Citrus Sinensis ID: 028839

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200---
Protein Sequence
MGELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISSEKWQDVVDFDDHLDDISKDWLNPDLFK
Secondary Structure (PSIPRED)
cccEEEEEcHHHHHHHHHHHHccccccccEEEEEEEccccccEEEEEEcEEcccccccccHHHHHHHHHHHHHHHHcccEEEEEEEEccccccccccHHHHHHHHHHHHHccccEEEEEEccccccccccccccccEEEEEEcccccEEEcccccccccccccccHHHHHHHHHHcccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccEEEEEcHHHHHHHHHHHHccccccEEEEEEEEcccccccEEEEEEccHHHHcccccHHHHHHHHHHHHHHHHHcccEEEEEEEcccccccccccHHHHHHHHHHHHHccccEEEEEEcccccccccccccccEEEEEEEcccccEEEEccccccEEccccHHHHHHHHHHHHcccHcHccccHHHcccccHccccccHcc
Coil and Loop (DISEMBL)
MGELKYELSQNAYIKLVLHARKHKTAAVNGVLlgrvspqndavVEIADsvplfhshlgllpnlEISLIMIEEHYsaqglgivgyfhanerfddlelDSIAKNIGNHICRYFPQCAVLLLDnkklealpkgkdrspvMQLYIRDASknwklvgsdggcqlltkepaANVVLMDYissekwqdvvdfddhlddiskdwlnpdlfk
Flexible Loop (DISEMBL)
mgelkyelSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLealpkgkdrspvMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISSEKWQDVVDFDDHLDDiskdwlnpdlfk
Low Complexity Region (SEG)
MGELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISSEKWQdvvdfddhlddISKDWLNPDLFK
Disordered region (IsUnstruct)
*******LSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALP******PVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISSEKWQDVVDFDDHLDDISKDWL******
Disordered Region (DISOPRED)
****KYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSP**DAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISSEKWQDVVDFDDHLDDISKDWLNPDLF*
Disordered Region (DISEMBL)
MGELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISSEKWQDVVDFDDHLDDISKDWLNPDLFK
Disordered Region (DISPRO)
*GELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISSEKWQDVVDFDDHLDDISKDWLNPDL**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISSEKWQDVVDFDDHLDDISKDWLNPDLFK
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	203	2.2.26 [Sep-21-2011]
Q9FG71	208	ER membrane protein compl	yes	no	0.990	0.966	0.781	6e-91
Q5U1W7	206	ER membrane protein compl	yes	no	0.940	0.927	0.353	1e-24
Q9DB76	206	ER membrane protein compl	yes	no	0.940	0.927	0.353	1e-24
Q9Y3B6	208	ER membrane protein compl	yes	no	0.940	0.918	0.343	1e-23
Q5FVL2	207	ER membrane protein compl	no	no	0.935	0.917	0.308	2e-22
O70378	207	ER membrane protein compl	no	no	0.935	0.917	0.308	2e-22
O43402	210	ER membrane protein compl	no	no	0.935	0.904	0.299	1e-21
Q32KL5	210	ER membrane protein compl	no	no	0.935	0.904	0.299	5e-21
Q9W1Y1	203	ER membrane protein compl	yes	no	0.866	0.866	0.334	7e-20
Q55FM0	192	ER membrane protein compl	yes	no	0.876	0.927	0.275	2e-13

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

 Score =  333 bits (853), Expect = 6e-91,   Method: Compositional matrix adjust.
 Identities = 157/201 (78%), Positives = 182/201 (90%)

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 KKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISSEKWQD 181
           KKLEAL KGK+RSPVMQL ++DASKNW++VG+DGG +LL KEP+ANVVL DYISSEKW+D
Sbjct: 127 KKLEALSKGKERSPVMQLCVKDASKNWRVVGADGGSKLLLKEPSANVVLSDYISSEKWKD 186

Query: 182 VVDFDDHLDDISKDWLNPDLF 202
           V D DDHLDD++KDWLNP LF
Sbjct: 187 VTDVDDHLDDVTKDWLNPGLF 207

Arabidopsis thaliana (taxid: 3702)

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

 Score =  112 bits (281), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 71/201 (35%), Positives = 105/201 (52%), Gaps = 10/201 (4%)

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 NKKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISSEKWQ 180
           NKKL   P+     PV+ L     ++  + V  D    +      +  ++   +     Q
Sbjct: 118 NKKLVTWPR---VPPVIVL----ENQGLQWVPKDKNLVMWRDWEESRQMVGALLEGRAHQ 170

Query: 181 DVVDFDDHLDDISKDWLNPDL 201
            +VDFD HLDDI +DW N  L
Sbjct: 171 HLVDFDCHLDDIRQDWTNQRL 191

Rattus norvegicus (taxid: 10116)

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

 Score =  112 bits (280), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 71/201 (35%), Positives = 106/201 (52%), Gaps = 10/201 (4%)

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 NKKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISSEKWQ 180
           NKKL   P+     PV+ L     ++  + V  D    +      +  ++   +     Q
Sbjct: 118 NKKLVTRPR---VPPVIVL----ENQGLQWVPKDKNLVMWRDWEESRQMVGALLEGRAHQ 170

Query: 181 DVVDFDDHLDDISKDWLNPDL 201
            +VDFD HLDDI +DW N  L
Sbjct: 171 HLVDFDCHLDDIRQDWTNQRL 191

Mus musculus (taxid: 10090)

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

 Score =  109 bits (273), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 69/201 (34%), Positives = 107/201 (53%), Gaps = 10/201 (4%)

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 NKKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISSEKWQ 180
           N+KL   P+     PV+ L     ++  + V  D    +      +  ++   +     Q
Sbjct: 118 NQKLVPQPR---VPPVIVL----ENQGLRWVPKDKNLVMWRDWEESRQMVGALLEDRAHQ 170

Query: 181 DVVDFDDHLDDISKDWLNPDL 201
            +VDFD HLDDI +DW N  L
Sbjct: 171 HLVDFDCHLDDIRQDWTNQRL 191

Homo sapiens (taxid: 9606)

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

 Score =  105 bits (263), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 63/204 (30%), Positives = 101/204 (49%), Gaps = 14/204 (6%)

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 DNKKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISSEKW 179
           DN K          +P + +Y +  ++ W+    D         P A  +    + S  +
Sbjct: 125 DNAKFTM----DCAAPTIHVYEQHENR-WRC--RDPHHDYCEDWPEAQRISASLLDSRSY 177

Query: 180 QDVVDFDDHLDDISKDWLNPDLFK 203
           + +VDFD+HLDDI  DW NP++ K
Sbjct: 178 ETLVDFDNHLDDIRSDWTNPEINK 201

Rattus norvegicus (taxid: 10116)

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

 Score =  105 bits (263), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 63/204 (30%), Positives = 102/204 (50%), Gaps = 14/204 (6%)

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 DNKKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISSEKW 179
           DN K          +P + +Y +  ++ W+    D         P A  +    + S  +
Sbjct: 125 DNAKFTM----DCAAPTIHVYEQHENR-WRC--RDPHHDYCEDWPEAQRISASLLDSRSY 177

Query: 180 QDVVDFDDHLDDISKDWLNPDLFK 203
           + +VDFD+HLDDI  DW NP++ K
Sbjct: 178 ETLVDFDNHLDDIRSDWTNPEINK 201

Mus musculus (taxid: 10090)

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

 Score =  103 bits (256), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 62/207 (29%), Positives = 101/207 (48%), Gaps = 17/207 (8%)

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 LLLDNKKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISS 176
           +++DN K          +P + +Y    ++ W+    D         P A  +    + S
Sbjct: 125 IMVDNTKFTM----DCVAPTIHVYEHHENR-WRC--RDPHHDYCEDWPEAQRISASLLDS 177

Query: 177 EKWQDVVDFDDHLDDISKDWLNPDLFK 203
             ++ +VDFD+HLDDI  DW NP++ K
Sbjct: 178 RSYETLVDFDNHLDDIRNDWTNPEINK 204

Homo sapiens (taxid: 9606)

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

 Score =  100 bits (250), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 62/207 (29%), Positives = 100/207 (48%), Gaps = 17/207 (8%)

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 LLLDNKKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISS 176
           +++DN K           P + +Y    +K W+    D         P A  +    + S
Sbjct: 125 IMVDNTKFTM----DCVVPTIHVYEHHENK-WRC--RDPHYDYCEDWPEAQRISASLLDS 177

Query: 177 EKWQDVVDFDDHLDDISKDWLNPDLFK 203
             ++ +VDFD+HLDDI  DW NP++ K
Sbjct: 178 RSYETLVDFDNHLDDIRNDWTNPEINK 204

Bos taurus (taxid: 9913)

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

 Score = 97.1 bits (240), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 68/203 (33%), Positives = 102/203 (50%), Gaps = 27/203 (13%)

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-AKNIGNHICRYFPQCAVLLLDNKKL 124
           +L++I+ H   +GL I GY+ A E F D ++D   A  I + I   F     +++DNK +
Sbjct: 63  ALMLIDAHAEREGLVIAGYYAAPENFYDNQVDKTPAAKIADKIQENFKNACFVVVDNKLM 122

Query: 125 EALPKGKDRSPVMQLYIR-DASKNWKLV------GSDG--GCQLLTKEPAANVVLMDYIS 175
                  DR+ +       D+   W          SD   G  LL K  A          
Sbjct: 123 TL---QHDRAAIQVFNCPGDSGARWSKAKFTLSQASDTLEGVSLLLKRGA---------- 169

Query: 176 SEKWQDVVDFDDHLDDISKDWLN 198
               +D+VDFD+HLD+  K+W N
Sbjct: 170 ---MRDLVDFDNHLDNPDKNWTN 189

Drosophila melanogaster (taxid: 7227)

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

 Score = 75.5 bits (184), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 55/200 (27%), Positives = 98/200 (49%), Gaps = 22/200 (11%)

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

Query: 68  IMIEEHYSAQGLGIVGYFHANERF-DDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEA 126
           I IE++     + +VGY+H+N+   ++LE + IAK I + +         L++   K+E 
Sbjct: 63  IQIEKYCRDNNIDMVGYYHSNQCIANELEPEPIAKKIADRLNNELNNMCFLMI--SKIEV 120

Query: 127 LPKGKDRSPVMQLYIRDASKNW-----KLVGSDGGCQLLTKEPAANVVLMDYISSEKWQD 181
                   P   + I     +W      L+  D      +     N +L   + + K   
Sbjct: 121 ------NRPSGLVSIDKVGSDWLKNRKTLITIDTT----SNSEDINEILKRNLQNIKESQ 170

Query: 182 VVDFDDHLDDISKDWLNPDL 201
           + DF+++L + ++DWLN  L
Sbjct: 171 IYDFEEYLSNPTRDWLNKSL 190

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	203
255563580	204	Neighbor of COX4, putative [Ricinus comm	0.985	0.980	0.801	1e-89
18423805	208	uncharacterized protein [Arabidopsis tha	0.990	0.966	0.781	3e-89
21592839	206	unknown [Arabidopsis thaliana]	0.990	0.975	0.781	3e-89
147770366	206	hypothetical protein VITISV_040251 [Viti	0.995	0.980	0.759	3e-88
224061250	204	predicted protein [Populus trichocarpa]	0.980	0.975	0.792	4e-88
297796469	208	EMB2731 [Arabidopsis lyrata subsp. lyrat	0.990	0.966	0.771	7e-88
225461981	206	PREDICTED: UPF0172 protein At5g55940 [Vi	0.995	0.980	0.754	2e-87
449453129	203	PREDICTED: ER membrane protein complex s	0.990	0.990	0.757	4e-87
224061248	204	predicted protein [Populus trichocarpa]	0.980	0.975	0.782	8e-87
351721567	204	uncharacterized protein LOC100527135 [Gl	0.975	0.970	0.768	2e-84

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

 Score =  334 bits (856), Expect = 1e-89,   Method: Compositional matrix adjust.
 Identities = 162/202 (80%), Positives = 182/202 (90%), Gaps = 2/202 (0%)

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 KKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISSEKWQD 181
           KKLEAL KGKD+SPV+QLY RDASKNWKL  SDGG +L+ KEPAANVVL+D+ISS+KWQD
Sbjct: 123 KKLEALTKGKDQSPVLQLYTRDASKNWKLAESDGGSKLIPKEPAANVVLLDFISSKKWQD 182

Query: 182 VVDFDDHLDDISKDWLNPDLFK 203
           VVDFDDHLDDI+KDWLNPDLFK
Sbjct: 183 VVDFDDHLDDITKDWLNPDLFK 204

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

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 =  333 bits (853), Expect = 3e-89,   Method: Compositional matrix adjust.
 Identities = 157/201 (78%), Positives = 182/201 (90%)

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 KKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISSEKWQD 181
           KKLEAL KGK+RSPVMQL ++DASKNW++VG+DGG +LL KEP+ANVVL DYISSEKW+D
Sbjct: 127 KKLEALSKGKERSPVMQLCVKDASKNWRVVGADGGSKLLLKEPSANVVLSDYISSEKWKD 186

Query: 182 VVDFDDHLDDISKDWLNPDLF 202
           V D DDHLDD++KDWLNP LF
Sbjct: 187 VTDVDDHLDDVTKDWLNPGLF 207

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  333 bits (853), Expect = 3e-89,   Method: Compositional matrix adjust.
 Identities = 157/201 (78%), Positives = 182/201 (90%)

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 KKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISSEKWQD 181
           KKLEAL KGK+RSPVMQL ++DASKNW++VG+DGG +LL KEP+ANVVL DYISSEKW+D
Sbjct: 125 KKLEALSKGKERSPVMQLCVKDASKNWRVVGADGGSKLLLKEPSANVVLSDYISSEKWKD 184

Query: 182 VVDFDDHLDDISKDWLNPDLF 202
           V D DDHLDD++KDWLNP LF
Sbjct: 185 VTDVDDHLDDVTKDWLNPGLF 205

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  329 bits (844), Expect = 3e-88,   Method: Compositional matrix adjust.
 Identities = 155/204 (75%), Positives = 178/204 (87%), Gaps = 2/204 (0%)

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 DNKKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISSEKW 179
           DNKKLE+LPKGKDRSPVMQLY +DASKNW+L GSDG  QL  KEP+ANVVL+DYI+SEKW
Sbjct: 123 DNKKLESLPKGKDRSPVMQLYTKDASKNWRLAGSDGSSQLTIKEPSANVVLLDYIASEKW 182

Query: 180 QDVVDFDDHLDDISKDWLNPDLFK 203
           QD++DFDDHLDDISKDWLNP+LFK
Sbjct: 183 QDIIDFDDHLDDISKDWLNPELFK 206

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224061250|ref|XP_002300390.1| predicted protein [Populus trichocarpa] gi|222847648|gb|EEE85195.1| predicted protein [Populus trichocarpa]

 Score =  329 bits (843), Expect = 4e-88,   Method: Compositional matrix adjust.
 Identities = 160/202 (79%), Positives = 179/202 (88%), Gaps = 3/202 (1%)

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+Y A+ LGIVGYFHANER DD+EL ++AKNIG+HI RYFPQ A+LLLDN
Sbjct: 63  PLEISLIMIEEYYGARDLGIVGYFHANERSDDVELGNVAKNIGDHIYRYFPQAAILLLDN 122

Query: 122 KKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISSEKWQD 181
           KKLEALPKGKDR PVMQLY RDASKNWKL GSDGGCQL TKEPAAN VL+DYISS+KW+D
Sbjct: 123 KKLEALPKGKDRLPVMQLYTRDASKNWKLAGSDGGCQLTTKEPAANAVLLDYISSKKWED 182

Query: 182 VVDFDDHLDDISKDWLNPDLFK 203
           VVDFDDHLDDI+KDWLNP+LFK
Sbjct: 183 VVDFDDHLDDITKDWLNPELFK 204

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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 =  328 bits (841), Expect = 7e-88,   Method: Compositional matrix adjust.
 Identities = 155/201 (77%), Positives = 181/201 (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 KKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISSEKWQD 181
           KKLEAL KGK+RSPVMQL ++DASKNW++VG+DGG +LL KEP+ANV+L DYISSEKW+D
Sbjct: 127 KKLEALSKGKERSPVMQLCVKDASKNWRVVGADGGSKLLLKEPSANVILSDYISSEKWKD 186

Query: 182 VVDFDDHLDDISKDWLNPDLF 202
           V D DDHLDD++KDWLNP LF
Sbjct: 187 VTDVDDHLDDVTKDWLNPGLF 207

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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 =  327 bits (837), Expect = 2e-87,   Method: Compositional matrix adjust.
 Identities = 154/204 (75%), Positives = 177/204 (86%), Gaps = 2/204 (0%)

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 DNKKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISSEKW 179
           DNKKLE+LPKGKDRSPVMQLY +DASKNW+  GSDG  QL  KEP+ANVVL+DYI+SEKW
Sbjct: 123 DNKKLESLPKGKDRSPVMQLYTKDASKNWRHAGSDGSSQLTIKEPSANVVLLDYIASEKW 182

Query: 180 QDVVDFDDHLDDISKDWLNPDLFK 203
           QD++DFDDHLDDISKDWLNP+LFK
Sbjct: 183 QDIIDFDDHLDDISKDWLNPELFK 206

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  326 bits (835), Expect = 4e-87,   Method: Compositional matrix adjust.
 Identities = 153/202 (75%), Positives = 181/202 (89%), Gaps = 1/202 (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 KKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISSEKWQD 181
           +KLEALPK KDRSPVM+LY ++ SKNWKL GSDG  QL+ KEP+ANVVL+D+ISSEKWQD
Sbjct: 122 RKLEALPKRKDRSPVMELYTKETSKNWKLAGSDGSSQLMMKEPSANVVLLDFISSEKWQD 181

Query: 182 VVDFDDHLDDISKDWLNPDLFK 203
           VVDFDDHLDDISKDWLNPDLFK
Sbjct: 182 VVDFDDHLDDISKDWLNPDLFK 203

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 =  325 bits (832), Expect = 8e-87,   Method: Compositional matrix adjust.
 Identities = 158/202 (78%), Positives = 179/202 (88%), Gaps = 3/202 (1%)

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 KKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISSEKWQD 181
           KKLEALPKGKD  PVMQLY RDASKNWKL GSD GC+L TKEPAAN VL+DYISS+KW+D
Sbjct: 123 KKLEALPKGKDGLPVMQLYTRDASKNWKLAGSDVGCRLTTKEPAANAVLLDYISSKKWED 182

Query: 182 VVDFDDHLDDISKDWLNPDLFK 203
           VVDFDDHLDDI++DWLNP+LFK
Sbjct: 183 VVDFDDHLDDITRDWLNPELFK 204

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  317 bits (812), Expect = 2e-84,   Method: Compositional matrix adjust.
 Identities = 153/199 (76%), Positives = 174/199 (87%), Gaps = 1/199 (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 LEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISSEKWQDVV 183
           L+AL K KDRS +MQLY+RD SKNWKLV SDG  +   KEP+AN+VL+DYI+SEKW DVV
Sbjct: 125 LDALKKSKDRSAIMQLYVRDTSKNWKLVQSDGNNRFSLKEPSANLVLLDYIASEKWNDVV 184

Query: 184 DFDDHLDDISKDWLNPDLF 202
           DFDDHLDDISKDWLNP LF
Sbjct: 185 DFDDHLDDISKDWLNPGLF 203

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

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	203
TAIR|locus:2178403	208	emb2731 "AT5G55940" [Arabidops	0.990	0.966	0.736	6.2e-78
MGI|MGI:1934682	206	Emc9 "ER membrane protein comp	0.620	0.611	0.403	1e-23
UNIPROTKB|E1BF12	208	EMC9 "Uncharacterized protein"	0.620	0.605	0.403	1.3e-23
UNIPROTKB|E2QSX7	207	FAM158A "Uncharacterized prote	0.615	0.603	0.418	6.9e-23
UNIPROTKB|Q9Y3B6	208	EMC9 "ER membrane protein comp	0.620	0.605	0.387	8.8e-23
UNIPROTKB|F1SGM2	206	EMC9 "Uncharacterized protein"	0.615	0.606	0.406	4.9e-21
RGD|1308113	206	Emc9 "ER membrane protein comp	0.620	0.611	0.403	1.3e-20
FB|FBgn0034791	203	CG3501 [Drosophila melanogaste	0.571	0.571	0.389	1.6e-17
MGI|MGI:1343095	207	Emc8 "ER membrane protein comp	0.935	0.917	0.269	6.7e-17
UNIPROTKB|F1N8E6	206	COX4NB "Uncharacterized protei	0.940	0.927	0.269	8.6e-17

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

 Score = 784 (281.0 bits), Expect = 6.2e-78, P = 6.2e-78
 Identities = 148/201 (73%), Positives = 173/201 (86%)

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 KKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISSEKWQX 181
             KKLEAL KGK+RSPVMQL ++DASKNW++VG+DGG +LL KEP+ANVVL DYISSEKW+ 
Sbjct:   127 KKLEALSKGKERSPVMQLCVKDASKNWRVVGADGGSKLLLKEPSANVVLSDYISSEKWKD 186

Query:   182 XXXXXXXXXXISKDWLNPDLF 202
                       ++KDWLNP LF
Sbjct:   187 VTDVDDHLDDVTKDWLNPGLF 207

GO:0003674 "molecular_function" evidence=ND

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

GO:0005783 "endoplasmic reticulum" evidence=IDA

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

 Score = 243 (90.6 bits), Expect = 1.0e-23, Sum P(2) = 1.0e-23
 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

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

 Score = 246 (91.7 bits), Expect = 1.3e-23, Sum P(2) = 1.3e-23
 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

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

 Score = 239 (89.2 bits), Expect = 6.9e-23, Sum P(2) = 6.9e-23
 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 = 8.8e-23, Sum P(2) = 8.8e-23
 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

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

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

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

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

 Score = 208 (78.3 bits), Expect = 6.7e-17, P = 6.7e-17
 Identities = 55/204 (26%), Positives = 92/204 (45%)

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 DNKKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISSEKW 179
             DN K          +P + +Y +  ++ W+    D         P A  +    + S  +
Sbjct:   125 DNAKFTM----DCAAPTIHVYEQHENR-WRC--RDPHHDYCEDWPEAQRISASLLDSRSY 177

Query:   180 QXXXXXXXXXXXISKDWLNPDLFK 203
             +           I  DW NP++ K
Sbjct:   178 ETLVDFDNHLDDIRSDWTNPEINK 201

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

UNIPROTKB|F1N8E6 COX4NB "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 207 (77.9 bits), Expect = 8.6e-17, P = 8.6e-17
 Identities = 56/208 (26%), Positives = 92/208 (44%)

Query:     4 LKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVE------IADSVPLFHSHL 57
             ++ +L+  AY K+VLH  K+   AVNG+L+    P +    +        D +PLFH  L
Sbjct:     2 VRMKLTTQAYCKMVLHGAKYPHCAVNGLLVAERPPGSRGREQAGPPSLFVDCIPLFHGTL 61

Query:    58 GLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVL 117
              L P LE++L +I+         I GY+ ANER  D     +A+ + + I   F   A++
Sbjct:    62 ALAPMLEVALTLIDSWCKENSYVIAGYYQANERVKDASPTQVAEKVASRIAEGFNDTALI 121

Query:   118 LLDNKK--LEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYIS 175
             ++DN K  +E L       P + +Y    +K W+    D           A  +    + 
Sbjct:   122 MVDNTKFTMECL------EPAIHVYELHENK-WRC--KDPHVDFCEDWSEAQRIAASLLD 172

Query:   176 SEKWQXXXXXXXXXXXISKDWLNPDLFK 203
             S+ ++           I  DW NP++ K
Sbjct:   173 SKSYETLVDFDNHLDDIRNDWTNPEINK 200

GO:0005739 "mitochondrion" evidence=IEA

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

---

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)
Q5U1W7	EMC9_RAT	No assigned EC number	0.3532	0.9408	0.9271	yes	no
Q9Y3B6	EMC9_HUMAN	No assigned EC number	0.3432	0.9408	0.9182	yes	no
Q9DB76	EMC9_MOUSE	No assigned EC number	0.3532	0.9408	0.9271	yes	no
Q9FG71	EMC89_ARATH	No assigned EC number	0.7810	0.9901	0.9663	yes	no
Q9W1Y1	EMC89_DROME	No assigned EC number	0.3349	0.8669	0.8669	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	203
pfam03665	195	pfam03665, UPF0172, Uncharacterized protein family	4e-84
cd08060	182	cd08060, MPN_UPF0172, Mov34/MPN/PAD-1 family: UPF0	5e-69

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

 Score =  246 bits (631), Expect = 4e-84
 Identities = 87/201 (43%), Positives = 124/201 (61%), Gaps = 6/201 (2%)

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 KLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISSEKWQDV 182
           KLE+ P+       +Q+Y +D  K W+   +D   + +     AN +L   + S  ++ +
Sbjct: 119 KLESDPRVPA----LQVYEKDGKKGWRWKKADKSLEAVEDWEEANEILSALLQSGAYRQL 174

Query: 183 VDFDDHLDDISKDWLNPDLFK 203
           VDFDDHLDDISKDWLN +L  
Sbjct: 175 VDFDDHLDDISKDWLNQELNN 195

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 =  208 bits (531), Expect = 5e-69
 Identities = 83/191 (43%), Positives = 115/191 (60%), Gaps = 9/191 (4%)

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 PKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAANVVLMDYISSEKWQDVVDFDD 187
            KG        +  +D    WK+    G   LL +   AN +L   +SS+ ++++VDFDD
Sbjct: 119 CKGN-----ALVVYKDKGGRWKVKELRGINLLLWES--ANEILSALLSSKAYRNLVDFDD 171

Query: 188 HLDDISKDWLN 198
           HLDDIS DWLN
Sbjct: 172 HLDDISLDWLN 182

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	203
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	99.72
cd08069	268	MPN_RPN11_CSN5 Mov34/MPN/PAD-1 family: proteasomal	99.0
cd08065	266	MPN_eIF3h Mpr1p, Pad1p N-terminal (MPN) domains wi	98.96
cd08057	157	MPN_euk_non_mb Mpr1p, Pad1p N-terminal (MPN) domai	98.92
PF01398	114	JAB: JAB1/Mov34/MPN/PAD-1 ubiquitin protease; Inte	98.88
smart00232	135	JAB_MPN JAB/MPN domain. Domain in Jun kinase activ	98.83
cd08067	187	MPN_2A_DUB Mov34/MPN/PAD-1 family: Histone H2A deu	98.77
cd08062	280	MPN_RPN7_8 Mpr1p, Pad1p N-terminal (MPN) domains w	98.64
cd08064	265	MPN_eIF3f Mpr1p, Pad1p N-terminal (MPN) domains wi	98.52
cd08058	119	MPN_euk_mb Mpr1p, Pad1p N-terminal (MPN) domains w	98.5
cd08063	288	MPN_CSN6 Mpr1p, Pad1p N-terminal (MPN) domains wit	98.47
cd08068	244	MPN_BRCC36 Mov34/MPN/PAD-1 family: BRCC36, a subun	98.3
PLN03246	303	26S proteasome regulatory subunit; Provisional	98.26
cd08066	173	MPN_AMSH_like Mov34/MPN/PAD-1 family. AMSH (associ	98.15
KOG1554	347	consensus COP9 signalosome, subunit CSN5 [Posttran	97.62
cd08070	128	MPN_like Mpr1p, Pad1p N-terminal (MPN) domains wit	97.46
PF14464	104	Prok-JAB: Prokaryotic homologs of the JAB domain;	96.79
cd08072	117	MPN_archaeal Mov34/MPN/PAD-1 family: archaeal JAB1	95.99
KOG1556	309	consensus 26S proteasome regulatory complex, subun	95.42
KOG1555	316	consensus 26S proteasome regulatory complex, subun	94.7
KOG2975	288	consensus Translation initiation factor 3, subunit	94.45
COG1310	134	Predicted metal-dependent protease of the PAD1/JAB	94.17
TIGR02256	131	ICE_VC0181 integrative and conjugative element pro	93.55
cd08059	101	MPN_prok_mb Mpr1p, Pad1p N-terminal (MPN) domains	92.99
KOG1560	339	consensus Translation initiation factor 3, subunit	88.32
cd08073	108	MPN_NLPC_P60 Mpr1p, Pad1p N-terminal (MPN) domains	81.55

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

Probab=100.00  E-value=1.6e-76  Score=496.75  Aligned_cols=193  Identities=44%  Similarity=0.743  Sum_probs=174.1

Q ss_pred             cc-eEEeHHHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecccCCCCcchHHHHHHHHHHHHHhhcCCeEE
Q 028839            4 LK-YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIV   82 (203)
Q Consensus         4 M~-v~is~~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~qvd~~~~~~~l~Iv   82 (203)
                      |+ |+||++||+||+|||||||||+|||||||+.++++ +.|.|+|||||||++++|+||||+||+|||+||+++|++||
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 99999999999999999999999999999976653 45999999999999999999999999999999999999999


Q ss_pred             EEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCCcEEEEEe--cCCCCeEEcCCCCCccee
Q 028839           83 GYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIR--DASKNWKLVGSDGGCQLL  160 (203)
Q Consensus        83 GyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~--~~~~~W~~~~~~~~~~~~  160 (203)
                      ||||||||++|.+|+|+|+|||+||+++|++||++||||+||+.    ..+.+.+.+|.+  .++++|++.+.  .....
T Consensus        80 GyY~Ane~~~d~~~~~~a~kiad~I~~~~~~a~ll~idn~kl~~----~~~~~~~~~~~~~~~~~~~w~~~~~--~~~~~  153 (196)
T PF03665_consen   80 GYYQANERLDDNSPSPVAEKIADKIAENFSDACLLMIDNKKLSS----DCKAPAISVYQRDGNSGGKWKSKDK--SSVLL  153 (196)
T ss_pred             EEEEeccccccCCCCHHHHHHHHHHHhhCCCcEEEEEECccccc----ccCCCcceeeeeeccCCCceeecCC--Cceee
Confidence            99999999999999999999999999999999999999999997    556677788884  34458988653  33343


Q ss_pred             ecCcchHHHHHHHHhhcccCcccccccccCCCCCCCCCccCCC
Q 028839          161 TKEPAANVVLMDYISSEKWQDVVDFDDHLDDISKDWLNPDLFK  203 (203)
Q Consensus       161 ~~~~~~~~~~~~~l~~~~~~~lvDFDdHLddi~~DW~N~~l~~  203 (203)
                      ...+++.+.+++++++++|++|+|||||||||++||+|++||+
T Consensus       154 ~~~~~~~~~~~~~l~~~~~~~lvDFDdHLddi~~DW~N~~ln~  196 (196)
T PF03665_consen  154 ESWEEALEIVSDLLKSKKYRQLVDFDDHLDDISKDWLNPELNK  196 (196)
T ss_pred             eCcHHHHHHHHHHHHhCCcCcccchhhccCCCccccCChhhcC
Confidence            4456689999999999999999999999999999999999986

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

Probab=100.00  E-value=1.2e-74  Score=472.85  Aligned_cols=189  Identities=41%  Similarity=0.676  Sum_probs=175.0

Q ss_pred             eEEeHHHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecccCCCCcchHHHHHHHHHHHHHhhcCCeEEEEE
Q 028839            6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYF   85 (203)
Q Consensus         6 v~is~~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~qvd~~~~~~~l~IvGyY   85 (203)
                      |++|++||+||+|||+||||++|||+|||+.++.| ++|+|+|||||||+++.|+|||||||+|||+||.+.|++|||||
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            99999999999999999999999999999876665 79999999999999999999999999999999999999999999


Q ss_pred             EeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCCcEEEEEecCCCCeEEcCCCCCcceeecC-c
Q 028839           86 HANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKE-P  164 (203)
Q Consensus        86 ~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~~~~~~W~~~~~~~~~~~~~~~-~  164 (203)
                      |||||++|.++.++|+|||+||+|+||+|+++|+||++|+.    +++.|.+.+|..++ .+|++.++  .... +.+ +
T Consensus        83 ~Ane~~~D~s~~~~A~kiadrIse~f~~A~ilv~dn~~l~~----~~e~~~v~v~e~~g-~rW~~~d~--~~~~-~~d~~  154 (199)
T KOG3289|consen   83 HANERVNDQSLNPVALKIADRISEFFPDAAILVLDNKKLVP----QCERPPVIVLEDQG-LRWRPKDK--TLVQ-WSDWL  154 (199)
T ss_pred             ecCCCccccCccHHHHHHHHHHHhhCCCCeEEEEecccccc----ccCCCCEEEeeccC-cceeecCC--chhh-hhcch
Confidence            99999999999999999999999999999999999999997    78888899999666 59999864  2222 333 5


Q ss_pred             chHHHHHHHHhhcccCcccccccccCCCCCCCCCccCCC
Q 028839          165 AANVVLMDYISSEKWQDVVDFDDHLDDISKDWLNPDLFK  203 (203)
Q Consensus       165 ~~~~~~~~~l~~~~~~~lvDFDdHLddi~~DW~N~~l~~  203 (203)
                      +.+.+++.+|++++|++|+|||||||||++||+|++||+
T Consensus       155 e~~~~ls~ll~~~~~r~LvDfDnHLDd~~~DwtN~~Lnn  193 (199)
T KOG3289|consen  155 EGRQMLSALLESRAYRDLVDFDNHLDDPRKDWTNPRLNN  193 (199)
T ss_pred             hHHHHHHHHHhhhhhhhhcchhhcccCchhcccChhhhh
Confidence            688889999999999999999999999999999999985

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

Probab=100.00  E-value=1.2e-60  Score=396.69  Aligned_cols=182  Identities=43%  Similarity=0.699  Sum_probs=164.7

Q ss_pred             EeHHHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecccCCCCcchHHHHHHHHHHHHHhhcCCeEEEEEEe
Q 028839            8 LSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHA   87 (203)
Q Consensus         8 is~~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~qvd~~~~~~~l~IvGyY~A   87 (203)
                      |+++||.||++||+|||+++|||+|||+.+.+  +.+.|+|+|||||+++.|+||+||||.|||.||+++|+.|||||||
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            58899999999999999999999999987534  5789999999999999999999999999999999999999999999


Q ss_pred             CCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCCcEEEEEecCCCCeEEcCCCCCcceeecCcchH
Q 028839           88 NERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAAN  167 (203)
Q Consensus        88 ne~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~~~~~~W~~~~~~~~~~~~~~~~~~~  167 (203)
                      |++++|.+|+++|+||||||+++|++||++||||+||..    ....+++.+|..+++ +|++.+.  ........+++.
T Consensus        79 h~~~~d~~~~~~a~kIadki~~~~~~a~ll~vdn~~l~~----~~~~~~~~~~~~~~~-~Wk~~~~--~~~~~~~~~~~~  151 (182)
T cd08060          79 NERLDDSSPSPVAKKIADKIAENFSNACLLMVDNEKLTL----DCKGNALVVYKDKGG-RWKVKEL--RGINLLLWESAN  151 (182)
T ss_pred             CCcccCCCCcHHHHHHHHHHHHhCCCCEEEEEeCccccc----cccCCceEEEEecCC-CceEccc--ccchhccchhHH
Confidence            999999999999999999999999999999999999986    555667889998886 9998653  222222335688


Q ss_pred             HHHHHHHhhcccCcccccccccCCCCCCCCC
Q 028839          168 VVLMDYISSEKWQDVVDFDDHLDDISKDWLN  198 (203)
Q Consensus       168 ~~~~~~l~~~~~~~lvDFDdHLddi~~DW~N  198 (203)
                      +.++.++++++|++|+|||||||||++||+|
T Consensus       152 ~~~~~~l~~~~~~~l~DFDdHLddi~~Dw~N  182 (182)
T cd08060         152 EILSALLSSKAYRNLVDFDDHLDDISLDWLN  182 (182)
T ss_pred             HHHHHHHhhCcccccccchhcccCCccCcCC
Confidence            9999999999999999999999999999998

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=99.72  E-value=1.2e-16  Score=120.80  Aligned_cols=107  Identities=24%  Similarity=0.291  Sum_probs=92.7

Q ss_pred             HHHHhhhhcCC-CCceeEEEeeecCCCCCCceEEEeeeecccCCCCcchHHHHHHHHHHHHHhhcCCeEEEEEEeCCCCC
Q 028839           14 IKLVLHARKHK-TAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFD   92 (203)
Q Consensus        14 ~K~~LHAaKyP-~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~qvd~~~~~~~l~IvGyY~Ane~~~   92 (203)
                      +|+++|++|++ ...|+|+|+|+..+    .+.+++++|++|......|+.+.++.+++.++...|+.||||||+++...
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 79999999998643    37788999999998888999999999999999999999999999987643


Q ss_pred             CCCCCHHHHHHHHHHHhhCCCcEEEEEeCcccc
Q 028839           93 DLELDSIAKNIGNHICRYFPQCAVLLLDNKKLE  125 (203)
Q Consensus        93 d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~  125 (203)
                       ..+++......+++++.+++++.+++|.++..
T Consensus        77 -~~~s~~dv~~~~~~q~~~~~~v~li~~~~~~~  108 (116)
T cd07767          77 -CFLSPNDLATHELFQRYFPEKVMIIVDVKPKD  108 (116)
T ss_pred             -CccCHHHHHHHHHHHHhCCCCEEEEEECCCcc
Confidence             35676666777999999999999999998763

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=99.00  E-value=7.9e-09  Score=90.78  Aligned_cols=114  Identities=20%  Similarity=0.261  Sum_probs=83.1

Q ss_pred             eEEeHHHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecccCCCCcch--HHHHHHHHHH-HHHh--hcCCe
Q 028839            6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP--NLEISLIMIE-EHYS--AQGLG   80 (203)
Q Consensus         6 v~is~~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsP--mlEvAL~qvd-~~~~--~~~l~   80 (203)
                      |.|++.|+.||+.||.+-....|+|+|+|...+   +++.|+||+|+-|....-..  -.|.-..+++ ...+  ..++.
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            889999999999999888778999999998543   58999999999886543211  1122222232 1222  36799


Q ss_pred             EEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCcc
Q 028839           81 IVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKK  123 (203)
Q Consensus        81 IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~k  123 (203)
                      |||+||...... .-|+..-..+-..-+...+.++.+++|..+
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            999999986544 567777777666666666788999999643

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

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

Probab=98.96  E-value=3e-08  Score=86.87  Aligned_cols=127  Identities=16%  Similarity=0.198  Sum_probs=85.4

Q ss_pred             eEEeHHHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecccCCCCcch-----HHHHHHHHHHHHHhhcCC-
Q 028839            6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP-----NLEISLIMIEEHYSAQGL-   79 (203)
Q Consensus         6 v~is~~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsP-----mlEvAL~qvd~~~~~~~l-   79 (203)
                      |.|++.++.||+-||-+.....|+|+|||...+   +.++|++|.|+=|....-.+     ..+--+.+++ .+++.|. 
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            899999999999999999999999999998754   48999999999997653332     1122233333 4567777 


Q ss_pred             -eEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCCcEEEEEecC
Q 028839           80 -GIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIRDA  144 (203)
Q Consensus        80 -~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~~~  144 (203)
                       .||||||+.. .+ ...++.-.-.--.-....++++.|++|-.+-.      .+...+..|....
T Consensus        79 e~iVGWY~S~p-~~-~~~~~s~id~~~~~q~~~~~~v~Li~D~~~s~------~g~l~lkAyrl~~  136 (266)
T cd08065          79 HNHVGWYQSTY-LG-SFFTRDLIETQYNYQEAIEESVVLVYDPSKTS------QGSLSLKAYRLSE  136 (266)
T ss_pred             CcEEEeEeecC-CC-CcCCHHHHHHHHHHhccCCCCEEEEECCCccc------ccceeeEEEEEcH
Confidence             9999999876 22 33232221111122223377899999976521      2345677776543

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=98.92  E-value=7.5e-08  Score=77.76  Aligned_cols=129  Identities=17%  Similarity=0.180  Sum_probs=91.6

Q ss_pred             eEEeHHHHHHHHhhhhcCC--CCceeEEEeeecCCCCCCceEEEeeeecccCCCCc--chHHHHHHHHHHHHHhh-cCCe
Q 028839            6 YELSQNAYIKLVLHARKHK--TAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGL--LPNLEISLIMIEEHYSA-QGLG   80 (203)
Q Consensus         6 v~is~~AY~K~~LHAaKyP--~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~L--sPmlEvAL~qvd~~~~~-~~l~   80 (203)
                      |.|.+.+..||+=|+.+-.  ...|.|+|||...+   ..+.|+||.|+-|....-  .--.|-.-.+++.+-+- .+..
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            5789999999999998887  78999999998764   589999999999975322  12234444455554432 5689


Q ss_pred             EEEEEEeCCCCCCCCCCHHHHHHHHHHHhh-CCCcEEEEEeCccccccccCCCCCCcEEEEEec
Q 028839           81 IVGYFHANERFDDLELDSIAKNIGNHICRY-FPQCAVLLLDNKKLEALPKGKDRSPVMQLYIRD  143 (203)
Q Consensus        81 IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~-~~~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~~  143 (203)
                      +||||+...... +.+......|-+.+... .+.++.+++|-.+...     .+.-.+.+|...
T Consensus        78 vVGWY~~~~~~~-~~~~~~~~~i~~~~~~~~~~~~v~L~~D~~~~~~-----~~~l~i~ay~~~  135 (157)
T cd08057          78 IVGWYSIGSNNS-NEISKSDNSLHSQFSLISEENPLILILDPSLQSD-----SEKLEISTFTSA  135 (157)
T ss_pred             EEEEEeecCCCC-CCCChhHHHHHHHHHhccCCCCEEEEEcCCcccC-----CCcccEEEEEEe
Confidence            999999875533 45666677777777775 6778999999765321     122346666654

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

>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=98.88  E-value=2.3e-08  Score=76.02  Aligned_cols=103  Identities=24%  Similarity=0.275  Sum_probs=75.4

Q ss_pred             eEEeHHHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecccCCCCcc----hHHHHHHHHHHHHHhh-cCCe
Q 028839            6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLL----PNLEISLIMIEEHYSA-QGLG   80 (203)
Q Consensus         6 v~is~~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~Ls----PmlEvAL~qvd~~~~~-~~l~   80 (203)
                      |.|++.|..||+-|+.+.+...|.|+|+|...++  ..+.|+|++|+=|....-.    +.... -.+++.+-+. ..+.
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            8899999999999999988889999999987653  2899999999998754322    22222 4455555442 4599


Q ss_pred             EEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCC
Q 028839           81 IVGYFHANERFDDLELDSIAKNIGNHICRYFP  112 (203)
Q Consensus        81 IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~  112 (203)
                      ||||||...... ..|++.-..+-...++..+
T Consensus        83 iVGWY~s~p~~~-~~~S~~di~~q~~~q~~~~  113 (114)
T PF01398_consen   83 IVGWYHSHPNIS-CFPSPTDIETQKQYQRMNP  113 (114)
T ss_dssp             EEEEEEEESSS--SS--HHHHHHHHHHHHHTT
T ss_pred             EEEEEEccCCcc-ccCCHHHHHHHHHHHHhCC
Confidence            999999876543 6678887777777776654

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.

>smart00232 JAB_MPN JAB/MPN domain

Probab=98.83  E-value=2.3e-07  Score=71.35  Aligned_cols=114  Identities=20%  Similarity=0.255  Sum_probs=83.2

Q ss_pred             eEEeHHHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecccCCCCc----chHHHHHHHHHHH-HHhhcCCe
Q 028839            6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGL----LPNLEISLIMIEE-HYSAQGLG   80 (203)
Q Consensus         6 v~is~~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~L----sPmlEvAL~qvd~-~~~~~~l~   80 (203)
                      +.+.+.++.||+-|+.+.....++|+|+|...+   +.+.|++++|+-...-.=    -++ +---.+.+. .....|+.
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            678999999999999999889999999998643   479999999987653110    111 111122222 23468899


Q ss_pred             EEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccc
Q 028839           81 IVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKL  124 (203)
Q Consensus        81 IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl  124 (203)
                      +||+||..... ...++..-..++.......+.++.+++|..+-
T Consensus        78 ~vGwyhshp~~-~~~pS~~D~~~~~~~~~~~~~~~~~~v~~~~s  120 (135)
T smart00232       78 IVGWYHSHPDE-SPFPSEVDVATHESYQAPWPISVVLIVDPIKS  120 (135)
T ss_pred             EEEEEEcCCCC-CCCcCHHHHHHHHHHHhcCCceEEEEECCCcc
Confidence            99999997653 35678777788888888877777777776654

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

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

Probab=98.77  E-value=5.4e-07  Score=75.47  Aligned_cols=133  Identities=17%  Similarity=0.218  Sum_probs=86.4

Q ss_pred             eEEeHHHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecccCC----CCcchHHHHHHHHHHHHHhhcCCeE
Q 028839            6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSH----LGLLPNLEISLIMIEEHYSAQGLGI   81 (203)
Q Consensus         6 v~is~~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~----~~LsPmlEvAL~qvd~~~~~~~l~I   81 (203)
                      |+||..|..||+.||-.-. ..|+|+|+|.....+ ..+.|+++.|.-=..    ....|.-   ...+..++++.|+.+
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-QNLTILQAFPCRSRLTGLDCEMDPVS---ETEIRESLESRGLSV   81 (187)
T ss_pred             EEECHHHHHHHHHHhcCCC-cEEEEEEEeEEcCCC-CeEEEEEEEecCCCCCCcccccCHHH---HHHHHHHHHHcCCEE
Confidence            8999999999999999988 999999999853321 579999999976532    1234432   334456778899999


Q ss_pred             EEEEEeCCCCCCCCCCHHHHHHHHHHHhhCC-------CcEEEEEeCccccccccCCCCCCcEEEEEecCCCCe
Q 028839           82 VGYFHANERFDDLELDSIAKNIGNHICRYFP-------QCAVLLLDNKKLEALPKGKDRSPVMQLYIRDASKNW  148 (203)
Q Consensus        82 vGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~-------~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~~~~~~W  148 (203)
                      ||+||+..... ..||..-..---.-+..++       ..+.++++-..-..    ....+.|.+|.-.....+
T Consensus        82 VGwYHSHP~~~-~~pS~~Di~tQ~~yQ~~~~~~~~~~~p~v~~I~~P~~~~~----~~~~s~i~~f~~~~~~~~  150 (187)
T cd08067          82 VGWYHSHPTFP-PNPSLRDIDTQLDYQIMFKGSDSGYEPCVGLICSPYDRRN----STPESQITCFWVMPPPEN  150 (187)
T ss_pred             EEEEecCCCCC-cCCCHHHHHHHHHHHhhccccccCCCCeEEEEEccccCCC----CCCCCcEEEEEEECCCCC
Confidence            99999987655 6677643333223333333       35666666432211    122345666655544344

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=98.64  E-value=1.1e-06  Score=77.81  Aligned_cols=123  Identities=20%  Similarity=0.256  Sum_probs=88.3

Q ss_pred             eEEeHHHHHHHHhhhhcCC---CCceeEEEeeecCCCCCCceEEEeeeecccCCCCcch-----HHHHHHHHHHHHHhh-
Q 028839            6 YELSQNAYIKLVLHARKHK---TAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP-----NLEISLIMIEEHYSA-   76 (203)
Q Consensus         6 v~is~~AY~K~~LHAaKyP---~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsP-----mlEvAL~qvd~~~~~-   76 (203)
                      |.|.+.+..||+=|+.+.+   ...|.|+|||...+   ..++|+||.|+-|....=.|     -.+-.-.+.+.+-+- 
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   45699999998754   48999999999997533333     123334455554432 


Q ss_pred             cCCeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCCcEEEEEec
Q 028839           77 QGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIRD  143 (203)
Q Consensus        77 ~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~~  143 (203)
                      .+..+||||+....+     ++....|-+-+.+.++++++++||-..       .....++.+|...
T Consensus        80 ~~e~vVGWY~tg~~~-----~~~d~~ih~~~~~~~~~pv~l~vd~~~-------~~~~lpi~aY~s~  134 (280)
T cd08062          80 AKEKIVGWYSTGPKL-----RPNDLDINELFRRYCPNPVLVIIDVRP-------KDLGLPTEAYIAV  134 (280)
T ss_pred             CCCCeEEEecCCCCC-----CcchHHHHHHHHHhCCCCEEEEEecCC-------CCCCCceEEEEEe
Confidence            559999999987554     334456777778888889999999543       1223457788764

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

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

Probab=98.52  E-value=2.1e-06  Score=75.14  Aligned_cols=123  Identities=19%  Similarity=0.195  Sum_probs=87.1

Q ss_pred             eEEeHHHHHHHHhhhhc--CCCCceeEEEeeecCCCCCCceEEEeeeecccCCCCcchH--HHHHHHHHHHHHh-hcCCe
Q 028839            6 YELSQNAYIKLVLHARK--HKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPN--LEISLIMIEEHYS-AQGLG   80 (203)
Q Consensus         6 v~is~~AY~K~~LHAaK--yP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPm--lEvAL~qvd~~~~-~~~l~   80 (203)
                      |.|.+.+..||+=|+.+  .....|.|.|||...+   +.++|+||.|+=|....=...  .|-...+.+.|-+ ..+..
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            46899999999999887  3347899999998754   489999999999964321111  2333455554433 35689


Q ss_pred             EEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCC--CcEEEEEeCccccccccCCCCCCcEEEEEec
Q 028839           81 IVGYFHANERFDDLELDSIAKNIGNHICRYFP--QCAVLLLDNKKLEALPKGKDRSPVMQLYIRD  143 (203)
Q Consensus        81 IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~--~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~~  143 (203)
                      +||||++...     +++....|-+.+++.++  +++.+++|-..-       .+...+.+|...
T Consensus        78 vVGWY~tg~~-----~~~~~~~Ih~~~~~~~~~~~pI~L~~D~~~~-------~~~l~i~ay~~~  130 (265)
T cd08064          78 IVGWYATGSE-----ITEHSALIHDYYSRECTSYNPIHLTVDTSLD-------DGKMSIKAYVSS  130 (265)
T ss_pred             EEeeeeCCCC-----CCccHHHHHHHHHhhCCCCCCEEEEEeCCCC-------CCCcceEEEEEE
Confidence            9999998753     44556678888888777  899999986432       113457788754

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

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

Probab=98.50  E-value=2.2e-06  Score=66.04  Aligned_cols=105  Identities=19%  Similarity=0.284  Sum_probs=69.6

Q ss_pred             HHHHHHhhhhcCCCCceeEEEeeecCCCC--CCceEEEeeeecccCCCCcchHHHHHHHHHHHHHhhcCCeEEEEEEeCC
Q 028839           12 AYIKLVLHARKHKTAAVNGVLLGRVSPQN--DAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANE   89 (203)
Q Consensus        12 AY~K~~LHAaKyP~~aVnGvLlG~~~~~~--~~~v~i~DaVPLfH~~~~LsPmlEvAL~qvd~~~~~~~l~IvGyY~Ane   89 (203)
                      |..||+-||.+-....|+|+|+|....++  +..+.|+++.|.-...   .|. |  ..++.......|+.+||+||+..
T Consensus         2 ~~~~i~~ha~~~~p~E~cGlL~G~~~~~~~~~~~~~v~~~~p~~~~~---~~~-~--~~~~~~~~~~~g~~~vG~YHSHP   75 (119)
T cd08058           2 ALLKMLQHAESNTGIEVMGLLCGELTHNEFTDKHVIVPKQSAGPDSC---TGE-N--VEELFNVQTGRPLLVVGWYHSHP   75 (119)
T ss_pred             HHHHHHHHhcCCCCeEEEEEeeeEEecCccceeEEEEeecCCCCCCc---hhH-H--HHHHHHHHhCCCCeEEEEEecCC
Confidence            67899999999877899999999753210  1357788888864422   232 2  22333455679999999999976


Q ss_pred             CCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCcc
Q 028839           90 RFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKK  123 (203)
Q Consensus        90 ~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~k  123 (203)
                      ... ..||+.-.+.-..-+...|+++.+++|-.+
T Consensus        76 ~~~-~~pS~~Di~~~~~~q~~~p~~~~lI~s~~~  108 (119)
T cd08058          76 TFT-AWLSSVDIHTQASYQLMLPEAIAIVVSPKH  108 (119)
T ss_pred             CCC-CccCHHHHHHHHHHhccCCCeEEEEECcCC
Confidence            543 456655444222223445888888888654

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

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

Probab=98.47  E-value=3e-06  Score=75.08  Aligned_cols=127  Identities=19%  Similarity=0.237  Sum_probs=91.2

Q ss_pred             ceEEeHHHHHHHHhhhhcCC------CCceeEEEeeecCCCCCCceEEEeeeecccCCCC---cchHHHHHHHHHHHHHh
Q 028839            5 KYELSQNAYIKLVLHARKHK------TAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLG---LLPNLEISLIMIEEHYS   75 (203)
Q Consensus         5 ~v~is~~AY~K~~LHAaKyP------~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~---LsPmlEvAL~qvd~~~~   75 (203)
                      .|.|.+.+..+|.=|..+..      ...|.|.|||...+   ..|+|++|.|+-|....   ...=.|--..+.+.|-+
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            37889999999999999842      37899999997644   48999999999996422   11123444455555544


Q ss_pred             -hcCCeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCCcEEEEEec
Q 028839           76 -AQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIRD  143 (203)
Q Consensus        76 -~~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~~  143 (203)
                       -.+..|||||+....    ++.+....|-+.+.+.+++++++++|-..-..     .+.-++.+|...
T Consensus        79 V~~~~~vVGWY~tg~~----~~~~~~~~Ih~~~~~~~~~pv~L~~D~~~~~~-----~~~lpi~ay~s~  138 (288)
T cd08063          79 VFKDLDFVGWYTTGPG----GPTESDLPIHKQILEINESPVLLLLDPEANAS-----GKDLPVTIYESV  138 (288)
T ss_pred             hccCCceEEEEecCCC----CCCHHHHHHHHHHHhhCCCcEEEEEccccccC-----CCCCceeEEEEE
Confidence             256999999997644    46777888888898888889999999654311     223457888654

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

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

Probab=98.30  E-value=5.1e-05  Score=66.14  Aligned_cols=134  Identities=16%  Similarity=0.196  Sum_probs=83.9

Q ss_pred             eEEeHHHHHHHHhhhhcCCCCceeEEEeeecCC-----CCCCceEEEeeeecccC-----CCCcchHHHH-HHHHHHHHH
Q 028839            6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSP-----QNDAVVEIADSVPLFHS-----HLGLLPNLEI-SLIMIEEHY   74 (203)
Q Consensus         6 v~is~~AY~K~~LHAaKyP~~aVnGvLlG~~~~-----~~~~~v~i~DaVPLfH~-----~~~LsPmlEv-AL~qvd~~~   74 (203)
                      |.|+..+|.||+.||..==-..|+|+|+|+...     .. ..+.|...+|+-..     ...+.|.-.+ |..+++.+.
T Consensus         4 V~Is~~~l~~il~HA~~~~P~EvCGLL~G~~~~~~~~~~~-~~v~i~~~~~~~~~~~s~~r~eidPee~~~a~~ea~~~~   82 (244)
T cd08068           4 VHLSADVYLVCLTHALSTEKEEVMGLLIGEIEVSKKGEEV-AIVHISAVIILRRSDKRKDRVEISPEQLSAASTEAERLT   82 (244)
T ss_pred             EEECHHHHHHHHHHHHhCCCcceeEEEEeecccccccccc-eeEEEeeeccccccCCCCceEEeCHHHHHHHHHHHHHHH
Confidence            789999999999999986458999999997642     11 45666677776432     1346675333 444555544


Q ss_pred             hh--cCCeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCcc--ccccccCCCCCCcEEEEEecCC
Q 028839           75 SA--QGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKK--LEALPKGKDRSPVMQLYIRDAS  145 (203)
Q Consensus        75 ~~--~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~k--l~~~~~~~~~~~~l~~~~~~~~  145 (203)
                      +.  .|+.|||+||...... ..||.+-.+-...-+...|..+-++++-..  -..    ..+.+.+..|....+
T Consensus        83 ~~~~rgl~vVGwYHSHP~~~-a~PS~~Dv~tq~~~q~~~p~~v~lIvS~~~~~~~~----~~~~~~i~aFr~~~g  152 (244)
T cd08068          83 EETGRPMRVVGWYHSHPHIT-VWPSHVDVRTQAMYQMMDSGFVGLIFSCFNEDKST----KMGEVQVTCFQSVQG  152 (244)
T ss_pred             hhccCCceEEEEEecCCCCC-CCCCHhHHHHHHHHHhhCCCcEEEEEEecCCcccc----ccCCEEEEEEEecCC
Confidence            43  7899999999986543 556765544322222234666666664221  111    233456777776553

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

>PLN03246 26S proteasome regulatory subunit; Provisional

Probab=98.26  E-value=1.6e-05  Score=71.31  Aligned_cols=122  Identities=16%  Similarity=0.197  Sum_probs=87.8

Q ss_pred             eEEeHHHHHHHHhhhhcCCC---CceeEEEeeecCCCCCCceEEEeeeecccCCCCcch---H--HHHHHHHHHHHHh-h
Q 028839            6 YELSQNAYIKLVLHARKHKT---AAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP---N--LEISLIMIEEHYS-A   76 (203)
Q Consensus         6 v~is~~AY~K~~LHAaKyP~---~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsP---m--lEvAL~qvd~~~~-~   76 (203)
                      |.+.+.+..+|+=|.-+...   ..|.|.|||...+   ..|+|++|.|+-|..-.=.+   .  .+-...+.+.+-+ -
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            88999999999999988874   4599999998754   48999999999986422111   1  2334455665544 2


Q ss_pred             cCCeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCCcEEEEEe
Q 028839           77 QGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIR  142 (203)
Q Consensus        77 ~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~  142 (203)
                      .+..+||||+....+     ++....|-+-+.+.++++++++||-.. .      ....++.+|..
T Consensus        85 ~~~~vVGWY~tg~~i-----~~~d~~IH~~~~~~~~~Pv~L~vD~~~-~------~~~lpi~aY~s  138 (303)
T PLN03246         85 AKEHVVGWYSTGPKL-----RENDLDIHELFNDYVPNPVLVIIDVQP-K------ELGIPTKAYYA  138 (303)
T ss_pred             CCCcEEeeecCCCCC-----CcchHHHHHHHHhhCCCCeEEEEecCC-C------CCCCceEEEEE
Confidence            568999999976444     445567778888889999999998432 1      12245778874

>cd08066 MPN_AMSH_like Mov34/MPN/PAD-1 family

Probab=98.15  E-value=0.00011  Score=60.75  Aligned_cols=126  Identities=13%  Similarity=0.105  Sum_probs=85.5

Q ss_pred             eEEeHHHHHHHHhhhhcC-C-CCceeEEEeeecCCCCCCceEEEeeeecccCCCC--cchHHHHHHHHHHHHHhhcCCeE
Q 028839            6 YELSQNAYIKLVLHARKH-K-TAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLG--LLPNLEISLIMIEEHYSAQGLGI   81 (203)
Q Consensus         6 v~is~~AY~K~~LHAaKy-P-~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~--LsPmlEvAL~qvd~~~~~~~l~I   81 (203)
                      +.|+...|-|++-||-.- | -..|+|+|.|+..+   +...|++.+..-.....  ..++=+   .++..+++..|+.+
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 47899999997543   35667776332211111  111111   12445677899999


Q ss_pred             EEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCCcEEEEEec--CCCCeE
Q 028839           82 VGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIRD--ASKNWK  149 (203)
Q Consensus        82 vGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~~--~~~~W~  149 (203)
                      +|+||.... ....||+.-.+.--+.....|+++.++++-.           .+.+..|...  .+-.|.
T Consensus        78 vGwyHSHP~-~~~~pS~~Dv~t~~~~~~~~p~~~~lIvSp~-----------~~~l~afrl~~~~g~~~~  135 (173)
T cd08066          78 LGWIHTHPT-QTCFLSSVDLHTHCSYQLMLPEAIAIVCAPK-----------YNEFGIFRLTDPPGLDEI  135 (173)
T ss_pred             EEEEeccCC-CCCccCHHHHHHHHHHHhcCCCeEEEEECCC-----------CcEEeEEEeecCCcceec
Confidence            999999654 3467888887777777777899998888732           2456666655  345773

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=97.62  E-value=0.00054  Score=60.97  Aligned_cols=114  Identities=18%  Similarity=0.318  Sum_probs=74.9

Q ss_pred             eEEeHHHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeee--ecccCCCCcchHHHHHHHHHHH---HHhhcC--
Q 028839            6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSV--PLFHSHLGLLPNLEISLIMIEE---HYSAQG--   78 (203)
Q Consensus         6 v~is~~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaV--PLfH~~~~LsPmlEvAL~qvd~---~~~~~~--   78 (203)
                      |.||..|..||+.||-.=-.-.|-|++.|+..+   .+++|-||.  |+-=+-+-..--+ -|.+-.-+   -|+.-|  
T Consensus        55 vkISalAllKm~~hA~~GgnlEiMGlm~Gkv~g---~t~IvmD~FaLPVeGTETRVNAq~-~AyEYmv~Y~e~~k~~gr~  130 (347)
T KOG1554|consen   55 VKISALALLKMVMHARSGGNLEIMGLMQGKVDG---DTIIVMDSFALPVEGTETRVNAQA-EAYEYMVQYIEEAKNVGRL  130 (347)
T ss_pred             hhhHHHHHHHHHHHHhcCCCeEEEeeecccccC---CeEEEEeccccccccccceechHH-HHHHHHHHHHHHHHHhhhh
Confidence            789999999999999999999999999998754   589999987  5554443333222 23322222   244444  


Q ss_pred             CeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCc-EEEEEeCcccc
Q 028839           79 LGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQC-AVLLLDNKKLE  125 (203)
Q Consensus        79 l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a-~~l~ldn~kl~  125 (203)
                      ..+|||||.....+ .=++.+- -...++.+.|.++ +.+|||-.+-.
T Consensus       131 envVGWyHSHPgYg-CWLSgID-VsTQ~lNQ~fQePfvAvViDP~Rtl  176 (347)
T KOG1554|consen  131 ENVVGWYHSHPGYG-CWLSGID-VSTQMLNQRFQEPFVAVVIDPTRTL  176 (347)
T ss_pred             hceeeeeecCCCCC-ccccCcc-hhHHHHhhhhcCCeEEEEecCcccc
Confidence            77999999987654 3333211 1123445556655 56778976543

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

Probab=97.46  E-value=0.0014  Score=50.90  Aligned_cols=114  Identities=14%  Similarity=0.272  Sum_probs=72.3

Q ss_pred             HHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecc--cCC----CCcchHHHHHHHHHHHHHhhcCCeEEEE
Q 028839           11 NAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLF--HSH----LGLLPNLEISLIMIEEHYSAQGLGIVGY   84 (203)
Q Consensus        11 ~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLf--H~~----~~LsPmlEvAL~qvd~~~~~~~l~IvGy   84 (203)
                      ..+-+|+-||.+-.-..++|+|+|+....   ...|++.+|+=  +..    ..+.|.   .+..+...+++.|+.+||.
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            45779999999955688999999986443   44668888873  221    123442   3446667778899999999


Q ss_pred             EEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCCcEEEEEecCC
Q 028839           85 FHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIRDAS  145 (203)
Q Consensus        85 Y~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~~~~  145 (203)
                      ||..... ...||..=.+.+     ..+....+++...         ...+.+..|..+++
T Consensus        76 ~HSHP~~-~~~PS~~D~~~~-----~~~~~~~lIv~~~---------~~~~~~~~~~~~~~  121 (128)
T cd08070          76 YHSHPDG-PARPSETDLRLA-----WPPGVSYLIVSLA---------GGAPELRAWRLEGG  121 (128)
T ss_pred             EeCCCCC-CCCCCHHHHHhc-----cCCCCeEEEEECC---------CCCcEEEEEEEcCC
Confidence            9997653 345665433332     2334555555421         11456777776553

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=96.79  E-value=0.0062  Score=44.96  Aligned_cols=76  Identities=24%  Similarity=0.281  Sum_probs=50.5

Q ss_pred             HHHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecccCCCCcchHHHHHHHHHHH-HHhhcCCeEEEEEEeC
Q 028839           10 QNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEE-HYSAQGLGIVGYFHAN   88 (203)
Q Consensus        10 ~~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~qvd~-~~~~~~l~IvGyY~An   88 (203)
                      .++|.+|+-|+...+....+|+|+|+...   +.+.+++.++       ..|--+++.   .. .....|+.++|.||..
T Consensus         2 ~~~~~~i~~~~~~~~p~E~~G~L~g~~~~---~~~~~~~~~~-------~~p~~~~~~---~~~~~~~~~~~~vg~~HSH   68 (104)
T PF14464_consen    2 EEVLEQIIAHARAAYPNEACGLLLGRRDD---QRFIVVPNVN-------PDPRDSFRR---ERFEARERGLEIVGIWHSH   68 (104)
T ss_dssp             -HHHHHHHHHHHHHTTS-EEEEEEEEEEC---CEEEEEEEEE---------HHCHHHH---HH-HHHHHT-EEEEEEEEE
T ss_pred             HHHHHHHHHHHhhCCCCeEEEEEEEEecC---CEEEEEeCCC-------CCcHHHHHH---HhhhhhcccceeeEEEEcC
Confidence            46899999999998899999999998733   4678888877       223322222   22 5567999999999997


Q ss_pred             CCCCCCCCCHH
Q 028839           89 ERFDDLELDSI   99 (203)
Q Consensus        89 e~~~d~~~~~~   99 (203)
                      .... ..||..
T Consensus        69 P~~~-a~pS~~   78 (104)
T PF14464_consen   69 PSGP-AFPSST   78 (104)
T ss_dssp             SSSS-SS--HH
T ss_pred             CCCC-CCCCHH
Confidence            6543 245543

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

Probab=95.99  E-value=0.22  Score=38.38  Aligned_cols=108  Identities=12%  Similarity=0.107  Sum_probs=64.6

Q ss_pred             EeHHHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecccCCCCcch--HHHHHHHHHHHHHhhcCCeEEEEE
Q 028839            8 LSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP--NLEISLIMIEEHYSAQGLGIVGYF   85 (203)
Q Consensus         8 is~~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsP--mlEvAL~qvd~~~~~~~l~IvGyY   85 (203)
                      |+...+-.|+-||.+-.-..++|+|+|+.     +  .|++..|+==..-+ .+  .+++       .....|+.|+|.|
T Consensus         1 i~~~~~~~i~~ha~~~~P~E~CGlL~G~~-----~--~v~~~~~~~n~~~~-~~~~~f~~-------~~~~~g~~ivgi~   65 (117)
T cd08072           1 ISRDLLDSILEAAKSSHPNEFAALLRGKD-----G--VITELLILPGTESG-EVSAVFPL-------LMLPLDMSIVGSV   65 (117)
T ss_pred             CCHHHHHHHHHHHhhcCCceEEEEEEeec-----c--EEEEEEECCCCCCC-Ccceeech-------HHhcCCCeEEEEE
Confidence            45678899999999655578889999953     1  45666654311111 11  1111       1346899999999


Q ss_pred             EeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCCcEEEEEecCC
Q 028839           86 HANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIRDAS  145 (203)
Q Consensus        86 ~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~~~~  145 (203)
                      |.... ....||+.=.+.|     ..++...+++.   +      ..+.+.+..|..+++
T Consensus        66 HSHP~-~~~~PS~~D~~~~-----~~~~~~~lIvs---~------~~~~~~~~a~~~~g~  110 (117)
T cd08072          66 HSHPS-GSPRPSDADLSFF-----SKTGLVHIIVG---Y------PYDEDDWRAYDSDGE  110 (117)
T ss_pred             EcCCC-CCCCCCHHHHHhh-----hcCCCEEEEEE---C------cCCCCCEEEEecCCC
Confidence            99754 3455665543332     23566655553   1      112356788877664

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=95.42  E-value=0.48  Score=41.83  Aligned_cols=110  Identities=23%  Similarity=0.360  Sum_probs=69.8

Q ss_pred             eEEeHHHHHHHHhhh---hcCCCCceeEEEeeecCCCCCCceEEEe--eeecccC------CCCcchHHHHHHHHHHHHH
Q 028839            6 YELSQNAYIKLVLHA---RKHKTAAVNGVLLGRVSPQNDAVVEIAD--SVPLFHS------HLGLLPNLEISLIMIEEHY   74 (203)
Q Consensus         6 v~is~~AY~K~~LHA---aKyP~~aVnGvLlG~~~~~~~~~v~i~D--aVPLfH~------~~~LsPmlEvAL~qvd~~~   74 (203)
                      |.+.+.-..-.+=|-   +|--...|-|||||...+   +++-|+.  |||.=--      |.-=.-.+|--..+...- 
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            556666655555553   344448999999996533   4677775  4453211      110112333322222221 


Q ss_pred             hhcCCeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCcccc
Q 028839           75 SAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLE  125 (203)
Q Consensus        75 ~~~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~  125 (203)
                       ..+..||||||.-.++..+.+     .|-+-+.+++|++++++||-+.=+
T Consensus        87 -NakekivGWYhTGPkl~~nDl-----~In~l~k~y~pnpvLvIIdvkpk~  131 (309)
T KOG1556|consen   87 -NAKEKVVGWYHTGPKLRENDL-----DINELLKRYVPNPVLVIIDVKPKE  131 (309)
T ss_pred             -cchhheeeeeccCCccccchh-----hHHHHHhhcCCCceEEEEeccccc
Confidence             245889999999888876665     588889999999999999977554

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

Probab=94.70  E-value=0.12  Score=46.83  Aligned_cols=113  Identities=15%  Similarity=0.215  Sum_probs=66.6

Q ss_pred             eEEeHHHHHHHHhhh-hcCCCCceeEEE-eee---cCCCCCCceEEEee---eecccCCCCcchHHHHHH-HHHHHHHhh
Q 028839            6 YELSQNAYIKLVLHA-RKHKTAAVNGVL-LGR---VSPQNDAVVEIADS---VPLFHSHLGLLPNLEISL-IMIEEHYSA   76 (203)
Q Consensus         6 v~is~~AY~K~~LHA-aKyP~~aVnGvL-lG~---~~~~~~~~v~i~Da---VPLfH~~~~LsPmlEvAL-~qvd~~~~~   76 (203)
                      +.++..|-.||..|+ ++=|...|.|++ +|+   .-..  -++.++|.   -+-+=....+.|-+.-.. +|.....+.
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 577777799999 993   2222  23444442   222211111223333333 555556666


Q ss_pred             cC--CeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeC
Q 028839           77 QG--LGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDN  121 (203)
Q Consensus        77 ~~--l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn  121 (203)
                      .|  +.+|||||....|. ..|+.+-..--..-+..++.++..+||-
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  55999999988776 3333332222222333366677766663

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

Probab=94.45  E-value=0.17  Score=44.78  Aligned_cols=109  Identities=20%  Similarity=0.260  Sum_probs=82.9

Q ss_pred             eEEeHHHHHHHHhhhhcCCC--CceeEEEeeecCCCCCCceEEEeeeecccCCC--CcchHHHHHHHHHHHHHhh-cCCe
Q 028839            6 YELSQNAYIKLVLHARKHKT--AAVNGVLLGRVSPQNDAVVEIADSVPLFHSHL--GLLPNLEISLIMIEEHYSA-QGLG   80 (203)
Q Consensus         6 v~is~~AY~K~~LHAaKyP~--~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~--~LsPmlEvAL~qvd~~~~~-~~l~   80 (203)
                      +.+.+.-|.-++=|--+.|.  ..|.|-|||+.++   ++|+|+.|.-.=|--.  .+.-=+|-|..+.+.+-+. .+-.
T Consensus        23 v~ihP~Vlf~ivD~~~RR~~~~~rviGTLLG~~~~---g~ieitNCFaVPhnEssdqvevdm~y~~~M~~l~~k~npnE~   99 (288)
T KOG2975|consen   23 VRLHPVVLFSIVDAYERRNKGAERVIGTLLGTVDK---GSVEVTNCFAVPHNESSDQVEVDMEYAKNMYELHKKVNPNEL   99 (288)
T ss_pred             EEEcceEEeEeehhhhcCCccchhhhhheeecccC---CeEEEEEeeeccCccccccceeeHHHHHHHHHHhcccCCCce
Confidence            56666666666666667775  5699999998875   4899999987767543  3555678888888888764 5699


Q ss_pred             EEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCc
Q 028839           81 IVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNK  122 (203)
Q Consensus        81 IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~  122 (203)
                      |||||--.     .+++..+.-|-|--++.+++++-+.||..
T Consensus       100 vvGWyaTg-----~dvt~~sslihdyYare~~~pvhLtVDT~  136 (288)
T KOG2975|consen  100 VVGWYATG-----HDVTEHSSLIHDYYAREAPNPVHLTVDTS  136 (288)
T ss_pred             eEEEEecC-----CCcccchhHHHHHhhccCCCCeEEEEecc
Confidence            99999853     33455667888888999999999998854

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

Probab=94.17  E-value=0.75  Score=35.84  Aligned_cols=88  Identities=15%  Similarity=0.175  Sum_probs=55.7

Q ss_pred             EEeHHHHHHHHhhhhcC-CCCceeEEEeeecCCCCCCceEEEeeeecccCCCCcchHHHHHHHHHHHHHhhcCCeEEEEE
Q 028839            7 ELSQNAYIKLVLHARKH-KTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYF   85 (203)
Q Consensus         7 ~is~~AY~K~~LHAaKy-P~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~qvd~~~~~~~l~IvGyY   85 (203)
                      .|+....-+|+-||.+= | ..|+|+|.|+...-....+..++.-|..+.  -..||..+    ....++..|+.+||.|
T Consensus         3 ~i~~~~l~~il~~a~~~~p-~E~~g~l~~~~~~~~~~~~~n~~~~~~~~~--~~~~~~~~----~~~~~~~~g~~vvg~y   75 (134)
T COG1310           3 VIPKEVLGAILEHARREHP-REVCGLLAGTREGERYFPLKNVSVEPVEYF--EIDPEYSL----FYLAAEDAGEVVVGWY   75 (134)
T ss_pred             eecHHHHHHHHHHHHhcCC-hheEEEEEeecccceeeccccccCCcceeE--eeCHHHHH----HHHHHhhCCCEEEEEE
Confidence            57788888999998765 6 999999999753200012344455554443  34565544    3344567899999999


Q ss_pred             EeCCCCCCCCCCHHHHH
Q 028839           86 HANERFDDLELDSIAKN  102 (203)
Q Consensus        86 ~Ane~~~d~~~~~~a~k  102 (203)
                      |...... ..||..=.+
T Consensus        76 HSHP~~~-~~pS~~D~~   91 (134)
T COG1310          76 HSHPGGP-PYPSEADRR   91 (134)
T ss_pred             cCCCCCC-CCcCHHHHh
Confidence            9876432 445544333

>TIGR02256 ICE_VC0181 integrative and conjugative element protein, VC0181 family

Probab=93.55  E-value=1.1  Score=35.72  Aligned_cols=90  Identities=18%  Similarity=0.160  Sum_probs=58.0

Q ss_pred             CceeEEEeeecCCCCCCceEEEeeeecccC----CCCcchHHHHHHHHHHHHHh-hcC-CeEEEEEEeCCCCCCCCCCHH
Q 028839           26 AAVNGVLLGRVSPQNDAVVEIADSVPLFHS----HLGLLPNLEISLIMIEEHYS-AQG-LGIVGYFHANERFDDLELDSI   99 (203)
Q Consensus        26 ~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~----~~~LsPmlEvAL~qvd~~~~-~~~-l~IvGyY~Ane~~~d~~~~~~   99 (203)
                      ..-.|+|+|+...   +.+.|+|+++=-..    ....-+=-+-.-.+++.+.+ +.| +..+|-+|....... .||..
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            4789999998753   47889988842222    12233323333445666554 445 899999999765443 78888


Q ss_pred             HHHHHHHHHhhCCCcEEEEE
Q 028839          100 AKNIGNHICRYFPQCAVLLL  119 (203)
Q Consensus       100 a~kIa~kI~~~~~~a~~l~l  119 (203)
                      -.+-..++.+.....+++++
T Consensus        93 D~~~~~~~~~~~~~~l~iIv  112 (131)
T TIGR02256        93 DRRSWRTIIRSPEAMLLLIV  112 (131)
T ss_pred             HHHHHHHHHhCCCeeEEEEE
Confidence            88888888886444333333

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=92.99  E-value=1.2  Score=32.85  Aligned_cols=82  Identities=12%  Similarity=0.161  Sum_probs=54.2

Q ss_pred             HHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecccCCCCcchHHHHHHHHHHHHHhhcCCeEEEEEEeCCCC
Q 028839           12 AYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERF   91 (203)
Q Consensus        12 AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~qvd~~~~~~~l~IvGyY~Ane~~   91 (203)
                      .|-.|.-|+.+-....++|+|+|+..    .  .+....++.=.....+|.-       ...+...|..+||.||.... 
T Consensus         2 ~~~~i~~~~~~~~p~E~~gll~~~~~----~--~~~~~~~~~~~~~~~~~~~-------~~~a~~~~~~~v~i~HsHP~-   67 (101)
T cd08059           2 LLKTILVHAKDAHPDEFCGFLSGSKD----N--VMDELIFLPFVSGSVSAVI-------DLAALEIGMKVVGLVHSHPS-   67 (101)
T ss_pred             HHHHHHHHHHhcCChhhheeeecCCC----C--eEEEEEeCCCcCCccChHH-------HHHHhhCCCcEEEEEecCcC-
Confidence            35567778877745778899999531    1  4456666664444556653       55677899999999998754 


Q ss_pred             CCCCCCHHHHHHHHHH
Q 028839           92 DDLELDSIAKNIGNHI  107 (203)
Q Consensus        92 ~d~~~~~~a~kIa~kI  107 (203)
                      ++..||..=.+.+.++
T Consensus        68 g~~~PS~~D~~~~~~~   83 (101)
T cd08059          68 GSCRPSEADLSLFTRF   83 (101)
T ss_pred             CCCCCCHHHHHHHHhc
Confidence            4566776655555443

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.

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

Probab=88.32  E-value=5.1  Score=36.09  Aligned_cols=112  Identities=21%  Similarity=0.237  Sum_probs=71.3

Q ss_pred             eEEeHHHHHHHHhhhhcCCC--CceeEEEeeecCCCCCCceEEEeeeecccCCCCcchHHHHH-----------HHHHHH
Q 028839            6 YELSQNAYIKLVLHARKHKT--AAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEIS-----------LIMIEE   72 (203)
Q Consensus         6 v~is~~AY~K~~LHAaKyP~--~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvA-----------L~qvd~   72 (203)
                      |++...--.||+-|+----+  ..+-|+|+|=.-+   +.++|+.|.|---.    .||=+=|           ..|.+.
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----LENEDDAVNKSVSDEARQAYQLAM   87 (339)
T ss_pred             eeehhHHHHHHHHHHHhhcCCcchhhheeeeeeec---ceeEeecccCCCcc----CCCccchhhhhhhHHHHHHHHHHH
Confidence            78888999999999875433  6899999996544   48999999996542    2332222           111111


Q ss_pred             H--Hhh--cCCeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccc
Q 028839           73 H--YSA--QGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEA  126 (203)
Q Consensus        73 ~--~~~--~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~  126 (203)
                      .  .+.  -..-+||||+...-  .+.++|.--.--=.-+.-.|..++++.|-.|=+.
T Consensus        88 lrrlr~vnid~~hVGwYqs~~v--gs~lS~~lveSqy~YQ~a~pesVvliYD~~kssq  143 (339)
T KOG1560|consen   88 LRRLRYVNIDHLHVGWYQSAYV--GSFLSPALVESQYAYQKAIPESVVLIYDPIKSSQ  143 (339)
T ss_pred             HHHhhhcCccceeeeeeeeehh--ccccCHHHHHHHHHHHhcCCccEEEEeccccccC
Confidence            0  111  33569999998532  2445554333333445667889999999776543

>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=81.55  E-value=7.5  Score=29.47  Aligned_cols=70  Identities=14%  Similarity=0.170  Sum_probs=40.1

Q ss_pred             HHHHHHhhh-hcCCCCceeEEEeeecCCCCCCceEEEeeeecc---cC---CCCcchHHHHHHHHHHHHHhhcCCeEEEE
Q 028839           12 AYIKLVLHA-RKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLF---HS---HLGLLPNLEISLIMIEEHYSAQGLGIVGY   84 (203)
Q Consensus        12 AY~K~~LHA-aKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLf---H~---~~~LsPmlEvAL~qvd~~~~~~~l~IvGy   84 (203)
                      .|-.|+-|| ..|| ...+|+|+|+.  +    +  +-.+|+=   ..   ...+.|.-.++..       +.| .|+|.
T Consensus         2 i~~~i~~ha~~~~P-~E~CGll~g~~--~----~--~~~~p~~N~~~~p~~~F~idp~e~~~a~-------~~~-~ivgi   64 (108)
T cd08073           2 LEDAILAHAKAEYP-REACGLVVRKG--R----K--LRYIPCRNIAADPEEHFEISPEDYAAAE-------DEG-EIVAV   64 (108)
T ss_pred             HHHHHHHHHhHCCC-CcceEEEEecC--C----c--eEEEECccCCCCccceEEeCHHHHHHHh-------cCC-CEEEE
Confidence            356788899 6777 56669999953  1    1  2235543   11   1234554333221       233 89999


Q ss_pred             EEeCCCCCCCCCCHH
Q 028839           85 FHANERFDDLELDSI   99 (203)
Q Consensus        85 Y~Ane~~~d~~~~~~   99 (203)
                      ||.... ....||..
T Consensus        65 ~HSHP~-~~a~PS~~   78 (108)
T cd08073          65 VHSHPD-GSPAPSEA   78 (108)
T ss_pred             EEcCCC-CCCCCCHH
Confidence            999754 33556654

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.

---

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	203
2o95_A	187	26S proteasome non-ATPase regulatory subunit 7; PS	99.76
4e0q_A	141	COP9 signalosome complex subunit 6; MPN (MPR1P and	99.08
4b4t_V	306	26S proteasome regulatory subunit RPN11; hydrolase	99.03
2znr_A	178	AMSH-like protease; metal binding protein, alterna	98.49
2kks_A	146	Uncharacterized protein; NESG, structural genomics	98.14
3rzv_A	211	STAM-binding protein; ubiquitin hydrolase, endosom	98.09
4b4t_U	338	RPN8, 26S proteasome regulatory subunit RPN8; hydr	97.99
2kcq_A	153	MOV34/MPN/PAD-1 family; NESG, structure, structura	97.98
1oi0_A	124	AF2198, hypothetical protein AF2198; proteasome, d	97.59

>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=4.4e-18  Score=139.53  Aligned_cols=122  Identities=20%  Similarity=0.265  Sum_probs=100.3

Q ss_pred             eEEeHHHHHHHHhhhhcCC----CCceeEEEeeecCCCCCCceEEEeeeecccCCCCcch---HH--HHHHHHHHHHHhh
Q 028839            6 YELSQNAYIKLVLHARKHK----TAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP---NL--EISLIMIEEHYSA   76 (203)
Q Consensus         6 v~is~~AY~K~~LHAaKyP----~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsP---ml--EvAL~qvd~~~~~   76 (203)
                      |.|++.++.||+.|+.|+|    ...|+|+|||+..+   +.++|+||+||.|......|   ++  |....+++.+.+.
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    68999999998753   48999999999998766655   44  8899999998876


Q ss_pred             c-CCeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCCcEEEEEe
Q 028839           77 Q-GLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIR  142 (203)
Q Consensus        77 ~-~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~  142 (203)
                      + ++.||||||++...++.+     ..|++.+++.++++++|++|..+...       ...+.+|..
T Consensus        87 ~~~~~iVGWY~s~~~~s~~d-----~~i~~~~~~~~~~~v~Livd~~~~~~-------~l~i~ay~~  141 (187)
T 2o95_A           87 NARERIVGWYHTGPKLHKND-----IAINELMKRYCPNSVLVIIDVKPKDL-------GLPTEAYIS  141 (187)
T ss_dssp             SSSCEEEEEEECCSSCCTTH-----HHHHHHHTTTCTTCEEEEECCCTTC--------CCSEEEEEE
T ss_pred             CCCCCEEEEEcCCCcCCccc-----HHHHHHHHhcCCCCEEEEECCCCCCC-------CcCeEEEEE
Confidence            5 899999999998775432     34788888889999999999876421       245788865

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

Probab=99.08  E-value=1e-09  Score=86.65  Aligned_cols=111  Identities=16%  Similarity=0.197  Sum_probs=83.6

Q ss_pred             ceEEeHHHHHHHHhhhhcC-----CCCceeEEEeeecCCCCCCceEEEeeeecccCCCC--cchHHHHHHHHHHHHHhh-
Q 028839            5 KYELSQNAYIKLVLHARKH-----KTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLG--LLPNLEISLIMIEEHYSA-   76 (203)
Q Consensus         5 ~v~is~~AY~K~~LHAaKy-----P~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~--LsPmlEvAL~qvd~~~~~-   76 (203)
                      .|.|++.+..||+=|+.+-     ....|.|+|||...+   .+++|+||.|+-|....  ...-.|-...+.+.+-+- 
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            4899999999999999884     235799999998744   58999999999997421  234457777788877664 


Q ss_pred             cCCeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCcc
Q 028839           77 QGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKK  123 (203)
Q Consensus        77 ~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~k  123 (203)
                      .+..|||||+....     +++.-..|-+.+.+.++++++|++|-.+
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            56999999998653     3444457888888999999999999654

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

Probab=99.03  E-value=3.3e-09  Score=93.46  Aligned_cols=125  Identities=18%  Similarity=0.261  Sum_probs=90.4

Q ss_pred             eEEeHHHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecccCCCC-----cchHHHHHHHHHHHHHhh--cC
Q 028839            6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLG-----LLPNLEISLIMIEEHYSA--QG   78 (203)
Q Consensus         6 v~is~~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~-----LsPmlEvAL~qvd~~~~~--~~   78 (203)
                      |.||+.|..||+.||..-....|.|+|||+..++  .++.|+||+|+=|....     ..|..+   ......+++  .+
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--YTVNVVDVFAMPQSGTGVSVEAVDDVFQ---AKMMDMLKQTGRD  101 (306)
T ss_dssp             EEECHHHHHHHHHHTCSCSSSCCEEEEEEEEETT--TEEEEEEEECCCCEESSSCEECCCHHHH---HHHHHHHHHHSCC
T ss_pred             EEEeHHHHHHHHHHhcCCCCceEEEEEeeEEcCC--eEEEEEEEEeCCcCCCCCchhcCCHHHH---HHHHHHHHHhCCC
Confidence            8999999999999998877789999999975444  57999999999776432     333222   122223344  44


Q ss_pred             CeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCCcEEEEEe
Q 028839           79 LGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIR  142 (203)
Q Consensus        79 l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~  142 (203)
                      ..+|||||....+. .-++.+-...-..-+...+.++.|++|-.+-..      +...+.+|..
T Consensus       102 ~~vVGWYhShP~~~-~~~S~~Di~tq~~yQ~~~~~~V~lV~Dp~~t~~------G~~~i~Afr~  158 (306)
T 4b4t_V          102 QMVVGWYHSHPGFG-CWLSSVDVNTQKSFEQLNSRAVAVVVDPIQSVK------GKVVIDAFRL  158 (306)
T ss_dssp             CCCSEEEEECCSSS-CCCCHHHHHHHHHHHHHCSSCEEEEECSSSSSS------CSSCEEEEEC
T ss_pred             cceeeEEecCCCCC-CcCCHHHHHHHHHHHhcCCCcEEEEECCCcCCC------CceeeeEEEe
Confidence            88999999987665 557777777777777888899999999765422      2344666643

>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=98.49  E-value=1.9e-06  Score=70.30  Aligned_cols=114  Identities=14%  Similarity=0.111  Sum_probs=82.1

Q ss_pred             ccc-eEEeHHHHHHHHhhhhc-CCC-CceeEEEeeecCCCCCCceEEEeeeecccCCCCcc--hHHHHHHHHHHHHHhhc
Q 028839            3 ELK-YELSQNAYIKLVLHARK-HKT-AAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLL--PNLEISLIMIEEHYSAQ   77 (203)
Q Consensus         3 ~M~-v~is~~AY~K~~LHAaK-yP~-~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~Ls--PmlEvAL~qvd~~~~~~   77 (203)
                      ++. |.|+...+.||+-||-. ||. ..|+|+|+|+...   +...|++++|+=-....-+  .+-+.  .+ -.+....
T Consensus         7 ~~~~v~i~~~~l~k~l~hA~~~~~~~~EvcGlL~G~~~~---~~~~V~~v~~~pq~~t~~~~~~~~~~--e~-~~~~~~~   80 (178)
T 2znr_A            7 GLRCVVLPEDLCHKFLQLAESNTVRGIETCGILCGKLTH---NEFTITHVIVPKQSAGPDYCDMENVE--EL-FNVQDQH   80 (178)
T ss_dssp             SCCCEEEETTHHHHHHHHHHHHHTTTCCCEEEEEEEEET---TEEEEEEEEECCEEEETTEEEECCHH--HH-HHHHHHH
T ss_pred             CcEEEEECHHHHHHHHHHHHhCCCCCceEEEEEeeEecC---CCeEEEEEEeCCcCCCCCeeccCCHH--HH-HHHHHhC
Confidence            344 89999999999999986 564 7888999998754   3678899987653221111  01011  11 1235678


Q ss_pred             CCeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCcc
Q 028839           78 GLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKK  123 (203)
Q Consensus        78 ~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~k  123 (203)
                      |+.+||+||...... ..||+.-...+-+.+...+.++.++++-.+
T Consensus        81 ~l~~vGwyHSHP~~~-~~pS~~Dv~tq~~yq~~~~~~v~iIvsp~~  125 (178)
T 2znr_A           81 DLLTLGWIHTHPTQT-AFLSSVDLHTHCSYQLMLPEAIAIVCSPKH  125 (178)
T ss_dssp             TCEEEEEEEECSSSC-SCCCHHHHHHHHHHHHHCTTCEEEEEEGGG
T ss_pred             CCEEEEEEeCCCCCC-CCCCHHHHHHHHHHHhhcCCEEEEEEcCCC
Confidence            999999999975533 678988888888888888999999988543

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

Probab=98.14  E-value=2.3e-05  Score=61.27  Aligned_cols=124  Identities=16%  Similarity=0.257  Sum_probs=82.2

Q ss_pred             eEEeHHHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecccCC-----CCcchHHHHHHHHHHHHHhhcCCe
Q 028839            6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSH-----LGLLPNLEISLIMIEEHYSAQGLG   80 (203)
Q Consensus         6 v~is~~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~-----~~LsPmlEvAL~qvd~~~~~~~l~   80 (203)
                      +.|+..++.+|+-||.+-.-..++|+|+|+...   ....|++++|+=-..     ....|.   .+..+...++..|+.
T Consensus         2 l~i~~~~l~~i~~ha~~~~p~E~cGlL~G~~~~---~~~~v~~~~p~~n~~~~~~~f~~dp~---~~~~~~~~~~~~g~~   75 (146)
T 2kks_A            2 ITLTKKQMEEMLAHARQALPNEACGLLGGRRDG---DDRWVERVYPLNNLDQSPEHFSMDPR---EQLTAVKDMRKNGWV   75 (146)
T ss_dssp             EEEEHHHHHHHHHHHHHHTTSCEEEEEEEEEET---TEEEEEEEECCCCCSCCSSSCCCCHH---HHHHHHHHHHHHTCE
T ss_pred             EEECHHHHHHHHHHHHhcCCcceEEEEEEEEcC---CCcEEEEEEECCCcCCCCceEEECHH---HHHHHHHHHHHCCCE
Confidence            689999999999999984347999999998643   357899999985221     223443   334444566778999


Q ss_pred             EEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCCcEEEEEecCCCCeEE
Q 028839           81 IVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIRDASKNWKL  150 (203)
Q Consensus        81 IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~~~~~~W~~  150 (203)
                      +||+||..... ...||..-.+.+     ..++.+.+++...        ....+.+..|...++ ++.+
T Consensus        76 ivG~~HSHP~~-~~~PS~~D~~~~-----~~~~~~~lIvs~~--------~~~~~~~~af~~~~~-~~~e  130 (146)
T 2kks_A           76 MLGNFHSHPAT-PARPSAEDKRLA-----FDPSLSYLIISLA--------EPQKPVCKSFLIKKD-GVDE  130 (146)
T ss_dssp             EEEEEEEESSS-CSSCCHHHHTTC-----CSSSCEEEEEECS--------CSSSCEEEEEEECSS-CEEE
T ss_pred             EEEEEeCCCcC-CCCCCHHHHHhh-----hcCCCeEEEEEcc--------CCCceEEEEEEEeCC-eEEE
Confidence            99999998653 356775544322     2356665555422        112356788877553 6654

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

Probab=98.09  E-value=1.5e-05  Score=66.90  Aligned_cols=108  Identities=16%  Similarity=0.156  Sum_probs=80.1

Q ss_pred             eEEeHHHHHHHHhhhhcC-CC-CceeEEEeeecCCCCCCceEEEeeeecccCCCC----cchHHHHHHHHHHHHHhhcCC
Q 028839            6 YELSQNAYIKLVLHARKH-KT-AAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLG----LLPNLEISLIMIEEHYSAQGL   79 (203)
Q Consensus         6 v~is~~AY~K~~LHAaKy-P~-~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~----LsPmlEvAL~qvd~~~~~~~l   79 (203)
                      |.|+...+.|++-||-.. |. ..|+|+|+|+..+   +..+|++++.+.-....    +....|    +. .|....|+
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 6888999998654   47889999855433222    111111    11 23345899


Q ss_pred             eEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCc
Q 028839           80 GIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNK  122 (203)
Q Consensus        80 ~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~  122 (203)
                      .+||+||.... ....+|+.-.....+.+...+..+.|++|-.
T Consensus       116 ~~vGWyHSHP~-~~~~pS~~Dl~tq~~~q~~~~~~I~IVvsP~  157 (211)
T 3rzv_A          116 ITLGWIHTHPT-QTAFLSSVDLHTHCSYQMMLPESVAIVCSPK  157 (211)
T ss_dssp             EEEEEEEECTT-SCSCCCHHHHHHHHHHHHHCTTCEEEEEETT
T ss_pred             EEEEEEeCCCC-CCCCCCHHHHHHHHHHHhcCCCeEEEEEcCC
Confidence            99999998654 3367899988888899989999999999844

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

Probab=97.99  E-value=0.00011  Score=65.22  Aligned_cols=109  Identities=16%  Similarity=0.234  Sum_probs=76.8

Q ss_pred             eEEeHHHHHHHHhhhhc-CC--CCceeEEEeeecCCCCCCceEEEeeeecccCCCCcch-----HHHHHHHHHHHHHh-h
Q 028839            6 YELSQNAYIKLVLHARK-HK--TAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP-----NLEISLIMIEEHYS-A   76 (203)
Q Consensus         6 v~is~~AY~K~~LHAaK-yP--~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsP-----mlEvAL~qvd~~~~-~   76 (203)
                      |.|.+.+..+|+=|..+ .+  ...|.|.|||...+   ..|+|++|.|+-|....-.+     =.+-.-.+.+.|-+ -
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  35799999998644   58999999999886432211     12333344444433 2


Q ss_pred             cCCeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCC-CcEEEEEeCc
Q 028839           77 QGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFP-QCAVLLLDNK  122 (203)
Q Consensus        77 ~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~-~a~~l~ldn~  122 (203)
                      ....|||||+....     +.+....|-+-+.+.+. +++++++|..
T Consensus        85 ~~e~iVGWY~tg~~-----~~~~d~~Ih~~~~~~~~~~pi~l~~d~~  126 (338)
T 4b4t_U           85 AKEKLIGWYHSGPK-----LRASDLKINELFKKYTQNNPLLLIVDVK  126 (338)
T ss_dssp             CSCEEEEEEECCSS-----CCSTHHHHHHHHGGGCCSCCCEEEECSC
T ss_pred             ccCCEEEEEecCCC-----CCccHHHHHHHHHhccCCCcEEEEecCC
Confidence            56999999997533     44555678888888775 6777777754

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

Probab=97.98  E-value=2.5e-05  Score=61.50  Aligned_cols=103  Identities=16%  Similarity=0.231  Sum_probs=70.9

Q ss_pred             eEEeHHHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecccC-------CCCcchHHHHHHHHHHHHHhhcC
Q 028839            6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHS-------HLGLLPNLEISLIMIEEHYSAQG   78 (203)
Q Consensus         6 v~is~~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~-------~~~LsPmlEvAL~qvd~~~~~~~   78 (203)
                      +.|+..++.+|+-||.+---..++|+|+|+...+  ..+.|++++|+-=.       ...+.|.   .+..+...++..|
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            3689999999999999843379999999986523  46889999999643       1224443   2334455667789


Q ss_pred             CeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEE
Q 028839           79 LGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLL  119 (203)
Q Consensus        79 l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~l  119 (203)
                      +.|||+||..... ...||..-..-+     ..+.++.+++
T Consensus        76 ~~ivG~yHSHP~~-~~~PS~~D~~~~-----~~~~~~~lIv  110 (153)
T 2kcq_A           76 LDVVGVYHSHPDH-PARPSATDLEEA-----TFPGFTYVIV  110 (153)
T ss_dssp             CEEEEEEEECSSS-SSSCCHHHHHTC-----CCTTSEEEEE
T ss_pred             CeEEEEEeCCCCC-CCCCCHHHHHhh-----hcCCCeEEEE
Confidence            9999999998753 356776543322     2356655555

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

Probab=97.59  E-value=0.00066  Score=51.47  Aligned_cols=98  Identities=11%  Similarity=0.045  Sum_probs=62.7

Q ss_pred             CccceEEeHHHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecccCCCCcchHHHHHHHHHHHHHhhcCCeE
Q 028839            2 GELKYELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGI   81 (203)
Q Consensus         2 ~~M~v~is~~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~qvd~~~~~~~l~I   81 (203)
                      |+| +.|+..++.+|+-||.+---..++|+|+|+.       -.|++.+|+= .. +-.|-.+.-.     .....|+.|
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            455 7899999999999997654469999999953       1778998886 43 2222211111     234588999


Q ss_pred             EEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEe
Q 028839           82 VGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLD  120 (203)
Q Consensus        82 vGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ld  120 (203)
                      ||.||.... ....||..-.+-+.     .+++..+++.
T Consensus        66 vG~~HSHP~-~~~~PS~~D~~~~~-----~~~~~~lIvs   98 (124)
T 1oi0_A           66 FGTVHSHPS-PSCRPSEEDLSLFT-----RFGKYHIIVC   98 (124)
T ss_dssp             EEEEEEESS-SCCSCCHHHHHHHH-----HSCSEEEEEE
T ss_pred             EEEEEECcC-CCCccCHHHHHhhh-----cCCCEEEEEE
Confidence            999999865 33667766554443     2566666654

---

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	203
d1oi0a_	121	Hypothetical protein AF2198 {Archaeon Archaeoglobu	96.04

>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=96.04  E-value=0.017  Score=41.94  Aligned_cols=84  Identities=11%  Similarity=0.078  Sum_probs=52.4

Q ss_pred             eEEeHHHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecccCCCCcchHHHHHHHHHHHHHhhcCCeEEEEE
Q 028839            6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYF   85 (203)
Q Consensus         6 v~is~~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~qvd~~~~~~~l~IvGyY   85 (203)
                      ++|+..++..|+-||.+-.-..++|+|+|+.  +     .+++.+|+=-..  -.|..     ..+......|+.|+|.|
T Consensus         4 l~I~~~~l~~i~~hA~~~~P~E~cGlL~G~~--~-----~i~~~~~~~n~~--~~~~~-----~~~~~~~~~~~~ivgi~   69 (121)
T d1oi0a_           4 MKISRGLLKTILEAAKSAHPDEFIALLSGSK--D-----VMDELIFLPFVS--GSVSA-----VIHLDMLPIGMKVFGTV   69 (121)
T ss_dssp             CEECHHHHHHHHHHHHHHTTSCCEEEEEEST--T-----EECEEEECCCCC--------------------CCCEEEEEE
T ss_pred             EEECHHHHHHHHHHHHhcCCceeEEEEEecC--C-----cEEEEEEcCCCC--CCccc-----ccccchhhcCCeEEEEE
Confidence            7899999999999998865579999999953  1     345555554322  22221     11223356799999999


Q ss_pred             EeCCCCCCCCCCHHHHHHH
Q 028839           86 HANERFDDLELDSIAKNIG  104 (203)
Q Consensus        86 ~Ane~~~d~~~~~~a~kIa  104 (203)
                      |....- +..||..-.+.+
T Consensus        70 HSHP~~-~a~PS~~D~~~~   87 (121)
T d1oi0a_          70 HSHPSP-SCRPSEEDLSLF   87 (121)
T ss_dssp             EEESSS-CCSCCHHHHHHH
T ss_pred             EecCCC-CCCcCHHHHHhh
Confidence            997643 466776554443