccCC---eEEEEeccccccccccceechHHHHHHHHHHHHHHHHHhhhhh
Confidence            7899999999999999999999999999997664   79999988553333333333322 33222222   33333  6


Q ss_pred             eEEEEEEeCCCCC--CCCCCHHHHHHHHHHHhhCCCc-EEEEEeCcc
Q 031148           80 GIVGYFHANERFD--DLELDSIAKNIGNHICRYFPQC-AVLLLDNKK  123 (165)
Q Consensus        80 ~IvGYY~Ane~~~--D~~~~~~a~kIadkI~~~~~~a-~ll~vDn~k  123 (165)
                      ..|||||.....+  =+..+--.++.-.|    |.+. +.++||..+
T Consensus       132 nvVGWyHSHPgYgCWLSgIDVsTQ~lNQ~----fQePfvAvViDP~R  174 (347)
T KOG1554|consen  132 NVVGWYHSHPGYGCWLSGIDVSTQMLNQR----FQEPFVAVVIDPTR  174 (347)
T ss_pred             ceeeeeecCCCCCccccCcchhHHHHhhh----hcCCeEEEEecCcc
Confidence            7999999987554  12333334444444    4443 567788754

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

Probab=97.46  E-value=0.0014  Score=49.49  Aligned_cols=85  Identities=15%  Similarity=0.267  Sum_probs=58.5

Q ss_pred             HhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeec--ccCC----CCcchHHHHHHHHHHHHhhhCCceEEEE
Q 031148           11 NAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPL--FHSH----LGLLPNLEISLIMIEEHYSAQGLGIVGY   84 (165)
Q Consensus        11 ~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPL--fH~~----l~LsPmlEvAL~qId~~~~~~gl~IvGY   84 (165)
                      ..+-+|+-||.+-.-..++|+|+|+....   ...|+|.+|+  .+..    ..+.|.   .+.++....+++|+.++|.
T Consensus         2 ~~~~~il~ha~~~~P~E~cGlL~G~~~~~---~~~i~~~~p~~n~~~~~~~~f~~d~~---~~~~~~~~~~~~g~~~vG~   75 (128)
T cd08070           2 ELLEAILAHAEAEYPEECCGLLLGKGGGV---TAIVTEVYPVRNVAESPRRRFEIDPA---EQLAAQREARERGLEVVGI   75 (128)
T ss_pred             HHHHHHHHHHHhCCCCceEEEEEeecCCC---CceEEEEEEccCCCCCCCceEEECHH---HHHHHHHHHHHCCCeEEEE
Confidence            35679999999966688999999986543   3456888887  2222    123442   3445667778899999999


Q ss_pred             EEeCCCCCCCCCCHHHHH
Q 031148           85 FHANERFDDLELDSIAKN  102 (165)
Q Consensus        85 Y~Ane~~~D~~~~~~a~k  102 (165)
                      ||...... ..||..-.+
T Consensus        76 ~HSHP~~~-~~PS~~D~~   92 (128)
T cd08070          76 YHSHPDGP-ARPSETDLR   92 (128)
T ss_pred             EeCCCCCC-CCCCHHHHH
Confidence            99986543 456654433

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.

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

Probab=96.83  E-value=0.013  Score=41.91  Aligned_cols=78  Identities=23%  Similarity=0.267  Sum_probs=51.8

Q ss_pred             HHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcchHHHHHHHHHHH-HhhhCCceEEEEEEeC
Q 031148           10 QNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEE-HYSAQGLGIVGYFHAN   88 (165)
Q Consensus        10 ~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsPmlEvAL~qId~-~~~~~gl~IvGYY~An   88 (165)
                      ++++.+|+-|+...+....+|+|+|+..+   +...+++.++       ..|--+.+   ... .....++.++|.||..
T Consensus         2 ~~~~~~i~~~~~~~~p~E~~G~L~g~~~~---~~~~~~~~~~-------~~p~~~~~---~~~~~~~~~~~~~vg~~HSH   68 (104)
T PF14464_consen    2 EEVLEQIIAHARAAYPNEACGLLLGRRDD---QRFIVVPNVN-------PDPRDSFR---RERFEARERGLEIVGIWHSH   68 (104)
T ss_dssp             -HHHHHHHHHHHHHTTS-EEEEEEEEEEC---CEEEEEEEEE---------HHCHHH---HHH-HHHHHT-EEEEEEEEE
T ss_pred             HHHHHHHHHHHhhCCCCeEEEEEEEEecC---CEEEEEeCCC-------CCcHHHHH---HHhhhhhcccceeeEEEEcC
Confidence            56889999999999999999999998733   4677888777       22322222   222 5677999999999997


Q ss_pred             CCCCCCCCCHHHH
Q 031148           89 ERFDDLELDSIAK  101 (165)
Q Consensus        89 e~~~D~~~~~~a~  101 (165)
                      ..... .||..-.
T Consensus        69 P~~~a-~pS~~D~   80 (104)
T PF14464_consen   69 PSGPA-FPSSTDI   80 (104)
T ss_dssp             SSSSS-S--HHHH
T ss_pred             CCCCC-CCCHHHH
Confidence            65442 5554433

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

Probab=95.62  E-value=0.092  Score=39.71  Aligned_cols=91  Identities=12%  Similarity=0.121  Sum_probs=54.5

Q ss_pred             EeHHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcch--HHHHHHHHHHHHhhhCCceEEEEE
Q 031148            8 LSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP--NLEISLIMIEEHYSAQGLGIVGYF   85 (165)
Q Consensus         8 is~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsP--mlEvAL~qId~~~~~~gl~IvGYY   85 (165)
                      |+...+-.|+-||.+-.-..++|+|+|+.+       .|++..|+==...+ .+  .+++       .....|+.|+|.|
T Consensus         1 i~~~~~~~i~~ha~~~~P~E~CGlL~G~~~-------~v~~~~~~~n~~~~-~~~~~f~~-------~~~~~g~~ivgi~   65 (117)
T cd08072           1 ISRDLLDSILEAAKSSHPNEFAALLRGKDG-------VITELLILPGTESG-EVSAVFPL-------LMLPLDMSIVGSV   65 (117)
T ss_pred             CCHHHHHHHHHHHhhcCCceEEEEEEeecc-------EEEEEEECCCCCCC-Ccceeech-------HHhcCCCeEEEEE
Confidence            456788899999996555788899999531       45666654211110 11  1111       1346899999999


Q ss_pred             EeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEE
Q 031148           86 HANERFDDLELDSIAKNIGNHICRYFPQCAVLLL  119 (165)
Q Consensus        86 ~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~v  119 (165)
                      |.... ....||+.-.+.+     ..++..-+.+
T Consensus        66 HSHP~-~~~~PS~~D~~~~-----~~~~~~~lIv   93 (117)
T cd08072          66 HSHPS-GSPRPSDADLSFF-----SKTGLVHIIV   93 (117)
T ss_pred             EcCCC-CCCCCCHHHHHhh-----hcCCCEEEEE
Confidence            99754 3345665543333     2355554443

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.

>KOG1556 consensus 26S proteasome regulatory complex, subunit RPN8/PSMD7 [Posttranslational modification, protein turnover, chaperones]

Probab=94.76  E-value=0.24  Score=43.60  Aligned_cols=109  Identities=22%  Similarity=0.348  Sum_probs=65.5

Q ss_pred             eEEeHHhHHHHHhhh---hcCCCCeeeEEEEeeeCCCCCceeEEEe--eeeccc------CCCCcchHHHHHHHHHHHHh
Q 031148            6 YELSQNAYIKLVLHA---RKHKTAAVNGVLLGRVSPQNDAVVEIAD--SVPLFH------SHLGLLPNLEISLIMIEEHY   74 (165)
Q Consensus         6 v~is~~AY~KmiLHA---aKYP~~aVnGlLLG~~~~~~~~~v~I~D--aVPLfH------~~l~LsPmlEvAL~qId~~~   74 (165)
                      |.+.+.-..-.+=|=   +|--...|-|+|||...+   +.+-|+.  |||.=-      .|.-=.-.+|--..+.-.- 
T Consensus        11 ViVhPLVLLS~VDhynR~~k~~~KRvvGvLLG~~~~---~~i~vtnSfAvpFeEDdk~~svWFlDh~Y~esM~~mfkKv-   86 (309)
T KOG1556|consen   11 VIVHPLVLLSAVDHYNRVGKDTNKRVVGVLLGSWNG---DVIDVTNSFAVPFEEDDKDKSVWFLDHNYIESMFGMFKKV-   86 (309)
T ss_pred             eeeehhHHHHHHHHHhhhccCcCceEEEEEEecCCC---CeEEeecceeccccccCCCCceEEeccHHHHHHHHHHHHh-
Confidence            334444444444442   344447899999997544   3677765  455410      0111122333322221111 


Q ss_pred             hhCCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccc
Q 031148           75 SAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKL  124 (165)
Q Consensus        75 ~~~gl~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~kl  124 (165)
                       ..+.+||||||.-.++..+.+     .|-+-+.+++|+.+++.||-+.=
T Consensus        87 -NakekivGWYhTGPkl~~nDl-----~In~l~k~y~pnpvLvIIdvkpk  130 (309)
T KOG1556|consen   87 -NAKEKVVGWYHTGPKLRENDL-----DINELLKRYVPNPVLVIIDVKPK  130 (309)
T ss_pred             -cchhheeeeeccCCccccchh-----hHHHHHhhcCCCceEEEEecccc
Confidence             245889999999887776655     58888999999999999997643

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

Probab=94.44  E-value=0.67  Score=35.21  Aligned_cols=88  Identities=15%  Similarity=0.161  Sum_probs=55.6

Q ss_pred             EEeHHhHHHHHhhhhcC-CCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcchHHHHHHHHHHHHhhhCCceEEEEE
Q 031148            7 ELSQNAYIKLVLHARKH-KTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYF   85 (165)
Q Consensus         7 ~is~~AY~KmiLHAaKY-P~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsPmlEvAL~qId~~~~~~gl~IvGYY   85 (165)
                      .++....-+|+-||.+- | ..+.|+|.|+..+.....+..++.-|..+.  ...|+....    ...+...|+.+||+|
T Consensus         3 ~i~~~~l~~il~~a~~~~p-~E~~g~l~~~~~~~~~~~~~n~~~~~~~~~--~~~~~~~~~----~~~~~~~g~~vvg~y   75 (134)
T COG1310           3 VIPKEVLGAILEHARREHP-REVCGLLAGTREGERYFPLKNVSVEPVEYF--EIDPEYSLF----YLAAEDAGEVVVGWY   75 (134)
T ss_pred             eecHHHHHHHHHHHHhcCC-hheEEEEEeecccceeeccccccCCcceeE--eeCHHHHHH----HHHHhhCCCEEEEEE
Confidence            57788888889998765 6 999999999854310012334444454433  345655442    444677899999999


Q ss_pred             EeCCCCCCCCCCHHHHH
Q 031148           86 HANERFDDLELDSIAKN  102 (165)
Q Consensus        86 ~Ane~~~D~~~~~~a~k  102 (165)
                      |...... ..||..-.+
T Consensus        76 HSHP~~~-~~pS~~D~~   91 (134)
T COG1310          76 HSHPGGP-PYPSEADRR   91 (134)
T ss_pred             cCCCCCC-CCcCHHHHh
Confidence            9875433 345544333

>TIGR02256 ICE_VC0181 integrative and conjugative element protein, VC0181 family

Probab=93.24  E-value=1.3  Score=34.79  Aligned_cols=92  Identities=17%  Similarity=0.159  Sum_probs=59.6

Q ss_pred             CeeeEEEEeeeCCCCCceeEEEeeeecccC----CCCcchHHHHHHHHHHHHhh-hCC-ceEEEEEEeCCCCCCCCCCHH
Q 031148           26 AAVNGVLLGRVSPQNDAVVEIADSVPLFHS----HLGLLPNLEISLIMIEEHYS-AQG-LGIVGYFHANERFDDLELDSI   99 (165)
Q Consensus        26 ~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~----~l~LsPmlEvAL~qId~~~~-~~g-l~IvGYY~Ane~~~D~~~~~~   99 (165)
                      ..-.|+|+|+..+   +.+.|+|+.+=-..    ....-+=-+-.-.+++++.+ ++| +.-+|-+|....... .||..
T Consensus        17 ~EtGGiLiG~~~~---~~~ii~~~t~P~p~d~~tr~~F~r~~~~~q~~i~~~~~~s~g~~~ylGeWHtHP~~~p-~PS~~   92 (131)
T TIGR02256        17 TETGGVLIGERRG---AHAVITKISEPGSGDIRTRKRFSRDGEHHQSEVDEHFEVSGGVDTYLGEWHTHPEDQP-EPSWT   92 (131)
T ss_pred             CccceEEEEEEcC---CcEEEEEEEcCCCCcccCceEEEeCcHHHHHHHHHHHHHhCCceEEEEecCcCCCCCC-CCCHH
Confidence            4789999998764   37888888842222    12223323333445666554 444 889999999766554 79999


Q ss_pred             HHHHHHHHHhhCCCcEEEEEeC
Q 031148          100 AKNIGNHICRYFPQCAVLLLDN  121 (165)
Q Consensus       100 a~kIadkI~~~~~~a~ll~vDn  121 (165)
                      -.+-..++.+.....+++.+-+
T Consensus        93 D~~~~~~~~~~~~~~l~iIvG~  114 (131)
T TIGR02256        93 DRRSWRTIIRSPEAMLLLIVGR  114 (131)
T ss_pred             HHHHHHHHHhCCCeeEEEEEcC
Confidence            9999999988754433333433

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.

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

Probab=92.89  E-value=1.2  Score=31.96  Aligned_cols=81  Identities=12%  Similarity=0.166  Sum_probs=53.8

Q ss_pred             HHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcchHHHHHHHHHHHHhhhCCceEEEEEEeCCCCC
Q 031148           13 YIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFD   92 (165)
Q Consensus        13 Y~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsPmlEvAL~qId~~~~~~gl~IvGYY~Ane~~~   92 (165)
                      |-.+.-|+.+-......|+|+|+..+      .+....++.=.....+|.-       +..+...|..+||.||.... .
T Consensus         3 ~~~i~~~~~~~~p~E~~gll~~~~~~------~~~~~~~~~~~~~~~~~~~-------~~~a~~~~~~~v~i~HsHP~-g   68 (101)
T cd08059           3 LKTILVHAKDAHPDEFCGFLSGSKDN------VMDELIFLPFVSGSVSAVI-------DLAALEIGMKVVGLVHSHPS-G   68 (101)
T ss_pred             HHHHHHHHHhcCChhhheeeecCCCC------eEEEEEeCCCcCCccChHH-------HHHHhhCCCcEEEEEecCcC-C
Confidence            44566777777456788999996321      3455566654444556653       55677899999999998754 4


Q ss_pred             CCCCCHHHHHHHHHH
Q 031148           93 DLELDSIAKNIGNHI  107 (165)
Q Consensus        93 D~~~~~~a~kIadkI  107 (165)
                      +..||..-.+.+.++
T Consensus        69 ~~~PS~~D~~~~~~~   83 (101)
T cd08059          69 SCRPSEADLSLFTRF   83 (101)
T ss_pred             CCCCCHHHHHHHHhc
Confidence            556777666655544

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.

>KOG1555 consensus 26S proteasome regulatory complex, subunit RPN11 [Posttranslational modification, protein turnover, chaperones]

Probab=92.88  E-value=0.4  Score=42.90  Aligned_cols=113  Identities=15%  Similarity=0.214  Sum_probs=68.3

Q ss_pred             eEEeHHhHHHHHhhh-hcCCCCeeeEEE-Eee---eCCCCCceeEEEe---eeecccCCCCcchHHHHHH-HHHHHHhhh
Q 031148            6 YELSQNAYIKLVLHA-RKHKTAAVNGVL-LGR---VSPQNDAVVEIAD---SVPLFHSHLGLLPNLEISL-IMIEEHYSA   76 (165)
Q Consensus         6 v~is~~AY~KmiLHA-aKYP~~aVnGlL-LG~---~~~~~~~~v~I~D---aVPLfH~~l~LsPmlEvAL-~qId~~~~~   76 (165)
                      +.++..|-.||..|+ ++=|...|.|++ +|+   --..  -++.++|   .-+-.=....+.|-+.-.. +|.....++
T Consensus        33 v~i~slall~m~rh~r~~~p~e~v~Glm~lg~~~~fv~~--~Tv~vv~v~am~~sg~~is~~~e~~d~V~q~q~~~~l~~  110 (316)
T KOG1555|consen   33 VYISSLALLKMLRHDRAGSPEETVMGLMSLGRLPEFVDD--YTVRVVDVFAMPQSGTGISKFVEAVDPVFQTQMMDLLKQ  110 (316)
T ss_pred             eeeehhhhhhcccccccCCchhhccceeecccccceeee--cceeeeeeeccccccceecccchhccHHHHHHHHHHHHh
Confidence            789999999999997 467777799999 993   2111  2333444   3222222111223333322 455555566


Q ss_pred             CC--ceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeC
Q 031148           77 QG--LGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDN  121 (165)
Q Consensus        77 ~g--l~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn  121 (165)
                      .|  +.+|||||....+. ..|+.+-..--..-+..++.++...+|-
T Consensus       111 tGrp~~VVGWYHSHP~f~-~wpS~vDi~tQ~syq~~~~r~~a~~v~~  156 (316)
T KOG1555|consen  111 TGRPELVVGWYHSHPGFG-CWPSLVDIDTQQSYQALSSRAVAVVVDP  156 (316)
T ss_pred             cCCcceEEeeccCCCCCC-CCccccchhHHHHHhhhccCCcceeeec
Confidence            66  55999999988777 3455444444444445577777777664

>KOG2975 consensus Translation initiation factor 3, subunit f (eIF-3f) [Translation, ribosomal structure and biogenesis]

Probab=92.87  E-value=0.71  Score=40.73  Aligned_cols=108  Identities=20%  Similarity=0.257  Sum_probs=78.5

Q ss_pred             eEEeHHhHHHHHhhhhcCCC--CeeeEEEEeeeCCCCCceeEEEeeeecccCCC--CcchHHHHHHHHHHHHhhh-CCce
Q 031148            6 YELSQNAYIKLVLHARKHKT--AAVNGVLLGRVSPQNDAVVEIADSVPLFHSHL--GLLPNLEISLIMIEEHYSA-QGLG   80 (165)
Q Consensus         6 v~is~~AY~KmiLHAaKYP~--~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l--~LsPmlEvAL~qId~~~~~-~gl~   80 (165)
                      +.+.+.-|.-++=|--+.|.  ..|.|-|||..+++   .|+|+.|.-.=|--.  .+.-=+|-|..+.|.+-+. .+-+
T Consensus        23 v~ihP~Vlf~ivD~~~RR~~~~~rviGTLLG~~~~g---~ieitNCFaVPhnEssdqvevdm~y~~~M~~l~~k~npnE~   99 (288)
T KOG2975|consen   23 VRLHPVVLFSIVDAYERRNKGAERVIGTLLGTVDKG---SVEVTNCFAVPHNESSDQVEVDMEYAKNMYELHKKVNPNEL   99 (288)
T ss_pred             EEEcceEEeEeehhhhcCCccchhhhhheeecccCC---eEEEEEeeeccCccccccceeeHHHHHHHHHHhcccCCCce
Confidence            44555555555555555555  56999999987754   899999876666533  3455567788888888764 5689


Q ss_pred             EEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeC
Q 031148           81 IVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDN  121 (165)
Q Consensus        81 IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn  121 (165)
                      |||||--.     .+++..+.-|-|-.++.+++.+.+.||-
T Consensus       100 vvGWyaTg-----~dvt~~sslihdyYare~~~pvhLtVDT  135 (288)
T KOG2975|consen  100 VVGWYATG-----HDVTEHSSLIHDYYAREAPNPVHLTVDT  135 (288)
T ss_pred             eEEEEecC-----CCcccchhHHHHHhhccCCCCeEEEEec
Confidence            99999854     2355566788888899999999999884

>KOG1560 consensus Translation initiation factor 3, subunit h (eIF-3h) [Translation, ribosomal structure and biogenesis]

Probab=85.39  E-value=9  Score=34.44  Aligned_cols=112  Identities=21%  Similarity=0.227  Sum_probs=72.0

Q ss_pred             eEEeHHhHHHHHhhhhcCCC--CeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcchHHHHH-----------HHHHHH
Q 031148            6 YELSQNAYIKLVLHARKHKT--AAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEIS-----------LIMIEE   72 (165)
Q Consensus         6 v~is~~AY~KmiLHAaKYP~--~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsPmlEvA-----------L~qId~   72 (165)
                      |++...--.||+-|+-.--+  ..+-|+|+|=.-+   +.++|+.|.|---. +   ||=+=|           ..|.+.
T Consensus        15 v~ldsLvVMkiiKHc~ee~~n~d~~~GvL~Glvvd---~~LeITncFp~p~~-~---~~edda~~~~~~de~rq~~~l~m   87 (339)
T KOG1560|consen   15 VELDSLVVMKIIKHCREEFPNGDGTQGVLLGLVVD---GRLEITNCFPFPSV-L---ENEDDAVNKSVSDEARQAYQLAM   87 (339)
T ss_pred             eeehhHHHHHHHHHHHhhcCCcchhhheeeeeeec---ceeEeecccCCCcc-C---CCccchhhhhhhHHHHHHHHHHH
Confidence            77888888999999875433  6899999996544   48999999996432 2   232222           111111


Q ss_pred             H--hh--hCCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccc
Q 031148           73 H--YS--AQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEA  126 (165)
Q Consensus        73 ~--~~--~~gl~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~kl~~  126 (165)
                      .  .+  .-..-+|||||...--  +.+++.--.-.=..+...|+.++++.|-.|=++
T Consensus        88 lrrlr~vnid~~hVGwYqs~~vg--s~lS~~lveSqy~YQ~a~pesVvliYD~~kssq  143 (339)
T KOG1560|consen   88 LRRLRYVNIDHLHVGWYQSAYVG--SFLSPALVESQYAYQKAIPESVVLIYDPIKSSQ  143 (339)
T ss_pred             HHHhhhcCccceeeeeeeeehhc--cccCHHHHHHHHHHHhcCCccEEEEeccccccC
Confidence            1  01  1346699999986433  245554333334456678899999999877543

>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=81.91  E-value=11  Score=28.01  Aligned_cols=70  Identities=16%  Similarity=0.193  Sum_probs=39.6

Q ss_pred             HHHHHhhh-hcCCCCeeeEEEEeeeCCCCCceeEEEeeeecc---c---CCCCcchHHHHHHHHHHHHhhhCCceEEEEE
Q 031148           13 YIKLVLHA-RKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLF---H---SHLGLLPNLEISLIMIEEHYSAQGLGIVGYF   85 (165)
Q Consensus        13 Y~KmiLHA-aKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLf---H---~~l~LsPmlEvAL~qId~~~~~~gl~IvGYY   85 (165)
                      +-.|+-|| ..|| ...+|+|+|+..        ++..+|+=   .   ....+.|.-.++.   +    +.+ .|+|.|
T Consensus         3 ~~~i~~ha~~~~P-~E~CGll~g~~~--------~~~~~p~~N~~~~p~~~F~idp~e~~~a---~----~~~-~ivgi~   65 (108)
T cd08073           3 EDAILAHAKAEYP-REACGLVVRKGR--------KLRYIPCRNIAADPEEHFEISPEDYAAA---E----DEG-EIVAVV   65 (108)
T ss_pred             HHHHHHHHhHCCC-CcceEEEEecCC--------ceEEEECccCCCCccceEEeCHHHHHHH---h----cCC-CEEEEE
Confidence            55788899 6777 556699999641        12235542   1   1123445433331   1    233 899999


Q ss_pred             EeCCCCCCCCCCHHH
Q 031148           86 HANERFDDLELDSIA  100 (165)
Q Consensus        86 ~Ane~~~D~~~~~~a  100 (165)
                      |.... ....||..-
T Consensus        66 HSHP~-~~a~PS~~D   79 (108)
T cd08073          66 HSHPD-GSPAPSEAD   79 (108)
T ss_pred             EcCCC-CCCCCCHHH
Confidence            99754 334566543

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.

>KOG3050 consensus COP9 signalosome, subunit CSN6 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=80.33  E-value=12  Score=33.01  Aligned_cols=95  Identities=22%  Similarity=0.282  Sum_probs=53.8

Q ss_pred             CCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcchHHHH----HHHHHHHHhhh--CCceEEEEEEeCCCCCCCCCCH
Q 031148           25 TAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEI----SLIMIEEHYSA--QGLGIVGYFHANERFDDLELDS   98 (165)
Q Consensus        25 ~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsPmlEv----AL~qId~~~~~--~gl~IvGYY~Ane~~~D~~~~~   98 (165)
                      -..|-|.|||++.+   ..|+|-...-|.-..   .-+.|+    =|.+=++.+++  ..+.++|||.+-+.     ++|
T Consensus        36 ~~~VyGaliG~Q~G---R~vEi~NSFeL~~d~---~~~~~~~dke~l~kk~eqykqVFpdl~vlGwYttG~d-----~t~  104 (299)
T KOG3050|consen   36 VKQVYGALIGKQRG---RNVEIMNSFELKMDT---EEDTETIDKEYLEKKEEQYKQVFPDLYVLGWYTTGSD-----PTP  104 (299)
T ss_pred             HHHhhhhheecccC---ceEEEeeeeEEEecc---hhhhhhccHHHHHHHHHHHHHhcccceEEEEeecCCC-----CCh
Confidence            34899999998754   589988887664331   112221    12222222222  77999999997532     244


Q ss_pred             HHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCC
Q 031148           99 IAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSP  135 (165)
Q Consensus        99 ~a~kIadkI~~~~~~a~ll~vDn~kl~~l~k~~~~~~  135 (165)
                      --..|-.++.+-....+.+.+     ..+.++.+..|
T Consensus       105 sd~~i~k~l~~i~esplflkL-----Np~t~~t~~~p  136 (299)
T KOG3050|consen  105 SDIHIHKQLMDINESPLFLKL-----NPATNHTDKDP  136 (299)
T ss_pred             hhhHHHHHHHhhhcCceEEEe-----cchhccccCCC
Confidence            445556666555455555543     44444555544

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	165
2o95_A	187	26S proteasome non-ATPase regulatory subunit 7; PS	99.76
4e0q_A	141	COP9 signalosome complex subunit 6; MPN (MPR1P and	99.07
4b4t_V	306	26S proteasome regulatory subunit RPN11; hydrolase	98.95
2znr_A	178	AMSH-like protease; metal binding protein, alterna	98.47
3rzv_A	211	STAM-binding protein; ubiquitin hydrolase, endosom	98.03
2kks_A	146	Uncharacterized protein; NESG, structural genomics	97.97
4b4t_U	338	RPN8, 26S proteasome regulatory subunit RPN8; hydr	97.94
2kcq_A	153	MOV34/MPN/PAD-1 family; NESG, structure, structura	97.9
1oi0_A	124	AF2198, hypothetical protein AF2198; proteasome, d	97.54

>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=99.76  E-value=3.7e-18  Score=135.38  Aligned_cols=111  Identities=20%  Similarity=0.254  Sum_probs=94.3

Q ss_pred             eEEeHHhHHHHHhhhhcCC----CCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcch---HH--HHHHHHHHHHhhh
Q 031148            6 YELSQNAYIKLVLHARKHK----TAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP---NL--EISLIMIEEHYSA   76 (165)
Q Consensus         6 v~is~~AY~KmiLHAaKYP----~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsP---ml--EvAL~qId~~~~~   76 (165)
                      |+|++.++.||+.|+.|+|    ...|+|+|||+..+   +.++|+||+|+.|......|   ++  |....+.|.+.+.
T Consensus        10 V~i~plvllkI~~H~~r~~~~~~~~~V~G~LLG~~~~---~~v~V~~~f~lp~~~~~~~~~~~~~d~ey~~~m~~~~~~v   86 (187)
T 2o95_A           10 VVVHPLVLLSVVDHFNRIGKVGNQKRVVGVLLGSWQK---KVLDVSNSFAVPFDEDDKDDSVWFLDHDYLENMYGMFKKV   86 (187)
T ss_dssp             EEECHHHHHHHHHHHHHHHHTTCCSCCEEEEEEEESS---SEEEEEEEEEECEEECSSCTTSEEECHHHHHHHHHHHHTT
T ss_pred             EEEchHHHHHHHHHHhhhcccCCCcEEEEEEEEEEcC---CEEEEEEEEEeCCcccCCCcchhhcCHHHHHHHHHHHHHh
Confidence            8999999999999999984    78999999998764   48999999999998766654   44  8888999998876


Q ss_pred             C-CceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccc
Q 031148           77 Q-GLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKL  124 (165)
Q Consensus        77 ~-gl~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~kl  124 (165)
                      + ++.||||||+++..++.     ...|.+.+++.++++++|++|+.+.
T Consensus        87 ~~~~~iVGWY~s~~~~s~~-----d~~i~~~~~~~~~~~v~Livd~~~~  130 (187)
T 2o95_A           87 NARERIVGWYHTGPKLHKN-----DIAINELMKRYCPNSVLVIIDVKPK  130 (187)
T ss_dssp             SSSCEEEEEEECCSSCCTT-----HHHHHHHHTTTCTTCEEEEECCCTT
T ss_pred             CCCCCEEEEEcCCCcCCcc-----cHHHHHHHHhcCCCCEEEEECCCCC
Confidence            6 89999999999877543     2347888899999999999999763

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

Probab=99.07  E-value=1.6e-09  Score=83.68  Aligned_cols=111  Identities=16%  Similarity=0.197  Sum_probs=83.1

Q ss_pred             eeEEeHHhHHHHHhhhhcC-----CCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCC--cchHHHHHHHHHHHHhhh-
Q 031148            5 KYELSQNAYIKLVLHARKH-----KTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLG--LLPNLEISLIMIEEHYSA-   76 (165)
Q Consensus         5 ~v~is~~AY~KmiLHAaKY-----P~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~--LsPmlEvAL~qId~~~~~-   76 (165)
                      .|.+++.+-.||+=|+.+-     ....|.|+|||+..+   ..++|+||.|+-|....  ...-.|-...+.|.+-+- 
T Consensus         7 ~V~ihplvll~I~dH~~R~~~~~g~~~~V~G~LLG~~~~---~~veV~nsF~~p~~~~~~~~~~d~~y~~~m~~~~k~v~   83 (141)
T 4e0q_A            7 TISLHPLVIMNISEHWTRFRAQHGEPRQVYGALIGKQKG---RNIEIMNSFELKTDVIGDETVINKDYYNKKEQQYKQVF   83 (141)
T ss_dssp             EEEECHHHHHHHHHHHHCC------CCEEEEEEEEEEET---TEEEEEEEEECCEEEETTEEEECHHHHHHHHHHHHHHS
T ss_pred             EEEEecHHHHHHHHHHhhhcccCCCCcEEEEEEEEEEeC---CEEEEEEEEEecccCCCCceeecHHHHHHHHHHHHHhC
Confidence            4899999999999999874     235799999998755   48999999999986321  233446667777776654 


Q ss_pred             CCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCcc
Q 031148           77 QGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKK  123 (165)
Q Consensus        77 ~gl~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~k  123 (165)
                      .+..|||||+....     +++....|-+.+++.+++++++++|-.+
T Consensus        84 ~~e~iVGWY~s~~~-----~~~~d~~i~~~~~~~~~~pV~L~~Dp~~  125 (141)
T 4e0q_A           84 SDLDFIGWYTTGDN-----PTADDIKIQRQIAAINECPIMLQLNPLS  125 (141)
T ss_dssp             TTCEEEEEEEEEC------------CHHHHHHHTTCCCEEEEESCSC
T ss_pred             CCccEEEEEeCCCC-----CCcchHHHHHHHHHHCCCCEEEEECCCc
Confidence            57999999998653     4444457888888999999999999765

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

Probab=98.95  E-value=5.7e-09  Score=89.42  Aligned_cols=112  Identities=19%  Similarity=0.294  Sum_probs=84.7

Q ss_pred             eEEeHHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCC-----cchHHHHHHHHHHHHhhh--CC
Q 031148            6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLG-----LLPNLEISLIMIEEHYSA--QG   78 (165)
Q Consensus         6 v~is~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~-----LsPmlEvAL~qId~~~~~--~g   78 (165)
                      |.||+.|..||+.||..-....|.|+|+|+..++  ..+.|+||.|+=|....     ..+..+.   ......++  .+
T Consensus        27 V~is~lallkm~~Ha~~~~~~eV~GlLlG~~~~~--~~v~Vt~~f~~P~~~~~~~v~~~d~~y~~---~m~~~~~~v~~~  101 (306)
T 4b4t_V           27 VYISSIALLKMLKHGRAGVPMEVMGLMLGEFVDD--YTVNVVDVFAMPQSGTGVSVEAVDDVFQA---KMMDMLKQTGRD  101 (306)
T ss_dssp             EEECHHHHHHHHHHTCSCSSSCCEEEEEEEEETT--TEEEEEEEECCCCEESSSCEECCCHHHHH---HHHHHHHHHSCC
T ss_pred             EEEeHHHHHHHHHHhcCCCCceEEEEEeeEEcCC--eEEEEEEEEeCCcCCCCCchhcCCHHHHH---HHHHHHHHhCCC
Confidence            8999999999999998877789999999985444  47999999999665332     2332221   12223333  45


Q ss_pred             ceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCcc
Q 031148           79 LGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKK  123 (165)
Q Consensus        79 l~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~k  123 (165)
                      ..+|||||....+. .-|+..-.......+...+.++.|++|-.+
T Consensus       102 ~~vVGWYhShP~~~-~~~S~~Di~tq~~yQ~~~~~~V~lV~Dp~~  145 (306)
T 4b4t_V          102 QMVVGWYHSHPGFG-CWLSSVDVNTQKSFEQLNSRAVAVVVDPIQ  145 (306)
T ss_dssp             CCCSEEEEECCSSS-CCCCHHHHHHHHHHHHHCSSCEEEEECSSS
T ss_pred             cceeeEEecCCCCC-CcCCHHHHHHHHHHHhcCCCcEEEEECCCc
Confidence            88999999987665 357888777777778889999999999754

>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=98.47  E-value=1.1e-06  Score=69.88  Aligned_cols=111  Identities=14%  Similarity=0.087  Sum_probs=81.1

Q ss_pred             eEEeHHhHHHHHhhhhc-CCC-CeeeEEEEeeeCCCCCceeEEEeeeecccCCC--CcchHHHHHHHHHHHHhhhCCceE
Q 031148            6 YELSQNAYIKLVLHARK-HKT-AAVNGVLLGRVSPQNDAVVEIADSVPLFHSHL--GLLPNLEISLIMIEEHYSAQGLGI   81 (165)
Q Consensus         6 v~is~~AY~KmiLHAaK-YP~-~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l--~LsPmlEvAL~qId~~~~~~gl~I   81 (165)
                      +.|+...+.||+-||-. +|. ..|+|+|+|+..++   ...|++++|+=-...  ....+-+.  .+ -++....|+.+
T Consensus        11 v~i~~~~l~k~l~hA~~~~~~~~EvcGlL~G~~~~~---~~~V~~v~~~pq~~t~~~~~~~~~~--e~-~~~~~~~~l~~   84 (178)
T 2znr_A           11 VVLPEDLCHKFLQLAESNTVRGIETCGILCGKLTHN---EFTITHVIVPKQSAGPDYCDMENVE--EL-FNVQDQHDLLT   84 (178)
T ss_dssp             EEEETTHHHHHHHHHHHHHTTTCCCEEEEEEEEETT---EEEEEEEEECCEEEETTEEEECCHH--HH-HHHHHHHTCEE
T ss_pred             EEECHHHHHHHHHHHHhCCCCCceEEEEEeeEecCC---CeEEEEEEeCCcCCCCCeeccCCHH--HH-HHHHHhCCCEE
Confidence            88999999999999986 575 78889999987543   678899987632111  11001011  11 12356789999


Q ss_pred             EEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCcc
Q 031148           82 VGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKK  123 (165)
Q Consensus        82 vGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~k  123 (165)
                      |||||...... ..||+.-.....+.+...++++.+++|-.+
T Consensus        85 vGwyHSHP~~~-~~pS~~Dv~tq~~yq~~~~~~v~iIvsp~~  125 (178)
T 2znr_A           85 LGWIHTHPTQT-AFLSSVDLHTHCSYQLMLPEAIAIVCSPKH  125 (178)
T ss_dssp             EEEEEECSSSC-SCCCHHHHHHHHHHHHHCTTCEEEEEEGGG
T ss_pred             EEEEeCCCCCC-CCCCHHHHHHHHHHHhhcCCEEEEEEcCCC
Confidence            99999976444 578988888888888889999999988654

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

Probab=98.03  E-value=2.5e-05  Score=64.17  Aligned_cols=108  Identities=16%  Similarity=0.145  Sum_probs=79.6

Q ss_pred             eEEeHHhHHHHHhhhhcC-CC-CeeeEEEEeeeCCCCCceeEEEeeeecccCCCC----cchHHHHHHHHHHHHhhhCCc
Q 031148            6 YELSQNAYIKLVLHARKH-KT-AAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLG----LLPNLEISLIMIEEHYSAQGL   79 (165)
Q Consensus         6 v~is~~AY~KmiLHAaKY-P~-~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~----LsPmlEvAL~qId~~~~~~gl   79 (165)
                      |.|+...+-|++-||-.. |. ..|+|+|.|+..+   +..+|++++...-....    +....|    +. .|....++
T Consensus        44 v~Ipk~ll~kfL~~A~~~tp~~~EvcGlL~Gk~~~---~~~~I~~v~~ppq~gt~~~v~~~~~~e----~~-~~~~~~~l  115 (211)
T 3rzv_A           44 VVVPGRLCPQFLQLASANTARGVATCGILCGKLMR---NEFTITHVLIPKQSAGSDYCNTENEEE----LF-LIQDQQGL  115 (211)
T ss_dssp             EEEETTHHHHHHHHHHHHHHTTCCCEEEEEEEEET---TEEEEEEEEECCEEECSSCEEECCHHH----HH-HHHHHHTC
T ss_pred             EEECHHHHHHHHHHHHhCCCCCceEEEEEEeEcCC---CCEEEEEEEeCCccCCCCceeccChHH----HH-HHHhhCCC
Confidence            889999999999999884 53 6888999998754   37888999854322111    111111    11 23345899


Q ss_pred             eEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCc
Q 031148           80 GIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNK  122 (165)
Q Consensus        80 ~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~  122 (165)
                      .+|||||..... ...|++.-.....+.+...+..+.|++|-.
T Consensus       116 ~~vGWyHSHP~~-~~~pS~~Dl~tq~~~q~~~~~~I~IVvsP~  157 (211)
T 3rzv_A          116 ITLGWIHTHPTQ-TAFLSSVDLHTHCSYQMMLPESVAIVCSPK  157 (211)
T ss_dssp             EEEEEEEECTTS-CSCCCHHHHHHHHHHHHHCTTCEEEEEETT
T ss_pred             EEEEEEeCCCCC-CCCCCHHHHHHHHHHHhcCCCeEEEEEcCC
Confidence            999999986533 357999998999999999999999998854

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

Probab=97.97  E-value=8.1e-05  Score=56.50  Aligned_cols=102  Identities=19%  Similarity=0.300  Sum_probs=70.4

Q ss_pred             eEEeHHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccC-----CCCcchHHHHHHHHHHHHhhhCCce
Q 031148            6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHS-----HLGLLPNLEISLIMIEEHYSAQGLG   80 (165)
Q Consensus         6 v~is~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~-----~l~LsPmlEvAL~qId~~~~~~gl~   80 (165)
                      +.|+..++.+|+-||.+-....++|+|+|+..++   ...|+|++|+=-.     .....|-   .+..+..++++.|+.
T Consensus         2 l~i~~~~l~~i~~ha~~~~p~E~cGlL~G~~~~~---~~~v~~~~p~~n~~~~~~~f~~dp~---~~~~~~~~~~~~g~~   75 (146)
T 2kks_A            2 ITLTKKQMEEMLAHARQALPNEACGLLGGRRDGD---DRWVERVYPLNNLDQSPEHFSMDPR---EQLTAVKDMRKNGWV   75 (146)
T ss_dssp             EEEEHHHHHHHHHHHHHHTTSCEEEEEEEEEETT---EEEEEEEECCCCCSCCSSSCCCCHH---HHHHHHHHHHHHTCE
T ss_pred             EEECHHHHHHHHHHHHhcCCcceEEEEEEEEcCC---CcEEEEEEECCCcCCCCceEEECHH---HHHHHHHHHHHCCCE
Confidence            6899999999999999844479999999987543   5788999998411     1233443   333445566778999


Q ss_pred             EEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEE
Q 031148           81 IVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLL  119 (165)
Q Consensus        81 IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~v  119 (165)
                      +||+||...... ..||..-.+.+     ..++...+.+
T Consensus        76 ivG~~HSHP~~~-~~PS~~D~~~~-----~~~~~~~lIv  108 (146)
T 2kks_A           76 MLGNFHSHPATP-ARPSAEDKRLA-----FDPSLSYLII  108 (146)
T ss_dssp             EEEEEEEESSSC-SSCCHHHHTTC-----CSSSCEEEEE
T ss_pred             EEEEEeCCCcCC-CCCCHHHHHhh-----hcCCCeEEEE
Confidence            999999986543 45776554432     2355555544

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

Probab=97.94  E-value=0.0001  Score=63.52  Aligned_cols=108  Identities=15%  Similarity=0.221  Sum_probs=75.0

Q ss_pred             eEEeHHhHHHHHhhhhc-CC--CCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcch-----HHHHHHHHHHHHhh-h
Q 031148            6 YELSQNAYIKLVLHARK-HK--TAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP-----NLEISLIMIEEHYS-A   76 (165)
Q Consensus         6 v~is~~AY~KmiLHAaK-YP--~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsP-----mlEvAL~qId~~~~-~   76 (165)
                      |.+.+.+..+|.=|..+ .+  ...|.|.|||...+   ..++|+||.|+-|....-.+     =.+-.-.+.+.+-+ .
T Consensus         8 V~vhPlVll~I~dH~~R~~~~~~~rViG~LLG~~~~---~~veV~nsF~~p~~e~~~~~~~~~~D~~y~~~m~~~~kkV~   84 (338)
T 4b4t_U            8 VTIAPLVLLSALDHYERTQTKENKRCVGVILGDANS---STIRVTNSFALPFEEDEKNSDVWFLDHNYIENMNEMCKKIN   84 (338)
T ss_dssp             EEECHHHHHHHHHHHHHHTTTCCSCCEEEEEEEECS---SEEEEEEEEECCEEECSSSTTCEEECHHHHHHHHHHHHHHC
T ss_pred             EEEecHHHHHHHHHHHHhhcCCCCeEEEEEEeEEcC---CEEEEEEEEEeccccCCCCCccccccHHHHHHHHHHHhhcC
Confidence            89999999999999765 22  34799999998754   48999999999875432211     11223333343332 2


Q ss_pred             CCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCC-CcEEEEEeC
Q 031148           77 QGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFP-QCAVLLLDN  121 (165)
Q Consensus        77 ~gl~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~-~a~ll~vDn  121 (165)
                      .+..|||||+...     .+++....|-+-+.+.++ +++++++|-
T Consensus        85 ~~e~iVGWY~tg~-----~~~~~d~~Ih~~~~~~~~~~pi~l~~d~  125 (338)
T 4b4t_U           85 AKEKLIGWYHSGP-----KLRASDLKINELFKKYTQNNPLLLIVDV  125 (338)
T ss_dssp             CSCEEEEEEECCS-----SCCSTHHHHHHHHGGGCCSCCCEEEECS
T ss_pred             ccCCEEEEEecCC-----CCCccHHHHHHHHHhccCCCcEEEEecC
Confidence            6799999999753     345556678888888775 677777764

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

Probab=97.90  E-value=4.1e-05  Score=58.59  Aligned_cols=103  Identities=16%  Similarity=0.231  Sum_probs=70.1

Q ss_pred             eEEeHHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccC-------CCCcchHHHHHHHHHHHHhhhCC
Q 031148            6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHS-------HLGLLPNLEISLIMIEEHYSAQG   78 (165)
Q Consensus         6 v~is~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~-------~l~LsPmlEvAL~qId~~~~~~g   78 (165)
                      +.|+..++.||+-||.+---..++|+|+|+...+  ..+.|+|.+|+-=.       ...+.|.   -+..++.++++.|
T Consensus         1 l~i~~~~l~~i~~ha~~~~p~E~cGlL~G~~~~~--~~~~v~~~~p~~n~~~~~~~~~f~~dp~---~~~~~~~~~~~~g   75 (153)
T 2kcq_A            1 MKTTPDILDQIRVHGADAYPEEGCGFLLGTVTDD--GDNRVAALHRATNRRSEQRTRRYELTAD---DYRAADAAAQEQG   75 (153)
T ss_dssp             CBCCHHHHHHHHHHHHHHTTSCCCEEEEEEECTT--SCEEEEEEEESSCCCCCCCSCCSSCCCC---SHHHHHHHHHHHT
T ss_pred             CEeCHHHHHHHHHHHHhcCCcceEEEEEEeeccC--CCeEEEEEEECCCCCCCCCCcEEEECHH---HHHHHHHHHHHCC
Confidence            3689999999999999853479999999987522  36889999999532       1223443   2334455667789


Q ss_pred             ceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEE
Q 031148           79 LGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLL  119 (165)
Q Consensus        79 l~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~v  119 (165)
                      +.+||+||...... ..||..-.+-+     ..++...+++
T Consensus        76 ~~ivG~yHSHP~~~-~~PS~~D~~~~-----~~~~~~~lIv  110 (153)
T 2kcq_A           76 LDVVGVYHSHPDHP-ARPSATDLEEA-----TFPGFTYVIV  110 (153)
T ss_dssp             CEEEEEEEECSSSS-SSCCHHHHHTC-----CCTTSEEEEE
T ss_pred             CeEEEEEeCCCCCC-CCCCHHHHHhh-----hcCCCeEEEE
Confidence            99999999987543 46776543322     2255555444

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

Probab=97.54  E-value=0.00092  Score=49.31  Aligned_cols=98  Identities=11%  Similarity=0.034  Sum_probs=62.9

Q ss_pred             CcceeEEeHHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcchHHHHHHHHHHHHhhhCCceE
Q 031148            2 GELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGI   81 (165)
Q Consensus         2 ~~M~v~is~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsPmlEvAL~qId~~~~~~gl~I   81 (165)
                      |+| +.|+..++.+|+-||.+---..++|+|+|+.       -.|+|.+|+= .. .-.|-.+.-.     .....|+.+
T Consensus         1 ~~~-v~i~~~~l~~i~~ha~~~~P~E~cGlL~g~~-------~~v~~~~~~p-~~-~~~~~~~f~~-----~~~~~~~~i   65 (124)
T 1oi0_A            1 GSS-MKISRGLLKTILEAAKSAHPDEFIALLSGSK-------DVMDELIFLP-FV-SGSVSAVIHL-----DMLPIGMKV   65 (124)
T ss_dssp             CCS-CEECHHHHHHHHHHHHHHTTSCCEEEEEEST-------TEECEEEECC-CC-C------------------CCCEE
T ss_pred             CCE-EEEcHHHHHHHHHHHHhcCCCeeEEEEeccc-------CEEEEEEECC-CC-CCCcCceeee-----eeccCCCEE
Confidence            466 8899999999999997654469999999963       1678888876 32 2222111111     234588999


Q ss_pred             EEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEe
Q 031148           82 VGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLD  120 (165)
Q Consensus        82 vGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vD  120 (165)
                      +|.||..... ...||..-.+-+.     .++...+.+.
T Consensus        66 vG~~HSHP~~-~~~PS~~D~~~~~-----~~~~~~lIvs   98 (124)
T 1oi0_A           66 FGTVHSHPSP-SCRPSEEDLSLFT-----RFGKYHIIVC   98 (124)
T ss_dssp             EEEEEEESSS-CCSCCHHHHHHHH-----HSCSEEEEEE
T ss_pred             EEEEEECcCC-CCccCHHHHHhhh-----cCCCEEEEEE
Confidence            9999998653 3567766655544     2566665554

---

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	165
d1oi0a_	121	Hypothetical protein AF2198 {Archaeon Archaeoglobu	95.81

>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=95.81  E-value=0.025  Score=40.17  Aligned_cols=85  Identities=11%  Similarity=0.064  Sum_probs=52.8

Q ss_pred             eEEeHHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcchHHHHHHHHHHHHhhhCCceEEEEE
Q 031148            6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYF   85 (165)
Q Consensus         6 v~is~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsPmlEvAL~qId~~~~~~gl~IvGYY   85 (165)
                      ++|+...+-+|+-||.+-.-..++|+|+|+..       .+++.+|+=-..  -.|...     .+....+.|+.|+|.|
T Consensus         4 l~I~~~~l~~i~~hA~~~~P~E~cGlL~G~~~-------~i~~~~~~~n~~--~~~~~~-----~~~~~~~~~~~ivgi~   69 (121)
T d1oi0a_           4 MKISRGLLKTILEAAKSAHPDEFIALLSGSKD-------VMDELIFLPFVS--GSVSAV-----IHLDMLPIGMKVFGTV   69 (121)
T ss_dssp             CEECHHHHHHHHHHHHHHTTSCCEEEEEESTT-------EECEEEECCCCC--------------------CCCEEEEEE
T ss_pred             EEECHHHHHHHHHHHHhcCCceeEEEEEecCC-------cEEEEEEcCCCC--CCcccc-----cccchhhcCCeEEEEE
Confidence            79999999999999988655799999999631       345555553221  122111     1222356799999999


Q ss_pred             EeCCCCCCCCCCHHHHHHHH
Q 031148           86 HANERFDDLELDSIAKNIGN  105 (165)
Q Consensus        86 ~Ane~~~D~~~~~~a~kIad  105 (165)
                      |....- +..||..-.+.+.
T Consensus        70 HSHP~~-~a~PS~~D~~~~~   88 (121)
T d1oi0a_          70 HSHPSP-SCRPSEEDLSLFT   88 (121)
T ss_dssp             EEESSS-CCSCCHHHHHHHH
T ss_pred             EecCCC-CCCcCHHHHHhhh
Confidence            997643 4567776555443