Citrus Sinensis ID: 029202

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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-------
Protein Sequence
MDFSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTKRMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKKQPLVTEQKLDPSKLQRLTEYVFHLEH
Secondary Structure (PSIPRED)
ccccHHHHHHHHHcHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHcccHHHHHHHHcccHHHHHHcHHHHHHHHHHHHHHcccHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHcccHHHHHHHHHHcccEEcccccccccccccccccccccHHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHcccHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHccHHHHHHHHHHccHHHHHccHHHHHHHHHHHHHHHccHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHcccHHHHHHHHHHcccEEcccccEEccccccccccccccHHHHHHHHHHHHHHHc
Coil and Loop (DISEMBL)
MDFSPLTDALASKSYEKIADICDDLMLKVAAEgivfqdewpYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTKRMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQqqgwtldpasrmltvkkqplvteqkldpsklqRLTEYVFHLEH
Flexible Loop (DISEMBL)
MDFSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTKRMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKKQplvteqkldpsklqrlTEYVFHLEH
Low Complexity Region (SEG)
MDFSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTKRMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKKQPLVTEQKLDPSKLQRLTEYVFHLEH
Disordered region (IsUnstruct)
*************SYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTKRMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTV*******************TEYVF****
Disordered Region (DISOPRED)
*****LTDALASKSYEKIADICDDLMLKVA*EGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTKRMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRM*********************LTEYVFHLEH
Disordered Region (DISEMBL)
********ALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTKRMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKKQPLVTEQKLDPSKLQRLTEYVFHLEH
Disordered Region (DISPRO)
*DFSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTKRMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKKQPLVTEQKLDPSKLQRLTEYVFHLEH
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDFSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTKRMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKKQPLVTEQKLDPSKLQRLTEYVFHLEH
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	197	2.2.26 [Sep-21-2011]
P43255	197	COP9 signalosome complex	yes	no	1.0	1.0	0.715	1e-81
Q6GQA6	195	COP9 signalosome complex	N/A	no	0.771	0.779	0.403	9e-27
Q6P637	193	COP9 signalosome complex	yes	no	0.771	0.787	0.397	2e-26
Q7ZUZ0	191	COP9 signalosome complex	yes	no	0.766	0.790	0.389	3e-26
Q6P4Z9	209	COP9 signalosome complex	yes	no	0.913	0.861	0.336	3e-26
Q8VBV7	209	COP9 signalosome complex	yes	no	0.913	0.861	0.336	3e-26
Q5RF54	209	COP9 signalosome complex	yes	no	0.913	0.861	0.331	3e-26
Q99627	209	COP9 signalosome complex	yes	no	0.913	0.861	0.331	3e-26
Q75K24	196	COP9 signalosome complex	yes	no	0.964	0.969	0.251	4e-14
Q7KTH8	182	COP9 signalosome complex	yes	no	0.741	0.802	0.264	2e-06

>sp|P43255|CSN8_ARATH COP9 signalosome complex subunit 8 OS=Arabidopsis thaliana GN=CSN8 PE=1 SV=1

 Score =  302 bits (773), Expect = 1e-81,   Method: Compositional matrix adjust.
 Identities = 141/197 (71%), Positives = 168/197 (85%)

Query: 1   MDFSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARF 60
           MD SP+ +ALA+KS++KIADICD LML+VA+EGI + D+WPY IHLLGY+YV+D +SARF
Sbjct: 1   MDLSPVKEALAAKSFDKIADICDTLMLQVASEGIEYHDDWPYAIHLLGYFYVDDCDSARF 60

Query: 61  LWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTK 120
           LWK IP+ IK+ + EVVAAW IGQ LWT DYAGVY+AIRG+DWSQEA+ +VAAFS+LYTK
Sbjct: 61  LWKRIPTAIKERKPEVVAAWGIGQKLWTHDYAGVYEAIRGYDWSQEAKDMVAAFSDLYTK 120

Query: 121 RMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKKQPLVTEQKL 180
           RMFQLLLSAYSTI+  D ALFLGM EDDA  YV + GWT+D AS+M +VKKQ +  EQK+
Sbjct: 121 RMFQLLLSAYSTITIHDLALFLGMTEDDATTYVVENGWTVDAASQMASVKKQAVKREQKV 180

Query: 181 DPSKLQRLTEYVFHLEH 197
           D SKLQRLTEYVFHLEH
Sbjct: 181 DSSKLQRLTEYVFHLEH 197

Component of the COP9 signalosome complex (CSN), a complex involved in various cellular and developmental processes such as photomorphogenesis and auxin and jasmonate responses. The CSN complex is an essential regulator of the ubiquitin (Ubl) conjugation pathway by mediating the deneddylation of the cullin subunits of SCF-type E3 ligase complexes, leading to decrease the Ubl ligase activity of SCF. It is involved in repression of photomorphogenesis in darkness by regulating the activity of COP1-containing Ubl ligase complexes. The complex is also required for degradation of IAA6 by regulating the activity of the Ubl ligase SCF-TIR complex.
Arabidopsis thaliana (taxid: 3702)

>sp|Q6GQA6|CSN8_XENLA COP9 signalosome complex subunit 8 OS=Xenopus laevis GN=csn8 PE=2 SV=2

 Score =  119 bits (299), Expect = 9e-27,   Method: Compositional matrix adjust.
 Identities = 63/156 (40%), Positives = 95/156 (60%), Gaps = 4/156 (2%)

Query: 45  HLLGYYYV-NDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDW 103
            LL  Y + ND+N+AR+LWK IPS IK S +E+   W++GQ +W RD+ G+Y +I  + W
Sbjct: 41  QLLALYLLHNDLNNARYLWKRIPSAIKSSHSELGGIWEVGQKIWQRDFPGIYTSISAYQW 100

Query: 104 SQEAQALVAAFSELYTKRMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWTLDPA 163
           S+  Q ++ A  +   +R F L+  AY++IS  D A F+G+  ++A   V +QGW  D A
Sbjct: 101 SENIQQIMEAVRDATQQRAFGLVSQAYTSISADDFAAFVGLPVEEAVKGVLEQGWQADSA 160

Query: 164 SRMLTVKKQPLVTEQKLDPS--KLQRLTEYVFHLEH 197
           + M+  KK P      L P+  +L RLT+YV  LE+
Sbjct: 161 TGMVMPKK-PDSAPLSLIPNEQQLARLTDYVAFLEN 195

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

Xenopus laevis (taxid: 8355)

>sp|Q6P637|CSN8_XENTR COP9 signalosome complex subunit 8 OS=Xenopus tropicalis GN=csn8 PE=2 SV=1

 Score =  118 bits (296), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 62/156 (39%), Positives = 95/156 (60%), Gaps = 4/156 (2%)

Query: 45  HLLGYYYV-NDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDW 103
            LL  Y + ND+N+AR+LWK IP  IK + +E+   W++GQ +W RD+ G+Y +I    W
Sbjct: 39  QLLALYLLHNDMNNARYLWKRIPPAIKSAHSELGGIWEVGQKIWQRDFPGIYTSISACQW 98

Query: 104 SQEAQALVAAFSELYTKRMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWTLDPA 163
           S+  Q ++ A  +   +R F L+  AY++IS  D A F+G++ ++A   V +QGW  D A
Sbjct: 99  SEAIQPVMEAVRDATRRRAFGLVSQAYTSISADDFAAFVGLSVEEAVKGVIEQGWQADLA 158

Query: 164 SRMLTVKKQPLVTEQKLDPS--KLQRLTEYVFHLEH 197
           +RM+  KK P      L P+  +L RLT+YV  LE+
Sbjct: 159 TRMVMPKK-PDSAPLSLIPNEQQLARLTDYVAFLEN 193

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

Xenopus tropicalis (taxid: 8364)

>sp|Q7ZUZ0|CSN8_DANRE COP9 signalosome complex subunit 8 OS=Danio rerio GN=cops8 PE=2 SV=1

 Score =  118 bits (296), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 60/154 (38%), Positives = 91/154 (59%), Gaps = 3/154 (1%)

Query: 46  LLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQ 105
           L+ Y   ND+N+AR+LWK IP  IK +  E+ A W +GQ +W RD+ G+Y AI  + WS+
Sbjct: 39  LVLYLLHNDMNNARYLWKRIPQAIKTANPEMAAIWAVGQRIWQRDFPGIYSAIAAYQWSE 98

Query: 106 EAQALVAAFSELYTKRMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWTLDPASR 165
               ++ A  E   +R + L+  AY++IS +D A F+G + ++A   V   GW  DP +R
Sbjct: 99  SILPVMEALRESTRRRAYGLVAQAYTSISAEDFAAFVGYSVEEAVKGVVSHGWQADPNTR 158

Query: 166 MLTVKKQPLVTEQKLDPS--KLQRLTEYVFHLEH 197
           M+  +K P      L P+  +L RLT+YV  LE+
Sbjct: 159 MIMPQK-PDPPPVSLVPNEQQLARLTDYVAFLEN 191

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

Danio rerio (taxid: 7955)

>sp|Q6P4Z9|CSN8_RAT COP9 signalosome complex subunit 8 OS=Rattus norvegicus GN=Cops8 PE=2 SV=1

 Score =  118 bits (295), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 68/202 (33%), Positives = 104/202 (51%), Gaps = 22/202 (10%)

Query: 14  SYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYV-NDINSARFLWKSIPSTIKDS 72
           S+ K+ D C++  L+ A  GI      P    LL  Y + ND+N+AR+LWK IP  IK +
Sbjct: 12  SFRKLLDQCENQELE-APGGIATP---PVYGQLLALYLLQNDMNNARYLWKRIPPAIKSA 67

Query: 73  RAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTKRMFQLLLSAYST 132
            +E+   W +GQ +W RD+ G+Y  I    WS+  Q ++ A  +   +R F L+  AY++
Sbjct: 68  NSELGGIWSVGQRIWQRDFPGIYTTINAHQWSETVQPIMEALRDATRRRAFALVSQAYTS 127

Query: 133 ISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKKQ-------------PLVTEQK 179
           I   D A F+G+  ++A   V +QGW  D  +RM+  +K              PL     
Sbjct: 128 IIADDFAAFVGLPVEEAVKGVLEQGWQADSTTRMVLPRKPAPGALDVSLNRFIPLSEPAP 187

Query: 180 LDP----SKLQRLTEYVFHLEH 197
           + P     +L RLT+YV  LE+
Sbjct: 188 VPPIPNEQQLARLTDYVAFLEN 209

Component of the COP9 signalosome complex (CSN), a complex involved in various cellular and developmental processes. The CSN complex is an essential regulator of the ubiquitin (Ubl) conjugation pathway by mediating the deneddylation of the cullin subunits of SCF-type E3 ligase complexes, leading to decrease the Ubl ligase activity of SCF-type complexes such as SCF, CSA or DDB2. The complex is also involved in phosphorylation of p53/TP53, c-jun/JUN, IkappaBalpha/NFKBIA, ITPK1 and IRF8/ICSBP, possibly via its association with CK2 and PKD kinases. CSN-dependent phosphorylation of TP53 and JUN promotes and protects degradation by the Ubl system, respectively.

Rattus norvegicus (taxid: 10116)

>sp|Q8VBV7|CSN8_MOUSE COP9 signalosome complex subunit 8 OS=Mus musculus GN=Cops8 PE=1 SV=1

 Score =  118 bits (295), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 68/202 (33%), Positives = 104/202 (51%), Gaps = 22/202 (10%)

Query: 14  SYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYV-NDINSARFLWKSIPSTIKDS 72
           S+ K+ D C++  L+ A  GI      P    LL  Y + ND+N+AR+LWK IP  IK +
Sbjct: 12  SFRKLLDQCENQELE-APGGIATP---PVYGQLLALYLLQNDMNNARYLWKRIPPAIKSA 67

Query: 73  RAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTKRMFQLLLSAYST 132
            +E+   W +GQ +W RD+ G+Y  I    WS+  Q ++ A  +   +R F L+  AY++
Sbjct: 68  NSELGGIWSVGQRIWQRDFPGIYTTINAHQWSETVQPIMEALRDATRRRAFALVSQAYTS 127

Query: 133 ISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKKQ-------------PLVTEQK 179
           I   D A F+G+  ++A   V +QGW  D  +RM+  +K              PL     
Sbjct: 128 IIADDFAAFVGLPVEEAVKGVLEQGWQADSTTRMVLPRKPASGTLDVSLNRFIPLSEPAP 187

Query: 180 LDP----SKLQRLTEYVFHLEH 197
           + P     +L RLT+YV  LE+
Sbjct: 188 VPPIPNEQQLARLTDYVAFLEN 209

Component of the COP9 signalosome complex (CSN), a complex involved in various cellular and developmental processes. The CSN complex is an essential regulator of the ubiquitin (Ubl) conjugation pathway by mediating the deneddylation of the cullin subunits of SCF-type E3 ligase complexes, leading to decrease the Ubl ligase activity of SCF-type complexes such as SCF, CSA or DDB2. The complex is also involved in phosphorylation of p53/TP53, c-jun/JUN, IkappaBalpha/NFKBIA, ITPK1 and IRF8/ICSBP, possibly via its association with CK2 and PKD kinases. CSN-dependent phosphorylation of TP53 and JUN promotes and protects degradation by the Ubl system, respectively.

Mus musculus (taxid: 10090)

>sp|Q5RF54|CSN8_PONAB COP9 signalosome complex subunit 8 OS=Pongo abelii GN=COPS8 PE=2 SV=1

 Score =  118 bits (295), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 67/202 (33%), Positives = 105/202 (51%), Gaps = 22/202 (10%)

Query: 14  SYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYV-NDINSARFLWKSIPSTIKDS 72
           S++K+ D C++  L+ A  GI      P    LL  Y + ND+N+AR+LWK IP  IK +
Sbjct: 12  SFKKLLDQCENQELE-APGGIATP---PVYGQLLALYLLHNDMNNARYLWKRIPPAIKSA 67

Query: 73  RAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTKRMFQLLLSAYST 132
            +E+   W +GQ +W RD+ G+Y  I    WS+  Q ++ A  +   +R F L+  AY++
Sbjct: 68  NSELGGIWSVGQRIWQRDFPGIYTTINAHQWSETVQPIMEALRDATRRRAFALVSQAYTS 127

Query: 133 ISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKKQ-------------PLVTEQK 179
           I   D A F+G+  ++A   + +QGW  D  +RM+  +K              PL     
Sbjct: 128 IVADDFAAFVGLPVEEAVKGILEQGWQADSTTRMVLPRKPVAGALDVSFNKFIPLSEPAP 187

Query: 180 LDP----SKLQRLTEYVFHLEH 197
           + P     +L RLT+YV  LE+
Sbjct: 188 VPPIPNEQQLARLTDYVAFLEN 209

Component of the COP9 signalosome complex (CSN), a complex involved in various cellular and developmental processes. The CSN complex is an essential regulator of the ubiquitin (Ubl) conjugation pathway by mediating the deneddylation of the cullin subunits of SCF-type E3 ligase complexes, leading to decrease the Ubl ligase activity of SCF-type complexes such as SCF, CSA or DDB2. The complex is also involved in phosphorylation of p53/TP53, c-jun/JUN, IkappaBalpha/NFKBIA, ITPK1 and IRF8/ICSBP, possibly via its association with CK2 and PKD kinases. CSN-dependent phosphorylation of TP53 and JUN promotes and protects degradation by the Ubl system, respectively.

Pongo abelii (taxid: 9601)

>sp|Q99627|CSN8_HUMAN COP9 signalosome complex subunit 8 OS=Homo sapiens GN=COPS8 PE=1 SV=1

 Score =  117 bits (294), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 67/202 (33%), Positives = 105/202 (51%), Gaps = 22/202 (10%)

Query: 14  SYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYV-NDINSARFLWKSIPSTIKDS 72
           S++K+ D C++  L+ A  GI      P    LL  Y + ND+N+AR+LWK IP  IK +
Sbjct: 12  SFKKLLDQCENQELE-APGGIATP---PVYGQLLALYLLHNDMNNARYLWKRIPPAIKSA 67

Query: 73  RAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTKRMFQLLLSAYST 132
            +E+   W +GQ +W RD+ G+Y  I    WS+  Q ++ A  +   +R F L+  AY++
Sbjct: 68  NSELGGIWSVGQRIWQRDFPGIYTTINAHQWSETVQPIMEALRDATRRRAFALVSQAYTS 127

Query: 133 ISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKKQ-------------PLVTEQK 179
           I   D A F+G+  ++A   + +QGW  D  +RM+  +K              PL     
Sbjct: 128 IIADDFAAFVGLPVEEAVKGILEQGWQADSTTRMVLPRKPVAGALDVSFNKFIPLSEPAP 187

Query: 180 LDP----SKLQRLTEYVFHLEH 197
           + P     +L RLT+YV  LE+
Sbjct: 188 VPPIPNEQQLARLTDYVAFLEN 209

Component of the COP9 signalosome complex (CSN), a complex involved in various cellular and developmental processes. The CSN complex is an essential regulator of the ubiquitin (Ubl) conjugation pathway by mediating the deneddylation of the cullin subunits of SCF-type E3 ligase complexes, leading to decrease the Ubl ligase activity of SCF-type complexes such as SCF, CSA or DDB2. The complex is also involved in phosphorylation of p53/TP53, c-jun/JUN, IkappaBalpha/NFKBIA, ITPK1 and IRF8/ICSBP, possibly via its association with CK2 and PKD kinases. CSN-dependent phosphorylation of TP53 and JUN promotes and protects degradation by the Ubl system, respectively.

Homo sapiens (taxid: 9606)

>sp|Q75K24|CSN8_DICDI COP9 signalosome complex subunit 8 OS=Dictyostelium discoideum GN=csn8 PE=1 SV=1

 Score = 78.2 bits (191), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 50/199 (25%), Positives = 101/199 (50%), Gaps = 9/199 (4%)

Query: 1   MDFSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARF 60
           M F+ + + ++SK+++ I D C     ++ ++ I     + Y ++LL Y   ND+ +A+ 
Sbjct: 1   MAFTEIANLISSKNFKAILDYCQ--RQEIESKNIDLIKSY-YGVYLLSYLINNDLINAKH 57

Query: 61  LWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTK 120
           LWK IP+  K S  ++   + I + +   +    Y ++   +   +    +    E + +
Sbjct: 58  LWKRIPNDFKQSNQQLKNIYTIIKSISQTNPTITYTSL-SINIGDDYTPFITTLKENFQQ 116

Query: 121 RMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKKQPLVTEQKL 180
           R F+L+ +AYS+I+  D + +LG++ +D   +   + W  D AS   T+K  P+  +   
Sbjct: 117 RTFELISNAYSSITVNDCSSYLGISPEDTIKFTTSKCWEHDKASN--TLKPVPIQKQSSE 174

Query: 181 DPS---KLQRLTEYVFHLE 196
            P+   +++ LT YV  LE
Sbjct: 175 LPTGNQQIRSLTSYVLFLE 193

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

Dictyostelium discoideum (taxid: 44689)

>sp|Q7KTH8|CSN8_DROME COP9 signalosome complex subunit 8 OS=Drosophila melanogaster GN=CSN8 PE=1 SV=1

 Score = 52.0 bits (123), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 40/151 (26%), Positives = 73/151 (48%), Gaps = 5/151 (3%)

Query: 49  YYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQ 108
           Y Y N +  A+ LW  +P+ ++D + E++    +   L   +YA  +  I+ ++WS+  +
Sbjct: 35  YLYQNKLADAKLLWMRVPANLRDDK-ELIQLNLLNIALQNNNYADFFKHIK-YEWSERVK 92

Query: 109 ALVAAFSELYTKRMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWT--LDPASRM 166
           + V        + +F+L+ SAY +I   +      M+ED+  +      WT  LD    +
Sbjct: 93  SPVEDLLNKQREELFKLMGSAYMSIYQHNLLELSLMSEDELKHACAALNWTEELDGDRVI 152

Query: 167 LTVKKQPLVTEQKLDPSKLQRLTEYVFHLEH 197
           L  K Q     +  D  +L +LTE+V  LE+
Sbjct: 153 LKPKVQEAPPARGND-DQLLKLTEFVTFLEN 182

Probable component of the COP9 signalosome complex (CSN), a complex involved in various cellular and developmental processes. The CSN complex is an essential regulator of the ubiquitin (Ubl) conjugation pathway by mediating the deneddylation of the cullin subunits of the SCF-type E3 ligase complexes, leading to decrease the Ubl ligase activity of SCF. The CSN complex plays an essential role in oogenesis and embryogenesis and is required for proper photoreceptor R cell differentiation and promote lamina glial cell migration or axon targeting. It also promotes Ubl-dependent degradation of cyclin E (CycE) during early oogenesis.

Drosophila melanogaster (taxid: 7227)

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	197
147798444	197	hypothetical protein VITISV_002704 [Viti	1.0	1.0	0.786	8e-89
225447785	197	PREDICTED: COP9 signalosome complex subu	1.0	1.0	0.781	1e-88
388514231	197	unknown [Lotus japonicus]	1.0	1.0	0.781	3e-88
255627935	197	unknown [Glycine max]	1.0	1.0	0.786	3e-88
351726828	197	uncharacterized protein LOC100500543 [Gl	1.0	1.0	0.776	7e-87
224054304	199	predicted protein [Populus trichocarpa]	1.0	0.989	0.783	9e-86
1256771	204	COP9 [Spinacia oleracea]	1.0	0.965	0.736	7e-84
29468343	197	CSN8 [Nicotiana benthamiana]	1.0	1.0	0.746	1e-82
449444681	197	PREDICTED: COP9 signalosome complex subu	1.0	1.0	0.736	4e-82
312281795	197	unnamed protein product [Thellungiella h	1.0	1.0	0.720	4e-82

>gi|147798444|emb|CAN67908.1| hypothetical protein VITISV_002704 [Vitis vinifera]

 Score =  331 bits (849), Expect = 8e-89,   Method: Compositional matrix adjust.
 Identities = 155/197 (78%), Positives = 175/197 (88%)

Query: 1   MDFSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARF 60
           MDF+P+ DA+ SKSY KIADICDDLML+V+ +GI F+DEWPY IHLLG+ YV+DINSARF
Sbjct: 1   MDFTPIKDAMTSKSYGKIADICDDLMLQVSTQGIAFEDEWPYTIHLLGHIYVDDINSARF 60

Query: 61  LWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTK 120
           LWKSIP  IK+ + EV AAWKIGQ LWTRDYA V++AIRGF+WS EAQ +VAAFSELYTK
Sbjct: 61  LWKSIPPAIKERQPEVGAAWKIGQRLWTRDYAAVHEAIRGFEWSPEAQCIVAAFSELYTK 120

Query: 121 RMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKKQPLVTEQKL 180
           +MFQLLLSAYSTIS QDTALFLGM+EDD   YV +QGWT+D ASRMLTVKKQP+VTEQKL
Sbjct: 121 KMFQLLLSAYSTISIQDTALFLGMSEDDVTNYVVEQGWTVDSASRMLTVKKQPIVTEQKL 180

Query: 181 DPSKLQRLTEYVFHLEH 197
           DPSKLQRLTEYVFHLEH
Sbjct: 181 DPSKLQRLTEYVFHLEH 197

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225447785|ref|XP_002266060.1| PREDICTED: COP9 signalosome complex subunit 8 [Vitis vinifera] gi|296081479|emb|CBI20002.3| unnamed protein product [Vitis vinifera]

 Score =  331 bits (848), Expect = 1e-88,   Method: Compositional matrix adjust.
 Identities = 154/197 (78%), Positives = 175/197 (88%)

Query: 1   MDFSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARF 60
           MDF+P+ DA+ SKSY KIAD+CDDLML+V+ +GI F+DEWPY IHLLG+ YV+DINSARF
Sbjct: 1   MDFTPIKDAMTSKSYGKIADVCDDLMLQVSTQGIAFEDEWPYTIHLLGHIYVDDINSARF 60

Query: 61  LWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTK 120
           LWKSIP  IK+ + EV AAWKIGQ LWTRDYA V++AIRGF+WS EAQ +VAAFSELYTK
Sbjct: 61  LWKSIPPAIKERQPEVGAAWKIGQRLWTRDYAAVHEAIRGFEWSPEAQCIVAAFSELYTK 120

Query: 121 RMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKKQPLVTEQKL 180
           +MFQLLLSAYSTIS QDTALFLGM+EDD   YV +QGWT+D ASRMLTVKKQP+VTEQKL
Sbjct: 121 KMFQLLLSAYSTISIQDTALFLGMSEDDVTNYVVEQGWTVDSASRMLTVKKQPIVTEQKL 180

Query: 181 DPSKLQRLTEYVFHLEH 197
           DPSKLQRLTEYVFHLEH
Sbjct: 181 DPSKLQRLTEYVFHLEH 197

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388514231|gb|AFK45177.1| unknown [Lotus japonicus]

 Score =  329 bits (844), Expect = 3e-88,   Method: Compositional matrix adjust.
 Identities = 154/197 (78%), Positives = 173/197 (87%)

Query: 1   MDFSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARF 60
           MD S +T  LASKSY+K+ADICD+LML+VA +GI + D+WPY IHLL ++YVNDINSARF
Sbjct: 1   MDLSTVTATLASKSYDKVADICDNLMLQVATDGIGYHDDWPYAIHLLSHFYVNDINSARF 60

Query: 61  LWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTK 120
           LWKSIPS+IK+++ EV A W+IGQ LW RDYAGV++AIRGFDWSQE Q  VAAFSELYTK
Sbjct: 61  LWKSIPSSIKENKPEVTAVWRIGQKLWLRDYAGVHEAIRGFDWSQELQGFVAAFSELYTK 120

Query: 121 RMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKKQPLVTEQKL 180
            MFQLLLSAYSTIS  D ALFLGMNEDDA  YVQQQGWT+D ASRMLTVKKQP+VTEQKL
Sbjct: 121 EMFQLLLSAYSTISIADAALFLGMNEDDATSYVQQQGWTVDSASRMLTVKKQPVVTEQKL 180

Query: 181 DPSKLQRLTEYVFHLEH 197
           DPSKLQRLTEYVFHLEH
Sbjct: 181 DPSKLQRLTEYVFHLEH 197

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255627935|gb|ACU14312.1| unknown [Glycine max]

 Score =  329 bits (844), Expect = 3e-88,   Method: Compositional matrix adjust.
 Identities = 155/197 (78%), Positives = 175/197 (88%)

Query: 1   MDFSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARF 60
           MDFS +  AL SKSY+K+AD+CD+LML+VAAEGI +QD+WPY IHLL + YV+DINSARF
Sbjct: 1   MDFSSVRAALDSKSYDKVADVCDNLMLQVAAEGIAYQDDWPYTIHLLSHIYVHDINSARF 60

Query: 61  LWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTK 120
           LWKSIPS+IK+S+ EV A WKIGQ LW RDYAGV++ IRGFDW+QE Q LVAAFSELYTK
Sbjct: 61  LWKSIPSSIKESQPEVTAVWKIGQKLWLRDYAGVHETIRGFDWTQELQTLVAAFSELYTK 120

Query: 121 RMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKKQPLVTEQKL 180
            MFQLLLSAYSTIS +DTALFLGMNEDDA  YV QQGWT+DPAS+ML VKKQP+VTEQKL
Sbjct: 121 EMFQLLLSAYSTISIKDTALFLGMNEDDATNYVLQQGWTVDPASQMLIVKKQPVVTEQKL 180

Query: 181 DPSKLQRLTEYVFHLEH 197
           DPSKLQRLTEYVFHLEH
Sbjct: 181 DPSKLQRLTEYVFHLEH 197

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351726828|ref|NP_001235860.1| uncharacterized protein LOC100500543 [Glycine max] gi|255630595|gb|ACU15657.1| unknown [Glycine max]

 Score =  325 bits (833), Expect = 7e-87,   Method: Compositional matrix adjust.
 Identities = 153/197 (77%), Positives = 175/197 (88%)

Query: 1   MDFSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARF 60
           MDFS +  AL SKSY+KIAD+CD+LML+VAA+GI +QD+WPY  HLL + YV+DINSARF
Sbjct: 1   MDFSSVRAALDSKSYDKIADVCDNLMLQVAADGIAYQDDWPYAAHLLSHIYVHDINSARF 60

Query: 61  LWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTK 120
           LWKSIPS+IK+S+ EV A WKIGQ LW RDYAGV++AIR FDW+QE QALVA+F+ELYTK
Sbjct: 61  LWKSIPSSIKESQPEVTAVWKIGQKLWLRDYAGVHEAIRAFDWTQELQALVASFAELYTK 120

Query: 121 RMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKKQPLVTEQKL 180
            MFQLLLSAYSTIS +DTALFLGMNEDDA  Y+ QQGWT+DPASRML VKKQP+VTEQKL
Sbjct: 121 EMFQLLLSAYSTISIKDTALFLGMNEDDATNYLLQQGWTVDPASRMLIVKKQPVVTEQKL 180

Query: 181 DPSKLQRLTEYVFHLEH 197
           DPSKLQRLTEYVFHLEH
Sbjct: 181 DPSKLQRLTEYVFHLEH 197

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224054304|ref|XP_002298193.1| predicted protein [Populus trichocarpa] gi|222845451|gb|EEE82998.1| predicted protein [Populus trichocarpa]

 Score =  321 bits (823), Expect = 9e-86,   Method: Compositional matrix adjust.
 Identities = 156/199 (78%), Positives = 171/199 (85%), Gaps = 2/199 (1%)

Query: 1   MDFSPLTDALASKSYEKIADICDDLMLKVAAE--GIVFQDEWPYVIHLLGYYYVNDINSA 58
           MDFSPLTDALASKSY KIADICDDLMLK AAE  G+ F++EWP+ IHLL + YVND NSA
Sbjct: 1   MDFSPLTDALASKSYGKIADICDDLMLKGAAEMEGVPFEEEWPFAIHLLAHIYVNDTNSA 60

Query: 59  RFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELY 118
           RFLWKSIP+ +K+ + EVVAAW IGQ LWTRDYA V++AIR FDWSQ+ Q LVAAFSE+Y
Sbjct: 61  RFLWKSIPAAVKERQPEVVAAWGIGQRLWTRDYAAVHEAIRAFDWSQQIQPLVAAFSEVY 120

Query: 119 TKRMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKKQPLVTEQ 178
           TKRMFQLLLSAYSTIS QDTALFLGMNEDDA  YV QQGW +DP SRML VKKQ + TEQ
Sbjct: 121 TKRMFQLLLSAYSTISIQDTALFLGMNEDDATSYVLQQGWVVDPDSRMLIVKKQSVKTEQ 180

Query: 179 KLDPSKLQRLTEYVFHLEH 197
           KLD SKLQRLTEYVFHLEH
Sbjct: 181 KLDSSKLQRLTEYVFHLEH 199

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|1256771|gb|AAA96516.1| COP9 [Spinacia oleracea]

 Score =  315 bits (807), Expect = 7e-84,   Method: Compositional matrix adjust.
 Identities = 145/197 (73%), Positives = 172/197 (87%)

Query: 1   MDFSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARF 60
           MDFSPLTDA+AS+SY+KIADICD+LML+V+AEGIVFQ++WPY IHLLG+ Y  DINSARF
Sbjct: 8   MDFSPLTDAIASESYDKIADICDNLMLQVSAEGIVFQNDWPYAIHLLGHIYAGDINSARF 67

Query: 61  LWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTK 120
           LWKSIP  IK+S+ E++A W IGQ LWTRDYAGVY+A+R F+WS +    +AAFS+  TK
Sbjct: 68  LWKSIPIAIKESQPEIIAVWGIGQKLWTRDYAGVYEAVRSFNWSPQIHPFIAAFSDNNTK 127

Query: 121 RMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKKQPLVTEQKL 180
           +MFQLL++AYSTIS QDTALFLGM+ED+A  YV Q+GW LD A+RMLTVKKQ +VTEQKL
Sbjct: 128 KMFQLLVAAYSTISVQDTALFLGMSEDEATTYVLQEGWILDSAARMLTVKKQTIVTEQKL 187

Query: 181 DPSKLQRLTEYVFHLEH 197
           DPSKLQRLTEYVFHLEH
Sbjct: 188 DPSKLQRLTEYVFHLEH 204

Source: Spinacia oleracea

Species: Spinacia oleracea

Genus: Spinacia

Family: Amaranthaceae

Order: Caryophyllales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|29468343|gb|AAO85511.1| CSN8 [Nicotiana benthamiana]

 Score =  310 bits (795), Expect = 1e-82,   Method: Compositional matrix adjust.
 Identities = 147/197 (74%), Positives = 167/197 (84%)

Query: 1   MDFSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARF 60
           MD S L +AL SKS++KIADICD+L+L+ AAEGI  QDEWPY IHLLG+ Y NDINSARF
Sbjct: 1   MDTSQLNEALTSKSFDKIADICDNLLLQGAAEGIDCQDEWPYTIHLLGHIYNNDINSARF 60

Query: 61  LWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTK 120
           LWK IP+ +K+ R EVVA W+IGQ LWTRDY GVY+AIR F W+ E Q +VA+F+ELY K
Sbjct: 61  LWKKIPAALKEGRPEVVAVWRIGQKLWTRDYVGVYEAIREFSWTPEVQPIVASFAELYRK 120

Query: 121 RMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKKQPLVTEQKL 180
           RMF+LLLSAYSTIS QDTA FLGMNE+DA  YV QQGW LDPAS+MLTVKKQ +VTEQKL
Sbjct: 121 RMFELLLSAYSTISPQDTAQFLGMNENDATNYVLQQGWVLDPASQMLTVKKQAVVTEQKL 180

Query: 181 DPSKLQRLTEYVFHLEH 197
           DPSKLQRLTEYVFHLEH
Sbjct: 181 DPSKLQRLTEYVFHLEH 197

Source: Nicotiana benthamiana

Species: Nicotiana benthamiana

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449444681|ref|XP_004140102.1| PREDICTED: COP9 signalosome complex subunit 8-like [Cucumis sativus]

 Score =  309 bits (791), Expect = 4e-82,   Method: Compositional matrix adjust.
 Identities = 145/197 (73%), Positives = 166/197 (84%)

Query: 1   MDFSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARF 60
           MDF  LT+ALASKSY+KIADICDDLML+ AAEGI ++DEWPY IH LGY+YV+DINSARF
Sbjct: 1   MDFGRLTEALASKSYDKIADICDDLMLQAAAEGIAYKDEWPYAIHFLGYFYVDDINSARF 60

Query: 61  LWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTK 120
           LWKSIPSTIK++R E+VA WKIGQ LW RD+ GVY+AI   DW QE Q L+AAFS+LY +
Sbjct: 61  LWKSIPSTIKENRPELVAIWKIGQKLWVRDHRGVYEAIHELDWCQEVQGLLAAFSDLYRR 120

Query: 121 RMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKKQPLVTEQKL 180
           RMFQLL+SAYSTIS  DTA FLGMNE++   YV QQGW +D AS+M TVKKQ  V+EQKL
Sbjct: 121 RMFQLLVSAYSTISVHDTAQFLGMNEEEVTVYVTQQGWIIDLASQMFTVKKQETVSEQKL 180

Query: 181 DPSKLQRLTEYVFHLEH 197
           D SKLQRLTEYVFHLEH
Sbjct: 181 DSSKLQRLTEYVFHLEH 197

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|312281795|dbj|BAJ33763.1| unnamed protein product [Thellungiella halophila]

 Score =  309 bits (791), Expect = 4e-82,   Method: Compositional matrix adjust.
 Identities = 142/197 (72%), Positives = 172/197 (87%)

Query: 1   MDFSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARF 60
           MD S +T+ALA+KSY++IADICD+LML+VA+EGI F D+WPY IHLLGY+YV+D +SARF
Sbjct: 1   MDLSTVTEALAAKSYDRIADICDNLMLQVASEGISFHDDWPYAIHLLGYFYVDDCDSARF 60

Query: 61  LWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTK 120
           LWK+IP+ IK+S+ EVVAAW+IGQ LWTRDYAGVY+AIRG+DWSQEA+ +VAAFS+LYTK
Sbjct: 61  LWKTIPTAIKESKPEVVAAWRIGQKLWTRDYAGVYEAIRGYDWSQEAKDMVAAFSDLYTK 120

Query: 121 RMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKKQPLVTEQKL 180
           RMFQLLLSAYSTI+  D ALFLGM E+DA  YV + GW +D  S+M+TVKKQ +  EQK+
Sbjct: 121 RMFQLLLSAYSTITISDVALFLGMTENDATTYVVENGWIVDATSQMVTVKKQAVKREQKV 180

Query: 181 DPSKLQRLTEYVFHLEH 197
           D SKLQRLTEYVFHLEH
Sbjct: 181 DSSKLQRLTEYVFHLEH 197

Source: Thellungiella halophila

Species: Eutrema halophilum

Genus: Eutrema

Family: Brassicaceae

Order: Brassicales

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	197
TAIR|locus:2129435	197	COP9 "AT4G14110" [Arabidopsis	1.0	1.0	0.715	1.7e-75
ZFIN|ZDB-GENE-040426-982	191	cops8 "COP9 constitutive photo	0.766	0.790	0.389	2.5e-26
UNIPROTKB|A4FV74	209	COPS8 "COPS8 protein" [Bos tau	0.807	0.760	0.365	1.8e-25
UNIPROTKB|F1SM07	209	COPS8 "Uncharacterized protein	0.781	0.736	0.364	4.6e-25
UNIPROTKB|Q99627	209	COPS8 "COP9 signalosome comple	0.873	0.822	0.337	9.7e-25
MGI|MGI:1915363	209	Cops8 "COP9 (constitutive phot	0.786	0.741	0.348	1.2e-24
RGD|1311404	209	Cops8 "COP9 signalosome subuni	0.786	0.741	0.348	1.2e-24
UNIPROTKB|B8ZZP3	206	COPS8 "COP9 signalosome comple	0.857	0.820	0.342	2.6e-24
UNIPROTKB|E1C444	209	COPS8 "Uncharacterized protein	0.771	0.727	0.371	4.2e-24
UNIPROTKB|E9PGT6	173	COPS8 "COP9 signalosome comple	0.487	0.554	0.376	2.7e-18

TAIR|locus:2129435 COP9 "AT4G14110" [Arabidopsis thaliana (taxid:3702)]

 Score = 761 (272.9 bits), Expect = 1.7e-75, P = 1.7e-75
 Identities = 141/197 (71%), Positives = 168/197 (85%)

Query:     1 MDFSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARF 60
             MD SP+ +ALA+KS++KIADICD LML+VA+EGI + D+WPY IHLLGY+YV+D +SARF
Sbjct:     1 MDLSPVKEALAAKSFDKIADICDTLMLQVASEGIEYHDDWPYAIHLLGYFYVDDCDSARF 60

Query:    61 LWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTK 120
             LWK IP+ IK+ + EVVAAW IGQ LWT DYAGVY+AIRG+DWSQEA+ +VAAFS+LYTK
Sbjct:    61 LWKRIPTAIKERKPEVVAAWGIGQKLWTHDYAGVYEAIRGYDWSQEAKDMVAAFSDLYTK 120

Query:   121 RMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKKQPLVTEQKL 180
             RMFQLLLSAYSTI+  D ALFLGM EDDA  YV + GWT+D AS+M +VKKQ +  EQK+
Sbjct:   121 RMFQLLLSAYSTITIHDLALFLGMTEDDATTYVVENGWTVDAASQMASVKKQAVKREQKV 180

Query:   181 DPSKLQRLTEYVFHLEH 197
             D SKLQRLTEYVFHLEH
Sbjct:   181 DSSKLQRLTEYVFHLEH 197

GO:0005515 "protein binding" evidence=IPI

GO:0008180 "signalosome" evidence=TAS;IPI

GO:0009640 "photomorphogenesis" evidence=RCA;TAS

GO:0009753 "response to jasmonic acid stimulus" evidence=IMP

GO:0000338 "protein deneddylation" evidence=TAS

GO:0004222 "metalloendopeptidase activity" evidence=TAS

GO:0009416 "response to light stimulus" evidence=IMP

GO:0010387 "signalosome assembly" evidence=IMP

GO:0010388 "cullin deneddylation" evidence=RCA;IMP

GO:0006626 "protein targeting to mitochondrion" evidence=RCA

GO:0005634 "nucleus" evidence=IDA

ZFIN|ZDB-GENE-040426-982 cops8 "COP9 constitutive photomorphogenic homolog subunit 8 (Arabidopsis)" [Danio rerio (taxid:7955)]

 Score = 297 (109.6 bits), Expect = 2.5e-26, P = 2.5e-26
 Identities = 60/154 (38%), Positives = 91/154 (59%)

Query:    46 LLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQ 105
             L+ Y   ND+N+AR+LWK IP  IK +  E+ A W +GQ +W RD+ G+Y AI  + WS+
Sbjct:    39 LVLYLLHNDMNNARYLWKRIPQAIKTANPEMAAIWAVGQRIWQRDFPGIYSAIAAYQWSE 98

Query:   106 EAQALVAAFSELYTKRMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWTLDPASR 165
                 ++ A  E   +R + L+  AY++IS +D A F+G + ++A   V   GW  DP +R
Sbjct:    99 SILPVMEALRESTRRRAYGLVAQAYTSISAEDFAAFVGYSVEEAVKGVVSHGWQADPNTR 158

Query:   166 MLTVKKQPLVTEQKLDPSKLQ--RLTEYVFHLEH 197
             M+  +K P      L P++ Q  RLT+YV  LE+
Sbjct:   159 MIMPQK-PDPPPVSLVPNEQQLARLTDYVAFLEN 191

GO:0008150 "biological_process" evidence=ND

GO:0003674 "molecular_function" evidence=ND

GO:0008180 "signalosome" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|A4FV74 COPS8 "COPS8 protein" [Bos taurus (taxid:9913)]

 Score = 289 (106.8 bits), Expect = 1.8e-25, P = 1.8e-25
 Identities = 60/164 (36%), Positives = 93/164 (56%)

Query:     9 ALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYV-NDINSARFLWKSIPS 67
             A +S S++K+ D C++  L+ A  GI      P    LL  Y + ND+N+AR+LWK IP 
Sbjct:     7 AESSFSFKKLLDQCENQELE-APGGIATP---PVYGQLLALYLLHNDMNNARYLWKRIPP 62

Query:    68 TIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTKRMFQLLL 127
              IK + +E+   W +GQ +W RD+ GVY  I    WS+  Q ++ A  +   +R F L+ 
Sbjct:    63 AIKSANSELGGIWSVGQRIWQRDFPGVYSTINAHQWSEAVQPIMEALRDATRRRAFALVS 122

Query:   128 SAYSTISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKK 171
              AY++I   D A F+G+  ++A   + +QGW  D  +RM+  KK
Sbjct:   123 QAYTSIIADDFAAFVGLPVEEAVKGILEQGWQADSTTRMVMPKK 166

GO:0010388 "cullin deneddylation" evidence=IEA

GO:0008180 "signalosome" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|F1SM07 COPS8 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 285 (105.4 bits), Expect = 4.6e-25, P = 4.6e-25
 Identities = 58/159 (36%), Positives = 91/159 (57%)

Query:    14 SYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYV-NDINSARFLWKSIPSTIKDS 72
             +++K+ D C++  L+ A  GI      P    LL  Y + ND+N+AR+LWK IP  IK +
Sbjct:    12 NFKKLLDQCENQELE-APGGIATP---PVYGQLLALYLLHNDMNNARYLWKRIPPAIKSA 67

Query:    73 RAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTKRMFQLLLSAYST 132
              +E+   W +GQ +W RD+ GVY  I    WS+  Q ++ A  +   +R F L+  AY++
Sbjct:    68 NSELGGIWSVGQRIWQRDFPGVYSTINAHQWSETVQPIMEALRDATRRRAFALVSQAYTS 127

Query:   133 ISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKK 171
             I   D A F+G+  ++A   V +QGW  D ++RM+  KK
Sbjct:   128 IVADDFAAFVGLPVEEAVKGVLEQGWQADSSTRMVMPKK 166

GO:0010388 "cullin deneddylation" evidence=IEA

GO:0008180 "signalosome" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|Q99627 COPS8 "COP9 signalosome complex subunit 8" [Homo sapiens (taxid:9606)]

 Score = 282 (104.3 bits), Expect = 9.7e-25, P = 9.7e-25
 Identities = 60/178 (33%), Positives = 98/178 (55%)

Query:    14 SYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYV-NDINSARFLWKSIPSTIKDS 72
             S++K+ D C++  L+ A  GI      P    LL  Y + ND+N+AR+LWK IP  IK +
Sbjct:    12 SFKKLLDQCENQELE-APGGIATP---PVYGQLLALYLLHNDMNNARYLWKRIPPAIKSA 67

Query:    73 RAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTKRMFQLLLSAYST 132
              +E+   W +GQ +W RD+ G+Y  I    WS+  Q ++ A  +   +R F L+  AY++
Sbjct:    68 NSELGGIWSVGQRIWQRDFPGIYTTINAHQWSETVQPIMEALRDATRRRAFALVSQAYTS 127

Query:   133 ISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKKQPLVTEQKLDPSKLQRLTE 190
             I   D A F+G+  ++A   + +QGW  D  +RM+  +K P+     +  +K   L+E
Sbjct:   128 IIADDFAAFVGLPVEEAVKGILEQGWQADSTTRMVLPRK-PVAGALDVSFNKFIPLSE 184

GO:0008180 "signalosome" evidence=IDA

GO:0010388 "cullin deneddylation" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

MGI|MGI:1915363 Cops8 "COP9 (constitutive photomorphogenic) homolog, subunit 8 (Arabidopsis thaliana)" [Mus musculus (taxid:10090)]

 Score = 281 (104.0 bits), Expect = 1.2e-24, P = 1.2e-24
 Identities = 55/158 (34%), Positives = 89/158 (56%)

Query:    14 SYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSR 73
             S+ K+ D C++  L+ A  GI     +  ++ L  Y   ND+N+AR+LWK IP  IK + 
Sbjct:    12 SFRKLLDQCENQELE-APGGIATPPVYGQLLAL--YLLQNDMNNARYLWKRIPPAIKSAN 68

Query:    74 AEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTKRMFQLLLSAYSTI 133
             +E+   W +GQ +W RD+ G+Y  I    WS+  Q ++ A  +   +R F L+  AY++I
Sbjct:    69 SELGGIWSVGQRIWQRDFPGIYTTINAHQWSETVQPIMEALRDATRRRAFALVSQAYTSI 128

Query:   134 STQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKK 171
                D A F+G+  ++A   V +QGW  D  +RM+  +K
Sbjct:   129 IADDFAAFVGLPVEEAVKGVLEQGWQADSTTRMVLPRK 166

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IEA

GO:0008180 "signalosome" evidence=ISO;IDA

GO:0010388 "cullin deneddylation" evidence=ISO

RGD|1311404 Cops8 "COP9 signalosome subunit 8" [Rattus norvegicus (taxid:10116)]

 Score = 281 (104.0 bits), Expect = 1.2e-24, P = 1.2e-24
 Identities = 55/158 (34%), Positives = 89/158 (56%)

Query:    14 SYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSR 73
             S+ K+ D C++  L+ A  GI     +  ++ L  Y   ND+N+AR+LWK IP  IK + 
Sbjct:    12 SFRKLLDQCENQELE-APGGIATPPVYGQLLAL--YLLQNDMNNARYLWKRIPPAIKSAN 68

Query:    74 AEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTKRMFQLLLSAYSTI 133
             +E+   W +GQ +W RD+ G+Y  I    WS+  Q ++ A  +   +R F L+  AY++I
Sbjct:    69 SELGGIWSVGQRIWQRDFPGIYTTINAHQWSETVQPIMEALRDATRRRAFALVSQAYTSI 128

Query:   134 STQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKK 171
                D A F+G+  ++A   V +QGW  D  +RM+  +K
Sbjct:   129 IADDFAAFVGLPVEEAVKGVLEQGWQADSTTRMVLPRK 166

GO:0005634 "nucleus" evidence=ISO

GO:0005737 "cytoplasm" evidence=IEA;ISO

GO:0008180 "signalosome" evidence=IEA;ISO

GO:0010388 "cullin deneddylation" evidence=IEA;ISO

GO:0005730 "nucleolus" evidence=ISO

UNIPROTKB|B8ZZP3 COPS8 "COP9 signalosome complex subunit 8" [Homo sapiens (taxid:9606)]

 Score = 278 (102.9 bits), Expect = 2.6e-24, P = 2.6e-24
 Identities = 61/178 (34%), Positives = 99/178 (55%)

Query:    14 SYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYV-NDINSARFLWKSIPSTIKDS 72
             S++K+ D C++  L+ A  GI      P    LL  Y + ND+N+AR+LWK IP  IK +
Sbjct:    12 SFKKLLDQCENQELE-APGGIATP---PVYGQLLALYLLHNDMNNARYLWKRIPPAIKSA 67

Query:    73 RAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTKRMFQLLLSAYST 132
              +E+   W +GQ +W RD+ G+Y  I    WS+  Q ++ A  +   +R F L+  AY++
Sbjct:    68 NSELGGIWSVGQRIWQRDFPGIYTTINAHQWSETVQPIMEALRDATRRRAFALVSQAYTS 127

Query:   133 ISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKKQPLVTEQKLDPSKLQRLTE 190
             I   D A F+G+  ++A   V++QGW  D  +RM+  +K P+     +  +K   L+E
Sbjct:   128 IIADDFAAFVGLPVEEA---VKEQGWQADSTTRMVLPRK-PVAGALDVSFNKFIPLSE 181

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

UNIPROTKB|E1C444 COPS8 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 276 (102.2 bits), Expect = 4.2e-24, P = 4.2e-24
 Identities = 59/159 (37%), Positives = 90/159 (56%)

Query:    15 YEKIADICDDLMLKVAAEGIVFQDEWPYVI-HLLGYYYV-NDINSARFLWKSIPSTIKDS 72
             + K+ + C+   L+ A  GI      P V   LL  Y + ND+N+AR+LWK IP  IK +
Sbjct:    13 FRKLLEQCETQELE-APGGIAT----PLVYGQLLALYLLHNDMNNARYLWKRIPPAIKSA 67

Query:    73 RAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTKRMFQLLLSAYST 132
              AE+ A W +GQ +W RD+ G+Y  I    WS+  Q ++ A  +   +R F L+  AY++
Sbjct:    68 NAELGAVWSVGQRIWQRDFPGIYTTISAHQWSETVQPIMEALRDATRRRAFGLVSQAYTS 127

Query:   133 ISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKK 171
             I   D A F+G+  ++A   V +QGW  D ++RM+  KK
Sbjct:   128 IVADDFAAFVGLPVEEAVKGVLEQGWQADFSTRMVMPKK 166

GO:0005737 "cytoplasm" evidence=IEA

GO:0008180 "signalosome" evidence=IEA

GO:0010388 "cullin deneddylation" evidence=IEA

UNIPROTKB|E9PGT6 COPS8 "COP9 signalosome complex subunit 8" [Homo sapiens (taxid:9606)]

 Score = 190 (71.9 bits), Expect = 2.7e-18, Sum P(2) = 2.7e-18
 Identities = 38/101 (37%), Positives = 58/101 (57%)

Query:    14 SYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYV-NDINSARFLWKSIPSTIKDS 72
             S++K+ D C++  L+ A  GI      P    LL  Y + ND+N+AR+LWK IP  IK +
Sbjct:    12 SFKKLLDQCENQELE-APGGIATP---PVYGQLLALYLLHNDMNNARYLWKRIPPAIKSA 67

Query:    73 RAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAA 113
              +E+   W +GQ +W RD+ G+Y  I    WS+  Q ++ A
Sbjct:    68 NSELGGIWSVGQRIWQRDFPGIYTTINAHQWSETVQPIMEA 108

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

---

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)
Q5RF54	CSN8_PONAB	No assigned EC number	0.3316	0.9137	0.8612	yes	no
Q99627	CSN8_HUMAN	No assigned EC number	0.3316	0.9137	0.8612	yes	no
Q8VBV7	CSN8_MOUSE	No assigned EC number	0.3366	0.9137	0.8612	yes	no
P43255	CSN8_ARATH	No assigned EC number	0.7157	1.0	1.0	yes	no
Q6P4Z9	CSN8_RAT	No assigned EC number	0.3366	0.9137	0.8612	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

Fail to connect to STRING server

---

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	197
pfam10075	144	pfam10075, PCI_Csn8, COP9 signalosome, subunit CSN	4e-44

>gnl|CDD|220553 pfam10075, PCI_Csn8, COP9 signalosome, subunit CSN8

 Score =  143 bits (363), Expect = 4e-44
 Identities = 44/139 (31%), Positives = 68/139 (48%), Gaps = 1/139 (0%)

Query: 36  FQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVY 95
                 Y + LL     NDI   R L K IP  IK+S  E+     +GQ LW  DYA  +
Sbjct: 1   ELKTELYGLILLKLLTQNDIADFRLLLKRIPQAIKESNPEIQQLLTLGQLLWENDYAKFW 60

Query: 96  DAIRGFDWSQEAQALVAAFSELYTKRMFQLLLSAYSTISTQDTALFLGM-NEDDAAYYVQ 154
             +R  DWS++    +A   +     +  L+  AYS+IS  D A  LG+ ++++   + +
Sbjct: 61  QTLRSNDWSEDYTPFIAGLEDTIRDEIAALVGKAYSSISIDDLAELLGLSSDEELEKFAK 120

Query: 155 QQGWTLDPASRMLTVKKQP 173
           ++GWTLD   R+L    + 
Sbjct: 121 KRGWTLDSDGRILPPNPEE 139

This PCI_Csn8 domain is conserved from plants to humans. It is a signature protein motif found in components of CSN (COP9 signalosome). It functions as a structural scaffold for subunit-subunit interactions within the complex and is a key regulator of photomorphogenic development. Length = 144

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	197
KOG4414	197	consensus COP9 signalosome, subunit CSN8 [Posttran	100.0
PF10075	143	PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro	100.0
KOG3151	260	consensus 26S proteasome regulatory complex, subun	99.95
PF03399	204	SAC3_GANP: SAC3/GANP/Nin1/mts3/eIF-3 p25 family; I	99.27
KOG3252	217	consensus Uncharacterized conserved protein [Funct	98.95
KOG1861	540	consensus Leucine permease transcriptional regulat	98.7
PF01399	105	PCI: PCI domain; InterPro: IPR000717 A homology do	97.79
smart00088	88	PINT motif in proteasome subunits, Int-6, Nip-1 an	97.28
smart00753	88	PAM PCI/PINT associated module.	97.28
COG5187	412	RPN7 26S proteasome regulatory complex component,	96.23
KOG0687	393	consensus 26S proteasome regulatory complex, subun	95.94
KOG2581	493	consensus 26S proteasome regulatory complex, subun	94.93
KOG1076	843	consensus Translation initiation factor 3, subunit	92.53
KOG1498	439	consensus 26S proteasome regulatory complex, subun	91.59
KOG1860	927	consensus Nuclear protein export factor [Intracell	91.35
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	90.07
PF03374	111	ANT: Phage antirepressor protein KilAC domain; Int	90.05
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	89.3
COG5071	439	RPN5 26S proteasome regulatory complex component [	87.52
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	85.46
smart00071	103	Galanin Galanin. Galanin [1,2,3] is a neuropeptide	84.19
KOG2908	380	consensus 26S proteasome regulatory complex, subun	82.61
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	82.12

>KOG4414 consensus COP9 signalosome, subunit CSN8 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=100.00  E-value=3.2e-52  Score=319.64  Aligned_cols=196  Identities=50%  Similarity=0.895  Sum_probs=185.1

Q ss_pred             CCcchHHHHHccccHHHHHHHHhHHhhhhhhCCCcCCCcchHHHHHHHHHhhcCHHHHHHHHhcCChhhhhhcHHHHHHH
Q 029202            1 MDFSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAW   80 (197)
Q Consensus         1 ~~~~~i~~~~~~~~~~~l~~~~e~~El~~~~~g~~~~~~~py~~~Ll~~L~~ndl~~ar~l~kRiP~~~~~~~~~l~~~~   80 (197)
                      ||...+.+.+++.+|++++++||++||+.+..|+.++++|||+++|+.|++.||..||||||||||..+|+.+|++..+|
T Consensus         1 M~la~m~EalaA~SFdKi~D~Cdn~~Lea~~eGIa~~~dw~Ya~~L~~Yf~~dD~dnARfLWKRIP~AIKe~k~El~aaW   80 (197)
T KOG4414|consen    1 MDLAPMAEALAAFSFDKIADICDNLELEAAGEGIATHDDWPYAIHLAGYFLHDDCDNARFLWKRIPPAIKEAKPELGAAW   80 (197)
T ss_pred             CCchHHHHHHHhhhHHHHHHHhhhhhhcccCCCccCCCcchHHHHHHHHHHhccchhHHHHHHhCCHHHhhcCchhhhhh
Confidence            89999999999999999999999999997667999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHcCChHHHHHHhhCCCCcHHHHHHHHHHHHHHHHHHHHHHHHhhcccCHHHHHHHcCCCHHHHHHHHHhcCCee
Q 029202           81 KIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTKRMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWTL  160 (197)
Q Consensus        81 ~l~~~L~~~~y~~v~~~l~~~~ws~~~~~~i~~l~~~iR~~i~~lis~AY~sIs~~~~a~~Lgls~~e~~~~~~~~GW~~  160 (197)
                      .+||.+|++||+++|.+++.+.||+..+++|+.|.+..|.|.|.++.+||+||..+++|.+|||+++|+.+.+.+.||+.
T Consensus        81 giGQkiWq~Df~GiYeaI~~~dWSeeak~imaAf~D~~~kR~FaLl~qAYssI~~~D~A~FlGl~~ddAtk~ilEnGWqa  160 (197)
T KOG4414|consen   81 GIGQKIWQHDFAGIYEAINAHDWSEEAKDIMAAFRDATRKRAFALLLQAYSSIIADDFAAFLGLPEDDATKGILENGWQA  160 (197)
T ss_pred             hhhHHHHhcccchHHHHHhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHcccch
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCceE-eecCCCCCCCCCCChHHHHHHHHHHHhhcC
Q 029202          161 DPASRML-TVKKQPLVTEQKLDPSKLQRLTEYVFHLEH  197 (197)
Q Consensus       161 d~~~~~~-~P~~~~~~~~~~~~~~qL~~LT~~v~fLE~  197 (197)
                      |+.++|. .|+++..- ...++-.++..||+++.|||+
T Consensus       161 DaasqMasl~kk~V~~-a~~Vd~nK~~~LsE~a~~~~~  197 (197)
T KOG4414|consen  161 DAASQMASLKKKAVAG-ALDVDFNKFIPLSEPAFHLEH  197 (197)
T ss_pred             hhHHHHhhccchhccc-ccccchhhceecCCccCCCCC
Confidence            9999998 45544332 234588899999999999996

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

Probab=100.00  E-value=4.9e-38  Score=244.13  Aligned_cols=131  Identities=34%  Similarity=0.714  Sum_probs=108.0

Q ss_pred             hHHHHHHHHHhhcCHHHHHHHHhcCChhhhhhcHHHHHHHHHHHHHHcCChHHHHHHhhCCCCcHHHHHHHHHHHHHHHH
Q 029202           41 PYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTK  120 (197)
Q Consensus        41 py~~~Ll~~L~~ndl~~ar~l~kRiP~~~~~~~~~l~~~~~l~~~L~~~~y~~v~~~l~~~~ws~~~~~~i~~l~~~iR~  120 (197)
                      +|+++|+.||++||+++||++|+|||.++++.||+|+++|.|+++||+|+|++||..+++.+|++.+.++|..|++++|+
T Consensus         6 ~~~~~Ll~~L~~~~~~df~~~~~rip~~~~~~~~~i~~i~~l~~~L~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~iR~   85 (143)
T PF10075_consen    6 IYALILLKYLMQNDLSDFRLLWKRIPEELKQSDPEIKAIWSLGQALWEGDYSKFWQALRSNPWSPDYKPFVPGFEDTIRE   85 (143)
T ss_dssp             HHHHHHHHHHHTTTSTHHHHHHHTS-HHHHTS-TTHHHHHHHHHHHHTT-HHHHHHHS-TT----HHHHTSTTHHHHHHH
T ss_pred             HHHHHHHHHHHcCCchHHHHHHHcCCHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHhccchHHHHHHHHHHHHHHHH
Confidence            39999999999999999999999999999998899999999999999999999999999989999999999999999999


Q ss_pred             HHHHHHHHhhcccCHHHHHHHcCCCHHHHHHHHHhcCCeecCCCceEeecC
Q 029202          121 RMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWTLDPASRMLTVKK  171 (197)
Q Consensus       121 ~i~~lis~AY~sIs~~~~a~~Lgls~~e~~~~~~~~GW~~d~~~~~~~P~~  171 (197)
                      +|+.||++||++|+++++++|||++++|+.++++++||++|+++.++.|.+
T Consensus        86 ~i~~~i~~aY~sIs~~~la~~Lg~~~~el~~~~~~~gW~~d~~~~~~~~~~  136 (143)
T PF10075_consen   86 RIAHLISKAYSSISLSDLAEMLGLSEEELEKFIKSRGWTVDGDGVLFPPNP  136 (143)
T ss_dssp             HHHHHHHHH-SEE-HHHHHHHTTS-HHHHHHHHHHHT-EE-----EE---H
T ss_pred             HHHHHHHHHHhHcCHHHHHHHhCCCHHHHHHHHHHcCCEECCCccEEecCC
Confidence            999999999999999999999999999999999999999997775555443

In the complex, Cops8, which is the smallest subunit, probably interacts directly with Cops3, Cops4 and Cops7 (Cops7A or Cops7B). This signalosome is homologous to the lid subcomplex of the 26S proteasome and regulates the ubiquitin-proteasome pathway. It functions as a structural scaffold for subunit-subunit interactions within the complex and is a key regulator of photomorphogenic development [].; PDB: 1RZ4_A.

>KOG3151 consensus 26S proteasome regulatory complex, subunit RPN12/PSMD8 [Posttranslational modification, protein turnover, chaperones]

Probab=99.95  E-value=3.8e-27  Score=193.22  Aligned_cols=122  Identities=17%  Similarity=0.230  Sum_probs=118.0

Q ss_pred             HHHHHHHHHhhcCHHHHHHHHhcCChhhhhhcHHHHHHHHHHHHHHcCChHHHHHHhhCCCCcHHHHHHHHHHHHHHHHH
Q 029202           42 YVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTKR  121 (197)
Q Consensus        42 y~~~Ll~~L~~ndl~~ar~l~kRiP~~~~~~~~~l~~~~~l~~~L~~~~y~~v~~~l~~~~ws~~~~~~i~~l~~~iR~~  121 (197)
                      .|++|+.+|.+|++++||++++++|...++.+|.|+++++|+|++|+|.|++||.++++ .+++.|..||+.+.++||++
T Consensus       103 ~GLnLL~LLsqNRiaeFHteLe~lp~~~l~~~~~I~~~v~LEq~~MEGaYnKv~~a~~s-~p~~~y~~FmdIl~~tiRdE  181 (260)
T KOG3151|consen  103 LGLNLLYLLSQNRIAEFHTELELLPKKILQHNPYISHPVSLEQSLMEGAYNKVLSAKQS-IPSEEYTYFMDILLDTIRDE  181 (260)
T ss_pred             HHHHHHHHHHhccHHHHHHHHHhccHHHhhccchhhhHHHHHHHHHhhHHHHHHHHHhc-CCcHHHHHHHHHHHHHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999 88999999999999999999


Q ss_pred             HHHHHHHhhcccCHHHHHHHcCCC-HHHHHHHHHhcCCeecCCC
Q 029202          122 MFQLLLSAYSTISTQDTALFLGMN-EDDAAYYVQQQGWTLDPAS  164 (197)
Q Consensus       122 i~~lis~AY~sIs~~~~a~~Lgls-~~e~~~~~~~~GW~~d~~~  164 (197)
                      |+.|++++|..|++++++++|+|+ ++++.+|+++|+|.+++.+
T Consensus       182 IA~c~EKsYd~l~~s~a~~~L~f~~~~e~~~~~~~r~W~l~~~~  225 (260)
T KOG3151|consen  182 IAGCIEKSYDKLSASDATQMLLFNNDKELKKFATERQWPLDEKG  225 (260)
T ss_pred             HHHHHHHHHhhcCHHHHHHHHhcCChHHHHHHHHhcCCcccccc
Confidence            999999999999999999999997 8999999999999998433

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

Probab=99.27  E-value=3e-11  Score=98.07  Aligned_cols=102  Identities=22%  Similarity=0.208  Sum_probs=85.2

Q ss_pred             HHHHHHHHHhhcCHHHHHHHHhcCChhhhhhcHHHHHHHHHHHHHHcCChHHHHHHhhCCCCcHHHHHHHHHHHHHHHHH
Q 029202           42 YVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTKR  121 (197)
Q Consensus        42 y~~~Ll~~L~~ndl~~ar~l~kRiP~~~~~~~~~l~~~~~l~~~L~~~~y~~v~~~l~~~~ws~~~~~~i~~l~~~iR~~  121 (197)
                      .+.+|+.+|.+|+..+++..+.++|.++. .+|.++.+..|.+++++|+|.+||..+++...+...+.++..+.+.+|.+
T Consensus       102 ~~y~lL~~l~~~~~~~~~~~l~~l~~~~~-~~~~i~~al~l~~a~~~gny~~ff~l~~~~~~~~l~~~l~~~~~~~iR~~  180 (204)
T PF03399_consen  102 IAYYLLYLLCQNNIPDFHMELELLPSEIL-SSPYIQFALELCRALMEGNYVRFFRLYRSKSAPYLFACLMERFFNRIRLR  180 (204)
T ss_dssp             HHHHHHHTT-T---THHHHHHTTS-HHHH-TSHHHHHHHHHHHHH--TTHHHHHHHHT-TTS-HHHHHHHGGGHHHHHHH
T ss_pred             HHHHHHHHHHcccchHHHHHHHHCchhhh-cCHHHHHHHHHHHHHHcCCHHHHHHHHhccCCChHHHHHHHHHHHHHHHH
Confidence            78888888889999999999999999877 56999999999999999999999999955577788999999999999999


Q ss_pred             HHHHHHHhhcc-cCHHHHHHHcCC
Q 029202          122 MFQLLLSAYST-ISTQDTALFLGM  144 (197)
Q Consensus       122 i~~lis~AY~s-Is~~~~a~~Lgl  144 (197)
                      +++++++||.+ |+++.++++|||
T Consensus       181 al~~i~~ay~~~i~l~~l~~~L~F  204 (204)
T PF03399_consen  181 ALQSISKAYRSSIPLSFLAELLGF  204 (204)
T ss_dssp             HHHHHHHHS-T-EEHHHHHHHTT-
T ss_pred             HHHHHHHHcCCCCCHHHHHHHcCC
Confidence            99999999999 999999999996

The alignment contains one highly conserved negatively charged residue and one highly conserved positively charged residue that are probably important for the function of these proteins. The family includes the yeast nuclear export factor Sac3 [], and mammalian GANP/MCM3-associated proteins, which facilitate the nuclear localisation of MCM3, a protein that associates with chromatin in the G1 phase of the cell-cycle. The 26S protease (or 26S proteasome) is responsible for degrading ubiquitin conjugates. It consists of 19S regulatory complexes associated with the ends of 20S proteasomes. The 19S regulatory complex is composed of about 20 different polypeptides and confers ATP-dependence and substrate specificity to the 26S enzyme. The conserved region occurs at the C-terminal of the Nin1-like regulatory subunit [, , ]. This family includes several eukaryotic translation initiation factor 3 subunit 11 (eIF-3 p25) proteins. Eukaryotic initiation factor 3 (eIF3) is a multisubunit complex that is required for binding of mRNA to 40 S ribosomal subunits, stabilisation of ternary complex binding to 40 S subunits, and dissociation of 40 and 60 S subunits [].; PDB: 3T5V_D.

>KOG3252 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.95  E-value=8.5e-09  Score=82.59  Aligned_cols=135  Identities=14%  Similarity=0.256  Sum_probs=107.8

Q ss_pred             cCHHHHHHHHhcCChhhhhhcHHHHHHHHHHHHHHcCChHHHHHHhhCCCCcHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 029202           53 NDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTKRMFQLLLSAYST  132 (197)
Q Consensus        53 ndl~~ar~l~kRiP~~~~~~~~~l~~~~~l~~~L~~~~y~~v~~~l~~~~ws~~~~~~i~~l~~~iR~~i~~lis~AY~s  132 (197)
                      .|..-|++|   ||..... +..++.+.-|+..|..|+|..||...+.   ...+-.=|.+|++.||.-+-..++-.|..
T Consensus        79 tDF~l~kcl---i~~~~~~-ee~~r~ii~L~~~LEt~~Fq~FW~~~~~---N~~mle~itGFedsvr~yachvv~iTyQk  151 (217)
T KOG3252|consen   79 TDFTLAKCL---IDERVQM-EEPFRSIIDLGDYLETCRFQQFWQEADE---NRDMLEGITGFEDSVRKYACHVVGITYQK  151 (217)
T ss_pred             cchhHHHHh---cCHHHhc-ccchhHHHhHHHHHhhchHHHHhhhhcc---chHHhcCCCcHHHHHHHHHHHheechHhh
Confidence            455555554   5666554 4789999999999999999999987744   46677778899999999999999999999


Q ss_pred             cCHHHHHHHcCCC-HHHHHHHHHhcCCeecCCCceEeecCCCCCCCCC-C-ChHHHHHHHHHHHhh
Q 029202          133 ISTQDTALFLGMN-EDDAAYYVQQQGWTLDPASRMLTVKKQPLVTEQK-L-DPSKLQRLTEYVFHL  195 (197)
Q Consensus       133 Is~~~~a~~Lgls-~~e~~~~~~~~GW~~d~~~~~~~P~~~~~~~~~~-~-~~~qL~~LT~~v~fL  195 (197)
                      |.-.-+|.+||-. +.++..++++-||..+.+|.+++|.... ..+++ + +..++...++++.++
T Consensus       152 I~k~lLaellG~~sDs~le~~~~~~GW~a~e~G~ifv~~qE~-~iKtkNi~EkI~fd~Va~ima~~  216 (217)
T KOG3252|consen  152 IDKWLLAELLGGLSDSQLEVWMTKYGWIADESGQIFVASQEE-EIKTKNIVEKIDFDHVASIMASL  216 (217)
T ss_pred             chHHHHHHhhCcccHHHHHHHHHHccceecCCceEEEecccc-ccccCCccccCCcchHHHHHHhc
Confidence            9999999999975 7899999999999999999666666544 33332 2 667777777766543

>KOG1861 consensus Leucine permease transcriptional regulator [Transcription]

Probab=98.70  E-value=7.6e-07  Score=80.25  Aligned_cols=162  Identities=17%  Similarity=0.213  Sum_probs=129.3

Q ss_pred             HHHHccccHHHHHHHHhHHhhhhhhCCCc--CCCcchHHHHHHHHHhhcCHHHHHHHHhcCChhhhhhcHHHHHHHHHHH
Q 029202            7 TDALASKSYEKIADICDDLMLKVAAEGIV--FQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQ   84 (197)
Q Consensus         7 ~~~~~~~~~~~l~~~~e~~El~~~~~g~~--~~~~~py~~~Ll~~L~~ndl~~ar~l~kRiP~~~~~~~~~l~~~~~l~~   84 (197)
                      +=++..||.++.-+=--.+-.-. +.|+.  ..++  -+--+|.|+...+-.+=-.++.++..++|+ |+.+.++.+|-.
T Consensus       356 RIALEkGD~~EfNQCQtQLk~LY-~egipg~~~EF--~AYriLY~i~tkN~~di~sll~~lt~E~ke-d~~V~hAL~vR~  431 (540)
T KOG1861|consen  356 RIALEKGDLEEFNQCQTQLKALY-SEGIPGAYLEF--TAYRILYYIFTKNYPDILSLLRDLTEEDKE-DEAVAHALEVRS  431 (540)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHHH-ccCCCCchhhH--HHHHHHHHHHhcCchHHHHHHHhccHhhcc-CHHHHHHHHHHH
Confidence            34667787666533222222221 22332  2444  444488888888888888999999999995 699999999999


Q ss_pred             HHHcCChHHHHHHhhCCCCcHHHHHHHHHHHHHHHHHHHHHHHHhhc-ccCHHHHHHHcCCC-HHHHHHHHHhcCCeecC
Q 029202           85 HLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTKRMFQLLLSAYS-TISTQDTALFLGMN-EDDAAYYVQQQGWTLDP  162 (197)
Q Consensus        85 ~L~~~~y~~v~~~l~~~~ws~~~~~~i~~l~~~iR~~i~~lis~AY~-sIs~~~~a~~Lgls-~~e~~~~~~~~GW~~d~  162 (197)
                      +.--|+|-+||......+  -.-..+|+.|.++-|...+..|.|+|. +|+++-+++.|.|+ .+++..|..+++|+.+.
T Consensus       432 A~~~GNY~kFFrLY~~AP--~M~~yLmdlF~erER~~Al~ii~KsyrP~i~~~fi~~~laf~~~e~c~~~l~~~~~~~~~  509 (540)
T KOG1861|consen  432 AVTLGNYHKFFRLYLTAP--NMSGYLMDLFLERERKKALTIICKSYRPTITVDFIASELAFDSMEDCVNFLNEQNLTYDS  509 (540)
T ss_pred             HHHhccHHHHHHHHhhcc--cchhHHHHHHHHHHHHHHHHHHHHHcCCCccHHHHhhhhhhchHHHHHHHHhccCccccc
Confidence            999999999999987722  334679999999999999999999999 99999999999997 58899999999999999


Q ss_pred             CCceEeecCCCC
Q 029202          163 ASRMLTVKKQPL  174 (197)
Q Consensus       163 ~~~~~~P~~~~~  174 (197)
                      .|..+.+++..+
T Consensus       510 ~g~~~~~~~~~s  521 (540)
T KOG1861|consen  510 LGPQILDKNASS  521 (540)
T ss_pred             cCCccccccccc
Confidence            998988887654

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

Probab=97.79  E-value=0.00015  Score=51.97  Aligned_cols=91  Identities=14%  Similarity=0.166  Sum_probs=69.4

Q ss_pred             HHHHHHHHHcCChHHHHHHhhCCC----CcHHHHHHHHHHHHHHHHHHHHHHHHhhcccCHHHHHHHcCCCHHHHHHHHH
Q 029202           79 AWKIGQHLWTRDYAGVYDAIRGFD----WSQEAQALVAAFSELYTKRMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQ  154 (197)
Q Consensus        79 ~~~l~~~L~~~~y~~v~~~l~~~~----ws~~~~~~i~~l~~~iR~~i~~lis~AY~sIs~~~~a~~Lgls~~e~~~~~~  154 (197)
                      ...+.+++..|+|..+...++...    -.+.+...++.+...+|.+.+.-+.+.|++|+++++|+.++++.+++..++.
T Consensus         3 ~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~~~~l~~~i~~~~l~~l~~~y~~i~~~~ia~~l~~~~~~vE~~l~   82 (105)
T PF01399_consen    3 YSELLRAFRSGDLQEFEEFLEKHSESLFKDPFLAEYVEQLKEKIRRRNLRQLSKPYSSISISEIAKALQLSEEEVESILI   82 (105)
T ss_dssp             HHHHHHHHHCT-HHHHHHHHHHTCHHHHHCTTHHHHHHHHHHHHHHHHHHHHHHC-SEEEHHHHHHHHTCCHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHhccchHHHHHHHH
Confidence            346778999999999988887641    1245667899999999999999999999999999999999999988887755


Q ss_pred             h---c---CCeecCCCceEee
Q 029202          155 Q---Q---GWTLDPASRMLTV  169 (197)
Q Consensus       155 ~---~---GW~~d~~~~~~~P  169 (197)
                      +   .   .=++|...+++..
T Consensus        83 ~~I~~~~i~~~ID~~~~~v~~  103 (105)
T PF01399_consen   83 DLISNGLIKAKIDQVNGVVVF  103 (105)
T ss_dssp             HHHHTTSSEEEEETTTTEEEE
T ss_pred             HHHHCCCEEEEEECCCCEEEe
Confidence            3   1   3355555555543

This domain has also been called the PINT motif (Proteasome, Int-6, Nip-1 and TRIP-15) []. Apparently, all of the characterised proteins containing PCI domains are parts of larger multi-protein complexes. Proteins with PCI domains include budding yeast proteasome regulatory components Rpn3(Sun2), Rpn5, Rpn6, Rpn7and Rpn9 []; mammalian proteasome regulatory components p55, p58 and p44.5, and translation initiation factor 3 complex subunits p110 and INT6 [, ]; Arabidopsis COP9 and FUS6/COP11 []; mammalian G-protein pathway suppressor GPS1, and several uncharacterised ORFs from plant, nematodes and mammals. The complete homology domain comprises approx. 200 residues, the highest conservation is found in the C-terminal half. Several of the proteins mentioned above have no detectable homology to the N-terminal half of the domain.; GO: 0005515 protein binding; PDB: 3TXM_A 3TXN_A 1UFM_A 3CHM_A 3T5X_A 3T5V_B.

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

Probab=97.28  E-value=0.0023  Score=44.93  Aligned_cols=65  Identities=20%  Similarity=0.245  Sum_probs=53.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhcccCHHHHHHHcCCCHHHHHHHHHh------cCCeecCCCceEeecCCCC
Q 029202          110 LVAAFSELYTKRMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQ------QGWTLDPASRMLTVKKQPL  174 (197)
Q Consensus       110 ~i~~l~~~iR~~i~~lis~AY~sIs~~~~a~~Lgls~~e~~~~~~~------~GW~~d~~~~~~~P~~~~~  174 (197)
                      .+..+...+|.+.+..+.+.|++|+++++++.++++.+++..++.+      ...++|..++++......+
T Consensus         2 ~~~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~~~~vE~~i~~~i~~~~l~~~ID~~~~~v~~~~~~~   72 (88)
T smart00088        2 LVERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLSVPEVEKLVSKAIRDGEISAKIDQVNGIVEFEEVDP   72 (88)
T ss_pred             hHHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcCHHHHHHHHHHHHHCCCeEEEEcCcCCEEEECCCch
Confidence            4577899999999999999999999999999999998887777553      2578888777877765433

Also called the PCI (Proteasome, COP9, Initiation factor 3) domain. Unknown function.

>smart00753 PAM PCI/PINT associated module

Probab=97.28  E-value=0.0023  Score=44.93  Aligned_cols=65  Identities=20%  Similarity=0.245  Sum_probs=53.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhcccCHHHHHHHcCCCHHHHHHHHHh------cCCeecCCCceEeecCCCC
Q 029202          110 LVAAFSELYTKRMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQ------QGWTLDPASRMLTVKKQPL  174 (197)
Q Consensus       110 ~i~~l~~~iR~~i~~lis~AY~sIs~~~~a~~Lgls~~e~~~~~~~------~GW~~d~~~~~~~P~~~~~  174 (197)
                      .+..+...+|.+.+..+.+.|++|+++++++.++++.+++..++.+      ...++|..++++......+
T Consensus         2 ~~~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~~~~vE~~i~~~i~~~~l~~~ID~~~~~v~~~~~~~   72 (88)
T smart00753        2 LVERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLSVPEVEKLVSKAIRDGEISAKIDQVNGIVEFEEVDP   72 (88)
T ss_pred             hHHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcCHHHHHHHHHHHHHCCCeEEEEcCcCCEEEECCCch
Confidence            4577899999999999999999999999999999998887777553      2578888777877765433

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

Probab=96.23  E-value=0.044  Score=47.72  Aligned_cols=122  Identities=17%  Similarity=0.263  Sum_probs=91.6

Q ss_pred             hcHHHHHHHHHHHHHHcCChHHHHHHhhC-----CCCcHHHHHHHHHHHHHHHHHHHHHHHHhhcccCHHHHHHHcCCCH
Q 029202           72 SRAEVVAAWKIGQHLWTRDYAGVYDAIRG-----FDWSQEAQALVAAFSELYTKRMFQLLLSAYSTISTQDTALFLGMNE  146 (197)
Q Consensus        72 ~~~~l~~~~~l~~~L~~~~y~~v~~~l~~-----~~ws~~~~~~i~~l~~~iR~~i~~lis~AY~sIs~~~~a~~Lgls~  146 (197)
                      ++..+.++..+..+|..+||.+.|..+-.     -..-.-+...++-|..-.|.|+-.-+--+|..++++..|+-+|+|.
T Consensus       266 ~~e~l~sl~~l~~SLy~cdY~~~F~~ll~~~~n~L~~d~fl~rh~d~fvREMRrrvYaQlLESYr~lsl~sMA~tFgVSV  345 (412)
T COG5187         266 SSEKLGSLVQLATSLYECDYGGDFMNLLYLFCNSLQDDVFLGRHVDLFVREMRRRVYAQLLESYRLLSLESMAQTFGVSV  345 (412)
T ss_pred             chhhhhhHHHHHHHHHHhccchhhHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhCccH
Confidence            45668899999999999999987765533     1222344566777888889999888888999999999999999995


Q ss_pred             ----HHHHHHHHh-cCCe-ecCCCceEeecCCCCCCCC---CC--ChHHHHHHHHHHH
Q 029202          147 ----DDAAYYVQQ-QGWT-LDPASRMLTVKKQPLVTEQ---KL--DPSKLQRLTEYVF  193 (197)
Q Consensus       147 ----~e~~~~~~~-~GW~-~d~~~~~~~P~~~~~~~~~---~~--~~~qL~~LT~~v~  193 (197)
                          .++.+|+-. +=|. +|--.+++....|++...+   ++  +++-|.||-+|++
T Consensus       346 ~yvdrDLg~FIp~~~LncvIDRvnGvVetnrpdekn~qy~~vVkqGd~ll~klqKy~a  403 (412)
T COG5187         346 EYVDRDLGEFIPEGRLNCVIDRVNGVVETNRPDEKNQQYSSVVKQGDDLLRKLQKYVA  403 (412)
T ss_pred             HHHhhhHHhhCCCCceeeeeecccceEeccCcchhhhhHHHHHhcchHHHHHHHHHHH
Confidence                578888764 4454 4655567776666653333   22  8899999999885

>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]

Probab=95.94  E-value=0.069  Score=47.01  Aligned_cols=156  Identities=12%  Similarity=0.183  Sum_probs=100.8

Q ss_pred             CCcchHHHHHHHHHhhcCHHHHHHHHh--cCC-hhhhhhcHHHHHHHHHHHHHHcCChHHHHHHhhCC-----CCcHHHH
Q 029202           37 QDEWPYVIHLLGYYYVNDINSARFLWK--SIP-STIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGF-----DWSQEAQ  108 (197)
Q Consensus        37 ~~~~py~~~Ll~~L~~ndl~~ar~l~k--RiP-~~~~~~~~~l~~~~~l~~~L~~~~y~~v~~~l~~~-----~ws~~~~  108 (197)
                      -+..||..+...-.+.+=++-=|--+|  -|. +++.+.-+.|..+..+..+|.+|+|..||..+-..     ..---+.
T Consensus       214 ~El~~Y~~~v~Ytv~~g~i~leR~dlktKVi~~~Evl~vl~~l~~~~q~l~SLY~C~Y~~Ff~~L~~~~~~~lk~D~~l~  293 (393)
T KOG0687|consen  214 YELMSYETFVRYTVITGLIALERVDLKTKVIKCPEVLEVLHKLPSVSQLLNSLYECDYSDFFNDLAAVEAKQLKDDRYLG  293 (393)
T ss_pred             eecccHHHHHHHHHHHhhheeccchHHhhhcCcHHHHHHhhcCchHHHHHHHHHhccHHHHHHHHHHHHHHhhccchhcc
Confidence            455778877665555544433222111  111 23333333456677888899999999999988431     1112334


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhcccCHHHHHHHcCCCH----HHHHHHHHh-c-CCeecCCCceEeecCCCCCCCC---C
Q 029202          109 ALVAAFSELYTKRMFQLLLSAYSTISTQDTALFLGMNE----DDAAYYVQQ-Q-GWTLDPASRMLTVKKQPLVTEQ---K  179 (197)
Q Consensus       109 ~~i~~l~~~iR~~i~~lis~AY~sIs~~~~a~~Lgls~----~e~~~~~~~-~-GW~~d~~~~~~~P~~~~~~~~~---~  179 (197)
                      |..+-+..-+|.++-.-+--+|.+++++..|+-+|+|.    .|+-.|+.. + .=++|.-++++-...|++...+   +
T Consensus       294 ~h~~yyvREMR~rvY~QlLESYrsl~l~~MA~aFgVSVefiDreL~rFI~~grL~ckIDrVnGVVEtNrpD~KN~qyq~v  373 (393)
T KOG0687|consen  294 PHYRYYVREMRRRVYAQLLESYRSLTLESMAKAFGVSVEFIDRELGRFIAAGRLHCKIDRVNGVVETNRPDEKNAQYQAV  373 (393)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCchHHHHHhHHHHhhccCceeeeeecccceeecCCccccchHHHHH
Confidence            55566666788888888889999999999999999995    688888765 4 4456766778877777655422   2


Q ss_pred             C--ChHHHHHHHHHH
Q 029202          180 L--DPSKLQRLTEYV  192 (197)
Q Consensus       180 ~--~~~qL~~LT~~v  192 (197)
                      +  ++.-|.++-++.
T Consensus       374 ikqGd~LLnriQK~~  388 (393)
T KOG0687|consen  374 IKQGDLLLNRIQKLS  388 (393)
T ss_pred             HhhhHHHHHHHHHHH
Confidence            2  665555554443

>KOG2581 consensus 26S proteasome regulatory complex, subunit RPN3/PSMD3 [Posttranslational modification, protein turnover, chaperones]

Probab=94.93  E-value=0.05  Score=49.11  Aligned_cols=108  Identities=19%  Similarity=0.302  Sum_probs=73.7

Q ss_pred             HHHHHHHHHhhcCHHHHHHHHhcCChhhhhhcHHHHHHHHHHHHHHcCChHHHHHHhhCCC---CcHHHHHHHHHHHHHH
Q 029202           42 YVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFD---WSQEAQALVAAFSELY  118 (197)
Q Consensus        42 y~~~Ll~~L~~ndl~~ar~l~kRiP~~~~~~~~~l~~~~~l~~~L~~~~y~~v~~~l~~~~---ws~~~~~~i~~l~~~i  118 (197)
                      ..+.+++-|+.++|.+=-+ ... | .+   ..-|+.-..|.+++--||-.+|=..+.++-   -.+..-.++-.|.-.|
T Consensus       290 ~k~~ivv~ll~geiPers~-F~Q-p-~~---~ksL~~Yf~Lt~AVr~gdlkkF~~~leq~k~~f~~D~ty~LivRLR~NV  363 (493)
T KOG2581|consen  290 NKLMIVVELLLGEIPERSV-FRQ-P-GM---RKSLRPYFKLTQAVRLGDLKKFNETLEQFKDKFQADGTYTLIVRLRHNV  363 (493)
T ss_pred             HHHHHHHHHHcCCCcchhh-hcC-c-cH---HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhhCCcchHHHHHHHHH
Confidence            4445666666666654111 110 1 11   124677778899999999988877776521   1234455677788888


Q ss_pred             HHHHHHHHHHhhcccCHHHHHHHcCCCHHHHHHHHHh
Q 029202          119 TKRMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQ  155 (197)
Q Consensus       119 R~~i~~lis~AY~sIs~~~~a~~Lgls~~e~~~~~~~  155 (197)
                      -..-.+.||-+|+.||+.|+|.-||++.++-.+|+.+
T Consensus       364 IkTgIR~ISlsYSRISl~DIA~kL~l~Seed~EyiVa  400 (493)
T KOG2581|consen  364 IKTGIRKISLSYSRISLQDIAKKLGLNSEEDAEYIVA  400 (493)
T ss_pred             HHHhhhheeeeeeeccHHHHHHHhcCCCchhHHHHHH
Confidence            8888899999999999999999999987665555443

>KOG1076 consensus Translation initiation factor 3, subunit c (eIF-3c) [Translation, ribosomal structure and biogenesis]

Probab=92.53  E-value=0.66  Score=44.62  Aligned_cols=94  Identities=12%  Similarity=0.237  Sum_probs=68.7

Q ss_pred             HHHHHHHHHHcCChHHHHHHhhC--CCCc--HHHHHHHHHHHHHHHHHHHH----HHHHhhcccCHHHHHHHcCCCHHHH
Q 029202           78 AAWKIGQHLWTRDYAGVYDAIRG--FDWS--QEAQALVAAFSELYTKRMFQ----LLLSAYSTISTQDTALFLGMNEDDA  149 (197)
Q Consensus        78 ~~~~l~~~L~~~~y~~v~~~l~~--~~ws--~~~~~~i~~l~~~iR~~i~~----lis~AY~sIs~~~~a~~Lgls~~e~  149 (197)
                      +++.-.++|..|++.+-+.-+.+  -.|.  +....+.+++.+.|+++.++    .-++.|.|+|+..+|.|+.+++..+
T Consensus       656 hVvaAsKAm~~Gnw~~c~~fi~nn~KvW~Lfpn~d~V~~Ml~~rIqEEsLRTYLftYss~Y~SvSl~~LA~mFdLp~~~V  735 (843)
T KOG1076|consen  656 HVVAASKAMQKGNWQKCFEFIVNNIKVWDLFPNADTVLDMLTERIQEESLRTYLFTYSSVYDSVSLAKLADMFDLPEPKV  735 (843)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhhhHHHhcccHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccHHHHHHHhCCCchhH
Confidence            56677889999999998774433  2454  56677888999999998887    4678899999999999999998887


Q ss_pred             HHHHHh------cCCeecCCCceEeecC
Q 029202          150 AYYVQQ------QGWTLDPASRMLTVKK  171 (197)
Q Consensus       150 ~~~~~~------~GW~~d~~~~~~~P~~  171 (197)
                      -..+.+      .-=++|..++.++..+
T Consensus       736 hsIiSkmiineEl~AslDqpt~~iv~hr  763 (843)
T KOG1076|consen  736 HSIISKMIINEELHASLDQPTQCIVMHR  763 (843)
T ss_pred             HHHHHHHHHHHHhhhccCCCcceEEEee
Confidence            666443      2334454444544433

>KOG1498 consensus 26S proteasome regulatory complex, subunit RPN5/PSMD12 [Posttranslational modification, protein turnover, chaperones]

Probab=91.59  E-value=1.7  Score=39.27  Aligned_cols=93  Identities=19%  Similarity=0.214  Sum_probs=64.4

Q ss_pred             CcHHHHHHHHHHHHHHHHHHHHHHHHhhcccCHHHHHHHcCCCHHHHHHHHHh---cCCee---cCCCceEeecCCCCCC
Q 029202          103 WSQEAQALVAAFSELYTKRMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQ---QGWTL---DPASRMLTVKKQPLVT  176 (197)
Q Consensus       103 ws~~~~~~i~~l~~~iR~~i~~lis~AY~sIs~~~~a~~Lgls~~e~~~~~~~---~GW~~---d~~~~~~~P~~~~~~~  176 (197)
                      -++.-..-...+..+|-+.=++-+++=|++|+...++.+||++.+++.+|...   .|=-.   |-.++.+....+.+..
T Consensus       324 ~~~~gek~~~dL~~RIiEHNiRiiA~yYSrIt~~rl~eLLdl~~ee~E~~LS~lv~t~ti~aKidrpsgII~F~k~K~~~  403 (439)
T KOG1498|consen  324 GGEEGEKRWSDLKLRIIEHNIRIIAKYYSRITLKRLAELLDLPVEEMEKFLSDLVVTGTIYAKIDRPSGIINFQKVKDSN  403 (439)
T ss_pred             ccchhhhHHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHhCCCHHHHHHHHHHHHhccceEEEecCCCceEEEEecccHH
Confidence            34555666778889999999999999999999999999999999999888553   24333   5555566555544332


Q ss_pred             CCC----CChHHHHHHHHHHHhh
Q 029202          177 EQK----LDPSKLQRLTEYVFHL  195 (197)
Q Consensus       177 ~~~----~~~~qL~~LT~~v~fL  195 (197)
                      ...    .+.++|-.+.+-++||
T Consensus       404 ~~LneW~~nve~L~~ll~K~~HL  426 (439)
T KOG1498|consen  404 EILNEWASNVEKLLGLLEKVSHL  426 (439)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHH
Confidence            221    1455555555555665

>KOG1860 consensus Nuclear protein export factor [Intracellular trafficking, secretion, and vesicular transport; Cell cycle control, cell division, chromosome partitioning]

Probab=91.35  E-value=4.3  Score=40.26  Aligned_cols=147  Identities=11%  Similarity=0.116  Sum_probs=104.4

Q ss_pred             HHHHHHHHhHHhhhhhhCCCcC---CCcchHHHHHHHHHhhcCHHHHHHHHhcCChhhhhhcHHHHHHHHHHHHHHcCCh
Q 029202           15 YEKIADICDDLMLKVAAEGIVF---QDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDY   91 (197)
Q Consensus        15 ~~~l~~~~e~~El~~~~~g~~~---~~~~py~~~Ll~~L~~ndl~~ar~l~kRiP~~~~~~~~~l~~~~~l~~~L~~~~y   91 (197)
                      ...|.+..++++--    |+.-   +++  +|-++++.|=..++..   .....|.++.+ +++.+-...+.++...|+|
T Consensus       254 l~sL~elYdD~r~~----g~~cpnE~EF--R~Y~vLl~Lgd~~~~~---~iq~~~~evr~-~~~Vk~al~~~~a~~~nn~  323 (927)
T KOG1860|consen  254 LQSLGELYDDLRKG----GIPCPNEPEF--RGYYVLLSLGDPQVVR---DIQAWPDEVRQ-DSEVKLALCLRRAFQSNNF  323 (927)
T ss_pred             HHHHHHHHHHHHhc----CCCCCChHHH--HHHHHHHhcCCchHHH---HHHhcCccccc-chhHHHHHHHHHHhccCCe
Confidence            34455555555544    3322   456  8999998887665543   34567888875 5999999999999999999


Q ss_pred             HHHHH-----------------HhhCCCCcHH-HHHHHHHHHHHHHHHHHHHHHHhhcc----cCHHHHHHHcCCC-HHH
Q 029202           92 AGVYD-----------------AIRGFDWSQE-AQALVAAFSELYTKRMFQLLLSAYST----ISTQDTALFLGMN-EDD  148 (197)
Q Consensus        92 ~~v~~-----------------~l~~~~ws~~-~~~~i~~l~~~iR~~i~~lis~AY~s----Is~~~~a~~Lgls-~~e  148 (197)
                      ..++.                 .+.+..-++. .-.++..|...+|.-..+.++++|.+    |+...+..+|+++ .++
T Consensus       324 ~~~~r~~~~~t~a~~~l~~~~~~l~q~p~~~~L~~~v~~~~f~~ir~~al~~~~~~~~~~~~~vp~~~l~~~l~f~~~e~  403 (927)
T KOG1860|consen  324 RRFFRLSSLRTEALQNLYTRFFKLMQSPALPYLMGCVLELFFPDIRWAALRAMSHAYNSKHVPVPLGKLDRILLFDGEEE  403 (927)
T ss_pred             eeeeeccchhHHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcchhHHHHHHhcCChhh
Confidence            88852                 1222133332 33455567888999999999999975    7889999999997 789


Q ss_pred             HHHHHHhcCCeecCCCceEeecC
Q 029202          149 AAYYVQQQGWTLDPASRMLTVKK  171 (197)
Q Consensus       149 ~~~~~~~~GW~~d~~~~~~~P~~  171 (197)
                      +..+|..+|=+++.+...+.+.+
T Consensus       404 ~~~~~~~y~Leis~~~~~~~~~~  426 (927)
T KOG1860|consen  404 LKVVCNYYGLEISVDDKIVLSIG  426 (927)
T ss_pred             hHhhhhheeeEeecccccccccc
Confidence            99999999999976554444443

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=90.07  E-value=3.2  Score=36.25  Aligned_cols=107  Identities=12%  Similarity=0.072  Sum_probs=80.8

Q ss_pred             HHHHHhhcCHHHHHHHHhcCChhhhhhcHHHHHHHHHHHHHHcCChHHHHHHhhCCCC----cHHHHHHHHHHHHHHHHH
Q 029202           46 LLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDW----SQEAQALVAAFSELYTKR  121 (197)
Q Consensus        46 Ll~~L~~ndl~~ar~l~kRiP~~~~~~~~~l~~~~~l~~~L~~~~y~~v~~~l~~~~w----s~~~~~~i~~l~~~iR~~  121 (197)
                      |+-.|+..+++.|---   --.+.| +||+|-+.-.+-++...++-..|=..+++..-    -+-+..-+..|...||..
T Consensus       278 LANMLmkS~iNPFDsQ---EAKPyK-NdPEIlAMTnlv~aYQ~NdI~eFE~Il~~~~~~IM~DpFIReh~EdLl~niRTQ  353 (440)
T KOG1464|consen  278 LANMLMKSGINPFDSQ---EAKPYK-NDPEILAMTNLVAAYQNNDIIEFERILKSNRSNIMDDPFIREHIEDLLRNIRTQ  353 (440)
T ss_pred             HHHHHHHcCCCCCccc---ccCCCC-CCHHHHHHHHHHHHHhcccHHHHHHHHHhhhccccccHHHHHHHHHHHHHHHHH
Confidence            5556666666654320   012234 58999999999999999998888777765221    134566677889999999


Q ss_pred             HHHHHHHhhcccCHHHHHHHcCCCHHHHHHHHHhc
Q 029202          122 MFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQ  156 (197)
Q Consensus       122 i~~lis~AY~sIs~~~~a~~Lgls~~e~~~~~~~~  156 (197)
                      ++--+-+-|+.|.+.-+++-|++++.|+.....++
T Consensus       354 VLlkLIkPYt~i~Ipfis~~Lnv~~~dV~~LLV~~  388 (440)
T KOG1464|consen  354 VLLKLIKPYTNIGIPFISKELNVPEADVESLLVSC  388 (440)
T ss_pred             HHHHHhccccccCchhhHhhcCCCHHHHHHHHHHH
Confidence            99999999999999999999999999988886653

>PF03374 ANT: Phage antirepressor protein KilAC domain; InterPro: IPR005039 This entry is represented by Bacteriophage P1, Ant1 C-terminal domain, which represents the processed Ant2 chain

Probab=90.05  E-value=0.77  Score=33.49  Aligned_cols=42  Identities=12%  Similarity=0.446  Sum_probs=35.7

Q ss_pred             HHHHHHHHhhcccCHHHHHHHcCCCHHHHHHHHHhcCCeecC
Q 029202          121 RMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQQGWTLDP  162 (197)
Q Consensus       121 ~i~~lis~AY~sIs~~~~a~~Lgls~~e~~~~~~~~GW~~d~  162 (197)
                      +.++.+..+=.++++.++|+.||+++.++.++..+.||-+..
T Consensus        13 ~~~d~~~~~~~~~ti~~~AK~L~i~~~~l~~~Lr~~g~l~~~   54 (111)
T PF03374_consen   13 EFYDAFVDSDGLYTIREAAKLLGIGRNKLFQWLREKGWLYRR   54 (111)
T ss_pred             HHHHHHHcCCCCccHHHHHHHhCCCHHHHHHHHHhCCceEEC
Confidence            344455555689999999999999999999999999999983

The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Prophages P1 and P7 exist as unit copy DNA plasmids in the bacterial cell. Maintenance of the prophage state requires the continuous expression of two repressors: (i) C1 is a protein which negatively regulates the expression of lytic genes including the C1 inactivator gene coi, and (ii) C4 is an antisense RNA which specifically inhibits the synthesis of an anti-repressor Ant.; GO: 0003677 DNA binding

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=89.30  E-value=1.7  Score=27.96  Aligned_cols=65  Identities=11%  Similarity=0.161  Sum_probs=46.5

Q ss_pred             HHccccHHHHHHHHhHHhhhhhhCCCcCCCcchHHHHHHHHHhhcCHHHHHHHHhcCChhhhhhcHHHHHHH
Q 029202            9 ALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAW   80 (197)
Q Consensus         9 ~~~~~~~~~l~~~~e~~El~~~~~g~~~~~~~py~~~Ll~~L~~ndl~~ar~l~kRiP~~~~~~~~~l~~~~   80 (197)
                      ++..|+|++-+..++..--. .|+   .++.  +-.+--+|+-+++...|+..+++++..-.. ++.+..++
T Consensus         1 ll~~~~~~~A~~~~~~~l~~-~p~---~~~~--~~~la~~~~~~g~~~~A~~~l~~~~~~~~~-~~~~~~l~   65 (68)
T PF14559_consen    1 LLKQGDYDEAIELLEKALQR-NPD---NPEA--RLLLAQCYLKQGQYDEAEELLERLLKQDPD-NPEYQQLL   65 (68)
T ss_dssp             HHHTTHHHHHHHHHHHHHHH-TTT---SHHH--HHHHHHHHHHTT-HHHHHHHHHCCHGGGTT-HHHHHHHH
T ss_pred             ChhccCHHHHHHHHHHHHHH-CCC---CHHH--HHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-HHHHHHHH
Confidence            57889999999999987433 222   1334  445566788889999999999999877764 37666544

...

>COG5071 RPN5 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=87.52  E-value=2.8  Score=37.01  Aligned_cols=52  Identities=12%  Similarity=0.259  Sum_probs=43.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhcccCHHHHHHHcCCCHHHHHHHHHh---cCCee
Q 029202          109 ALVAAFSELYTKRMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQ---QGWTL  160 (197)
Q Consensus       109 ~~i~~l~~~iR~~i~~lis~AY~sIs~~~~a~~Lgls~~e~~~~~~~---~GW~~  160 (197)
                      .-.+.|..++-+.-++.|++-|++|++..+...|.+++++..+++..   +|--+
T Consensus       330 ~~w~DL~krviEHN~RvI~~yYSrI~~~rl~~lld~~~s~te~~ISdlVN~G~~y  384 (439)
T COG5071         330 KRWSDLRKRVIEHNIRVIANYYSRIHCSRLGVLLDMSPSETEQFISDLVNKGHFY  384 (439)
T ss_pred             hhHHHHHHHHHHhhHhHHHHHhhhhhHHHHHHHHcCCHHHHHHHHHHHHhcCcEE
Confidence            45567777888888999999999999999999999999998888653   56654

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

Probab=85.46  E-value=11  Score=28.40  Aligned_cols=104  Identities=15%  Similarity=0.152  Sum_probs=67.5

Q ss_pred             cchHHHHHccccHHHHHHHHhHHhhhhhhCCCcCCCcchHHHH----HH-HHHhhcCHHHHHHHHhcCChhhhhhcHHHH
Q 029202            3 FSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIH----LL-GYYYVNDINSARFLWKSIPSTIKDSRAEVV   77 (197)
Q Consensus         3 ~~~i~~~~~~~~~~~l~~~~e~~El~~~~~g~~~~~~~py~~~----Ll-~~L~~ndl~~ar~l~kRiP~~~~~~~~~l~   77 (197)
                      |..+...+..++..++...++.+--.. +++       ||+.+    ++ .+.-++|+.+|...++.+-...  .++.++
T Consensus        15 y~~~~~~~~~~~~~~~~~~~~~l~~~~-~~s-------~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~--~d~~l~   84 (145)
T PF09976_consen   15 YEQALQALQAGDPAKAEAAAEQLAKDY-PSS-------PYAALAALQLAKAAYEQGDYDEAKAALEKALANA--PDPELK   84 (145)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHC-CCC-------hHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCHHHH
Confidence            445666777889999877777776552 211       24433    22 3444799999999999987655  356655


Q ss_pred             HHHH--H-HHHHHcCChHHHHHHhhCCCCcHHHHHHHHHHHHH
Q 029202           78 AAWK--I-GQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSEL  117 (197)
Q Consensus        78 ~~~~--l-~~~L~~~~y~~v~~~l~~~~ws~~~~~~i~~l~~~  117 (197)
                      .+..  | .-.+-+|+|......++. ...+.+.+.+..+...
T Consensus        85 ~~a~l~LA~~~~~~~~~d~Al~~L~~-~~~~~~~~~~~~~~Gd  126 (145)
T PF09976_consen   85 PLARLRLARILLQQGQYDEALATLQQ-IPDEAFKALAAELLGD  126 (145)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHh-ccCcchHHHHHHHHHH
Confidence            4443  2 344668899999999977 4455566665554443

>smart00071 Galanin Galanin

Probab=84.19  E-value=1.6  Score=31.30  Aligned_cols=42  Identities=21%  Similarity=0.437  Sum_probs=28.7

Q ss_pred             HhcCCeecCCCceEeecCCCCCC--------------------CC-----CC-ChHHHHHHHHHHHhh
Q 029202          154 QQQGWTLDPASRMLTVKKQPLVT--------------------EQ-----KL-DPSKLQRLTEYVFHL  195 (197)
Q Consensus       154 ~~~GW~~d~~~~~~~P~~~~~~~--------------------~~-----~~-~~~qL~~LT~~v~fL  195 (197)
                      .+|||+++..|..+-|...++..                    ++     .. ++.-+..+-+|.+||
T Consensus        10 eKRgwtlnsagyllgp~aid~hrs~~dk~g~~gKREl~pEde~r~g~~~r~l~e~~~vrTiiEFLsfL   77 (103)
T smart00071       10 EKRGWTLNSAGYLLGPHAIDNHRSFHDKHGLTGKRELEPEDEARPGSFDRPLSESNIVRTIIEFLTFL   77 (103)
T ss_pred             cccCceeccCceeeCccccccccccccCCCccccccCChhhhcccCccCCcCchhhHHHHHHHHHHHH
Confidence            56999999988887787654311                    11     11 566677788888887

Galanin [1,2,3] is a neuropeptide that controls various biological activities: it regulates the release growth hormone, inhibits the release of insulin and somatostatin, contracts smooth muscle of the gastrointestinal and genitourinary tract and may be involved in the control of adrenal secretion

>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]

Probab=82.61  E-value=36  Score=30.48  Aligned_cols=106  Identities=12%  Similarity=0.176  Sum_probs=71.0

Q ss_pred             HHHHHHHHHHHcCChHHHHHHhhCCCCcHHHHHHHHHHHHHHHH--HHHHHHHHhhcc------cCHHHHHHHcCCCHHH
Q 029202           77 VAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTK--RMFQLLLSAYST------ISTQDTALFLGMNEDD  148 (197)
Q Consensus        77 ~~~~~l~~~L~~~~y~~v~~~l~~~~ws~~~~~~i~~l~~~iR~--~i~~lis~AY~s------Is~~~~a~~Lgls~~e  148 (197)
                      +-+..+..++-.||.++|.+..+  .|+.  .|+.+.-++.+|+  +...+|+.+|+.      ||.++.|+.+-++.++
T Consensus       235 eWL~dll~Afn~Gdl~~f~~l~~--~~~~--~p~L~~~e~~L~qKI~LmaLiEi~F~rpa~~R~lsf~~Ia~~tkip~~e  310 (380)
T KOG2908|consen  235 EWLKDLLIAFNSGDLKRFESLKG--VWGK--QPDLASNEDFLLQKIRLLALIEITFSRPANERTLSFKEIAEATKIPNKE  310 (380)
T ss_pred             HHHHHHHHHhccCCHHHHHHHHH--Hhcc--CchHHHHHHHHHHHHHHHHHHHHHhcCcchhccccHHHHHHHhCCCHHH
Confidence            44567888999999999877664  4655  4444444444444  567889999987      9999999999999888


Q ss_pred             HHHHHHh------cCCeecCCCceEeecCCCCCCCCCC-ChHHHHHHHH
Q 029202          149 AAYYVQQ------QGWTLDPASRMLTVKKQPLVTEQKL-DPSKLQRLTE  190 (197)
Q Consensus       149 ~~~~~~~------~GW~~d~~~~~~~P~~~~~~~~~~~-~~~qL~~LT~  190 (197)
                      +.-.+.+      ..|.+|.-++++...-    ..+.+ +.+||-++.+
T Consensus       311 VE~LVMKAlslgLikG~Idqv~~~v~~sw----vqPRvl~~~qI~~Mk~  355 (380)
T KOG2908|consen  311 VELLVMKALSLGLIKGSIDQVEGVVYMSW----VQPRVLDRSQIVKMKD  355 (380)
T ss_pred             HHHHHHHHHhccceeeeecccccEEEEec----ccccccCHHHHHhHHH
Confidence            7655443      2566776666655321    11222 6666665543

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=82.12  E-value=6.8  Score=33.22  Aligned_cols=111  Identities=12%  Similarity=0.106  Sum_probs=70.5

Q ss_pred             HHccccHHHHHHHHhHHhhhhhhCCCcC---CCcchHHHHHHHHHhhcCHHHHHHHHhcC---ChhhhhhcHHHHHHHHH
Q 029202            9 ALASKSYEKIADICDDLMLKVAAEGIVF---QDEWPYVIHLLGYYYVNDINSARFLWKSI---PSTIKDSRAEVVAAWKI   82 (197)
Q Consensus         9 ~~~~~~~~~l~~~~e~~El~~~~~g~~~---~~~~py~~~Ll~~L~~ndl~~ar~l~kRi---P~~~~~~~~~l~~~~~l   82 (197)
                      .+..|+|++-+..+|+.--....+....   .+.  |-.-+++||..+|...|+-.+++.   .+.... ..+-+.+-.|
T Consensus       165 ~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~--~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~-s~E~~~~~~l  241 (282)
T PF14938_consen  165 YARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEY--FLKAILCHLAMGDYVAARKALERYCSQDPSFAS-SREYKFLEDL  241 (282)
T ss_dssp             HHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHH--HHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTT-SHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHHhhcccccchhHHHH--HHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCC-cHHHHHHHHH
Confidence            4567789998888887643311111110   122  333478999999999999999984   334443 4777888899


Q ss_pred             HHHHHcCChHHHHHHhhCCCCcHHHHHHHHHHHHHHHHHH
Q 029202           83 GQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTKRM  122 (197)
Q Consensus        83 ~~~L~~~~y~~v~~~l~~~~ws~~~~~~i~~l~~~iR~~i  122 (197)
                      ..+.-++|-..|=.++..++=...+.+....+.-.|++.|
T Consensus       242 ~~A~~~~D~e~f~~av~~~d~~~~ld~w~~~~l~~~k~~~  281 (282)
T PF14938_consen  242 LEAYEEGDVEAFTEAVAEYDSISRLDNWKTKMLLKIKKKI  281 (282)
T ss_dssp             HHHHHTT-CCCHHHHCHHHTTSS---HHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHcccCccHHHHHHHHHHHHhhc
Confidence            9999999988887777765555566666666666666554

---

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	197
1rz4_A	226	Eukaryotic translation initiation factor 3 subuni;	99.94
4b0z_A	229	RPN12, 26S proteasome regulatory subunit RPN12; pr	99.93
4b4t_T	274	26S proteasome regulatory subunit RPN12; hydrolase	99.89
3t5v_A	316	Nuclear mRNA export protein SAC3; PCI, mRNA nuclea	99.22
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	97.95
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	97.62
1ufm_A	84	COP9 complex subunit 4; helix-turn-helix, structur	96.75
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	96.6
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	96.05
4b4t_O	393	26S proteasome regulatory subunit RPN9; hydrolase,	94.41
4b4t_S	523	RPN3, 26S proteasome regulatory subunit RPN3; hydr	93.61
3t5x_A	203	PCI domain-containing protein 2; PCI, mRNA nuclear	93.39
2heo_A	67	Z-DNA binding protein 1; protein DLM1-Z-DNA comple	84.55
3e21_A	45	HFAF1, FAS-associated factor 1; UBA, alternative s	83.54
3t5v_B	455	Nuclear mRNA export protein THP1; PCI, mRNA nuclea	80.18

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

Probab=99.94  E-value=1.3e-26  Score=191.61  Aligned_cols=151  Identities=15%  Similarity=0.193  Sum_probs=131.0

Q ss_pred             HHHHHHHHHhhcCHHHHHHHHhcCChhhhhhcHHHHHHHHHHHHHHcCChHHHHHHhhCCCCcHHHHHHHHHHHHHHHHH
Q 029202           42 YVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTKR  121 (197)
Q Consensus        42 y~~~Ll~~L~~ndl~~ar~l~kRiP~~~~~~~~~l~~~~~l~~~L~~~~y~~v~~~l~~~~ws~~~~~~i~~l~~~iR~~  121 (197)
                      -+..|+..|.++..++|+.....||+++. .+++|+.+|.|+++||+|+|++||+++++ .  ..+...|..|.++||++
T Consensus        66 i~~iLlk~L~~~p~~DF~~~l~LIp~~~~-~~~~I~~i~~L~~~L~~~~y~~fW~~l~~-~--~~l~~~i~gf~dsIR~~  141 (226)
T 1rz4_A           66 TAQILLKALTNLPHTDFTLCKCMIDQAHQ-EERPIRQILYLGDLLETCHFQAFWQALDE-N--MDLLEGITGFEDSVRKF  141 (226)
T ss_dssp             HHHHHHHHHHTTTSTHHHHHHHTSCHHHH-TSTTHHHHHHHHHHHHTTCHHHHHHHSCT-T--CHHHHTSTTHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHhCChhhh-cCHHHHHHHHHHHHHHcCCHHHHHHHHhc-C--hhHHHHHhHHHHHHHHH
Confidence            58889999999999999999999998886 68999999999999999999999999987 3  57889999999999999


Q ss_pred             HHHHHHHhhcccCHHHHHHHcC-CCHHHHHHHHHhcCCeecCCCceEeecCCCCCCCCCC--ChHHHHHHHHHH--Hhhc
Q 029202          122 MFQLLLSAYSTISTQDTALFLG-MNEDDAAYYVQQQGWTLDPASRMLTVKKQPLVTEQKL--DPSKLQRLTEYV--FHLE  196 (197)
Q Consensus       122 i~~lis~AY~sIs~~~~a~~Lg-ls~~e~~~~~~~~GW~~d~~~~~~~P~~~~~~~~~~~--~~~qL~~LT~~v--~fLE  196 (197)
                      |+.|+++||++|+++++++||| ++++++.+|++++||++|++|.+ +|.++++.++++.  +...++++++++  ++||
T Consensus       142 I~~~i~~aY~sI~~~~la~lLg~~s~~el~~fi~~~GW~vd~~g~I-~~~n~e~~~k~~~~~E~i~~~~~~~~~~~~~~~  220 (226)
T 1rz4_A          142 ICHVVGITYQHIDRWLLAEMLGDLSDSQLKVWMSKYGWSADESGQI-FICSQEESIKPKNIVEKIDFDSVSSIMASSQLE  220 (226)
T ss_dssp             HHHHHHHHCSEECHHHHHHHTTSCCHHHHHHHHHHHTCEECC--CE-ECCCHHHHTSCCCSSCCCCHHHHHHHHCC----
T ss_pred             HHHHHHHHHhhCCHHHHHHHHcCCCHHHHHHHHHHCCCEECCCccE-EeCCCcccccceeeeecccHHHHHHHHHHHHHh
Confidence            9999999999999999999995 78999999999999999877755 7777777777754  899999999998  5666


Q ss_pred             C
Q 029202          197 H  197 (197)
Q Consensus       197 ~  197 (197)
                      |
T Consensus       221 ~  221 (226)
T 1rz4_A          221 H  221 (226)
T ss_dssp             -
T ss_pred             h
Confidence            4

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

Probab=99.93  E-value=1.2e-24  Score=180.09  Aligned_cols=127  Identities=15%  Similarity=0.181  Sum_probs=117.3

Q ss_pred             HHHHHHHHHhhcCHHHHHHHHhcCChh-hhhhcHHHHHHHHHHHHHHcCChHHHHHHhhCCCCcHHHHHHHHHHHHHHHH
Q 029202           42 YVIHLLGYYYVNDINSARFLWKSIPST-IKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSELYTK  120 (197)
Q Consensus        42 y~~~Ll~~L~~ndl~~ar~l~kRiP~~-~~~~~~~l~~~~~l~~~L~~~~y~~v~~~l~~~~ws~~~~~~i~~l~~~iR~  120 (197)
                      .+.+|+.+|++|++.++|.+++++|.+ ....||.|+.+++|.+++|+|+|.+||+.+++ .+++.+..+|+.|.+++|.
T Consensus       100 ~~~~LL~lL~~~~~~ef~~~le~l~~~~~~~~~~~I~~al~l~~al~~GnY~kff~l~~~-~p~~~~~~~~~~l~~~vR~  178 (229)
T 4b0z_A          100 TGLNLLYLLSENRIAEFHTALESVPDKSLFERDPYVEWVISLEQNVMEGAFDKVASMIRS-CNFPEFSYFMKIVMSMVRN  178 (229)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHCSCTTHHHHCHHHHHHHHHHHHHHTTCHHHHHHHHHT-CCCGGGHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCchHHHHHHHhcChHHHhhcCHHHHHHHHHHHHHHcCCHHHHHHHHhc-CccchHHHHHHHHHHHHHH
Confidence            788899999999999999999999865 34578999999999999999999999999999 6777889999999999999


Q ss_pred             HHHHHHHHhhcccCHHHHHHHcCCC-HHHHHHHHHhcCCeecCCCceEeec
Q 029202          121 RMFQLLLSAYSTISTQDTALFLGMN-EDDAAYYVQQQGWTLDPASRMLTVK  170 (197)
Q Consensus       121 ~i~~lis~AY~sIs~~~~a~~Lgls-~~e~~~~~~~~GW~~d~~~~~~~P~  170 (197)
                      ++++||++||.+|++++++++|||+ ++|+.+|++++||+++ +|.+++|+
T Consensus       179 ~~l~~i~kaY~~i~l~~~~~~L~f~s~~e~~~f~~~~gw~i~-dg~i~F~~  228 (229)
T 4b0z_A          179 EIATCAEKVYSEIPLSNATSLLYLENTKETEKLAEERGWDIR-DGVIYFPK  228 (229)
T ss_dssp             HHHHHHHHHCSEEEHHHHHHHTTCSSHHHHHHHHHHHTCEEE-TTEEECC-
T ss_pred             HHHHHHHHHcCCCCHHHHHHHhCCCCHHHHHHHHHHcCCEEe-CCEEecCC
Confidence            9999999999999999999999996 8999999999999998 77777765

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

Probab=99.89  E-value=6.2e-23  Score=174.02  Aligned_cols=130  Identities=12%  Similarity=0.186  Sum_probs=114.9

Q ss_pred             HHHHHHHHHhhcCHHHHHHHHhcCChhhh--hhcHHHHHHHHHHHHHHcCChHHHHHHhhCC-CCcHHHHHHHHHHHHHH
Q 029202           42 YVIHLLGYYYVNDINSARFLWKSIPSTIK--DSRAEVVAAWKIGQHLWTRDYAGVYDAIRGF-DWSQEAQALVAAFSELY  118 (197)
Q Consensus        42 y~~~Ll~~L~~ndl~~ar~l~kRiP~~~~--~~~~~l~~~~~l~~~L~~~~y~~v~~~l~~~-~ws~~~~~~i~~l~~~i  118 (197)
                      .|.+|+.+|.+|+++++|.+++++|...+  ..||.|+++.+|.+++|+|+|.+||+..++. .+++.+..||+.|.+++
T Consensus       106 ~~~~LLylL~~n~~~efh~~Le~L~~~~~~~~~d~~Ik~al~le~al~eGnY~kff~l~~~~~~p~~~~~~f~d~l~~~i  185 (274)
T 4b4t_T          106 ISLYLLNLLSQNNTTKFHSELQYLDKHIKNLEDDSLLSYPIKLDRWLMEGSYQKAWDLLQSGSQNISEFDSFTDILKSAI  185 (274)
T ss_dssp             HHHHHHHHHHHHCSTHHHHHHHSSSCSSSTTTCCHHHHHHHHHHHHHHHTCSHHHHHHHHTCTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHhcchhhHhHhcChHHHHHHHHHHHHHcCCHHHHHHHHhcCCCCcHHHHHHHHHHHHHH
Confidence            78889999999999999999999996443  3589999999999999999999999988774 35788999999999999


Q ss_pred             HHHHHHHHHHhhcccCHHHHHHHcCCC-HHHHHHHHHhcCCeecCCCceEeecCC
Q 029202          119 TKRMFQLLLSAYSTISTQDTALFLGMN-EDDAAYYVQQQGWTLDPASRMLTVKKQ  172 (197)
Q Consensus       119 R~~i~~lis~AY~sIs~~~~a~~Lgls-~~e~~~~~~~~GW~~d~~~~~~~P~~~  172 (197)
                      |.+++.|+++||.+|++++++++|||+ ++|+.+|++++||+++ +|++++|...
T Consensus       186 R~~a~~~i~kaY~~i~l~~~~~~L~F~s~~e~~~F~~~~gW~~~-~~~v~F~~~~  239 (274)
T 4b4t_T          186 RDEIAKNTELSYDFLPLSNIKALLFFNNEKETEKFALERNWPIV-NSKVYFNNQS  239 (274)
T ss_dssp             HHHHHHHHHHHCSSCCHHHHHHHHTCCSHHHHHHHHHHTTCCCC-SSCCCC----
T ss_pred             HHHHHHHHHHHHhhcCHHHHHHHhCCCCHHHHHHHHHHcCCEEe-CCEeEECCcc
Confidence            999999999999999999999999996 8999999999999998 4556665543

>3t5v_A Nuclear mRNA export protein SAC3; PCI, mRNA nuclear export, mRNA, nuclear, transcription; 2.90A {Saccharomyces cerevisiae}

Probab=99.22  E-value=1.6e-10  Score=99.49  Aligned_cols=121  Identities=10%  Similarity=-0.025  Sum_probs=101.4

Q ss_pred             HHHHHHHHHhhcCHHHHHHHHhcCChhhhhhcHHHHHHHHHHHHHH---------------cCChHHHHHHhhCCCCcHH
Q 029202           42 YVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLW---------------TRDYAGVYDAIRGFDWSQE  106 (197)
Q Consensus        42 y~~~Ll~~L~~ndl~~ar~l~kRiP~~~~~~~~~l~~~~~l~~~L~---------------~~~y~~v~~~l~~~~ws~~  106 (197)
                      .+-+|+.+|...|   +.....++|.++++ +|.++....+.+++.               .|+|.+||..+++..-+-.
T Consensus       119 ~aY~lL~~l~~~~---~~~~l~~Lp~~i~~-~p~Vq~AL~l~~a~~~~~~~e~~~~~~~~~~gNY~rFFrL~~~~~~pyL  194 (316)
T 3t5v_A          119 RAYALLSKIRDPQ---YDENIQRLPKHIFQ-DKLVQMALCFRRVISNSAYTERGFVKTENCLNFYARFFQLMQSPSLPLL  194 (316)
T ss_dssp             HHHHHHHSTTCTH---HHHHHTTSCHHHHT-SHHHHHHHHHHHHHCCTTCCCTTCCCCSSCCCCHHHHHHHHTCTTSCHH
T ss_pred             HHHHHHHHhccch---HHHHHHhCCHHHhc-CHHHHHHHHHHHHHHhcccccccccccccccchHHHHHHHHhccCCChH
Confidence            6767777776654   44577889999995 699999999999875               3899999999987223344


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhc----ccCHHHHHHHcCCC-HHHHHHHHHhcCCeecCCCce
Q 029202          107 AQALVAAFSELYTKRMFQLLLSAYS----TISTQDTALFLGMN-EDDAAYYVQQQGWTLDPASRM  166 (197)
Q Consensus       107 ~~~~i~~l~~~iR~~i~~lis~AY~----sIs~~~~a~~Lgls-~~e~~~~~~~~GW~~d~~~~~  166 (197)
                      ...+++.+...+|.++++++.+||.    +++++.++++|||+ ++|+.+||+..||+++.++++
T Consensus       195 ~aclle~~~~~vR~~AL~~i~kay~~k~~~~pl~~L~~~L~Fds~ee~~~F~~~~gl~~~~~~~~  259 (316)
T 3t5v_A          195 MGFFLQMHLTDIRFYALRALSHTLNKKHKPIPFIYLENMLLFNNRQEIIEFCNYYSIEIINGDAA  259 (316)
T ss_dssp             HHHHHGGGHHHHHHHHHHHHHHHSCTTCCCEEHHHHHHHTTCSSHHHHHHHHHHTTCCEETTTEE
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhccCCCCcCHHHHHHHhCCCCHHHHHHHHHHCCCeEeCCCCc
Confidence            5788999999999999999999994    89999999999996 899999999999999864433

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

Probab=97.95  E-value=0.00016  Score=63.74  Aligned_cols=120  Identities=16%  Similarity=0.185  Sum_probs=81.8

Q ss_pred             hcHHHHHHHHHHHHHHcCChHHHHHHhhCCC--C--cHHHHHHHHHHHHHHHHHHHHHHHHhhcccCHHHHHHHcCCCHH
Q 029202           72 SRAEVVAAWKIGQHLWTRDYAGVYDAIRGFD--W--SQEAQALVAAFSELYTKRMFQLLLSAYSTISTQDTALFLGMNED  147 (197)
Q Consensus        72 ~~~~l~~~~~l~~~L~~~~y~~v~~~l~~~~--w--s~~~~~~i~~l~~~iR~~i~~lis~AY~sIs~~~~a~~Lgls~~  147 (197)
                      .+|++..+..+.++...|++..|...+..+.  .  .+.+..-+..|...+|++.+.-+...|++|+++++|+.||++++
T Consensus       252 ~~pei~~l~~L~~a~~~~dl~~f~~iL~~~~~~l~~D~~l~~h~~~L~~~Ir~~~L~~i~~pYsrIsl~~iA~~l~ls~~  331 (394)
T 3txn_A          252 SGRDIDAMKSVAEASHKRSLADFQAALKEYKKELAEDVIVQAHLGTLYDTMLEQNLCRIIEPYSRVQVAHVAESIQLPMP  331 (394)
T ss_dssp             CSHHHHHHHHHHHHHHTTCHHHHHHHHHHSTTTTTTSHHHHHHHHHHHHHHHHHHHHHHHTTCSEEEHHHHHHHHTCCHH
T ss_pred             CCccHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHhHhhceeeHHHHHHHHCcCHH
Confidence            4699999999999999999999888777532  1  23456678899999999999999999999999999999999988


Q ss_pred             HHHHHHHh-------cCCeecCCCceEeecCCCCCCCCCC-ChHHHHHHHHHH
Q 029202          148 DAAYYVQQ-------QGWTLDPASRMLTVKKQPLVTEQKL-DPSKLQRLTEYV  192 (197)
Q Consensus       148 e~~~~~~~-------~GW~~d~~~~~~~P~~~~~~~~~~~-~~~qL~~LT~~v  192 (197)
                      ++...+.+       .| ++|...+++....++.....-. ..+.+++++..|
T Consensus       332 evE~~L~~lI~dg~I~a-~IDq~~giv~~~~~~~r~~~y~~ale~l~~ls~vV  383 (394)
T 3txn_A          332 QVEKKLSQMILDKKFSG-ILDQGEGVLIVFEETPVDKTYERVLETIQSMGKVV  383 (394)
T ss_dssp             HHHHHHHHHHHTTSSCE-EEETTTTEEEECCC---------------------
T ss_pred             HHHHHHHHHHHCCCeeE-EEcCCCCEEEECCCcchhhHHHHHHHHHHHHHHHH
Confidence            77666443       25 8888777877665543221111 444556666655

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

Probab=97.62  E-value=0.00059  Score=60.30  Aligned_cols=104  Identities=13%  Similarity=0.192  Sum_probs=78.3

Q ss_pred             hhcHHHHHHHHHHHHHHcCChHHHHHHhhC---CCC--cHHHHHHHHHHHHHHHHHHHHHHHHhhcccCHHHHHHHcCCC
Q 029202           71 DSRAEVVAAWKIGQHLWTRDYAGVYDAIRG---FDW--SQEAQALVAAFSELYTKRMFQLLLSAYSTISTQDTALFLGMN  145 (197)
Q Consensus        71 ~~~~~l~~~~~l~~~L~~~~y~~v~~~l~~---~~w--s~~~~~~i~~l~~~iR~~i~~lis~AY~sIs~~~~a~~Lgls  145 (197)
                      ..+|.++.+..+..+++.++|..++..+..   ...  ...+.+-+..|...+|++.+.-+.+.|++|+++.+|+.||++
T Consensus       281 ~~~p~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~d~~l~~h~~~l~~~ir~~~l~q~~~~Ys~I~l~~mA~~l~~s  360 (429)
T 4b4t_R          281 STTAALQSISSLTISLYASDYASYFPYLLETYANVLIPCKYLNRHADFFVREMRRKVYAQLLESYKTLSLKSMASAFGVS  360 (429)
T ss_dssp             GSHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHSTTTTTCTTSTTTHHHHHHHHHHHHHHHHHHTCSEEEHHHHHHHHTSC
T ss_pred             cCChhHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhccCHHHHHHHHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcC
Confidence            456889988999999999999999876422   111  123455577889999999999999999999999999999999


Q ss_pred             HHHHHHH----HHh--cCCeecCCCceEeecCCCC
Q 029202          146 EDDAAYY----VQQ--QGWTLDPASRMLTVKKQPL  174 (197)
Q Consensus       146 ~~e~~~~----~~~--~GW~~d~~~~~~~P~~~~~  174 (197)
                      ++++.+.    +.+  ..=++|.-.+++....|++
T Consensus       361 ~~~~E~~L~~lI~~g~l~akID~~~giv~~~~~d~  395 (429)
T 4b4t_R          361 VAFLDNDLGKFIPNKQLNCVIDRVNGIVETNRPDN  395 (429)
T ss_dssp             HHHHHHHHHHHHHHTSSCEEEETTTTEEEECC---
T ss_pred             HHHHHHHHHHHHHcCCeEEEEcCCCCEEEECCCCc
Confidence            8766554    443  2447887777887666554

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

Probab=96.75  E-value=0.0012  Score=45.76  Aligned_cols=61  Identities=10%  Similarity=0.140  Sum_probs=46.9

Q ss_pred             HHHHHHHHHHHHHHHHhhcccCHHHHHHHcCCCHHHHHHHHHh-----c-CCeecCCCceEeecCCC
Q 029202          113 AFSELYTKRMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQ-----Q-GWTLDPASRMLTVKKQP  173 (197)
Q Consensus       113 ~l~~~iR~~i~~lis~AY~sIs~~~~a~~Lgls~~e~~~~~~~-----~-GW~~d~~~~~~~P~~~~  173 (197)
                      .|.+++.+.-++.+++-|++|+++.+|++||++++++.+++.+     + -=++|...+++...+++
T Consensus        11 ~L~~~v~E~nl~~is~~Y~~Isl~~La~ll~ls~~~vE~~ls~mI~~~~l~akIDq~~g~V~f~~~e   77 (84)
T 1ufm_A           11 ILDRAVIEHNLLSASKLYNNITFEELGALLEIPAAKAEKIASQMITEGRMNGFIDQIDGIVHFETRE   77 (84)
T ss_dssp             CCCHHHHHHHHHHHHHSCSEEEHHHHHHHTTSCHHHHHHHHHHHHHTTSSCEEEETTTTEEEECCSS
T ss_pred             HHHHHHHHHHHHHHHHhcCeeeHHHHHHHHCcCHHHHHHHHHHHHhCCcEEEEEeCCCCEEEeCCcc
Confidence            3567778888888999999999999999999999888777543     1 23677666677765543

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

Probab=96.60  E-value=0.069  Score=44.89  Aligned_cols=122  Identities=11%  Similarity=0.097  Sum_probs=73.5

Q ss_pred             hcHHHHHHHHHHHHHHcCChHHHHHHhhCC----CCcHHHHHHHHHHHHHHHHHHHHHHHHhhcccCHHHHHHHcCCCHH
Q 029202           72 SRAEVVAAWKIGQHLWTRDYAGVYDAIRGF----DWSQEAQALVAAFSELYTKRMFQLLLSAYSTISTQDTALFLGMNED  147 (197)
Q Consensus        72 ~~~~l~~~~~l~~~L~~~~y~~v~~~l~~~----~ws~~~~~~i~~l~~~iR~~i~~lis~AY~sIs~~~~a~~Lgls~~  147 (197)
                      .++.+.....+......+++..+-..+...    .-.+.....+..+...+|+..+.-+.+.|++|+++++|+.||++++
T Consensus       292 ~~~~~~~~~~l~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~l~~~~~~y~~i~l~~la~~l~~~~~  371 (434)
T 4b4t_Q          292 QSRGIDAMKAVAEAYNNRSLLDFNTALKQYEKELMGDELTRSHFNALYDTLLESNLCKIIEPFECVEISHISKIIGLDTQ  371 (434)
T ss_dssp             CCHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHTCSHHHHHHHHHHHHHHHHHHHHHHHSSCSCEEHHHHHHHHTCCHH
T ss_pred             cchhhhHHHHHHHHHHhhhHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHhCcCHH
Confidence            457777778888889888888776665542    1224556778889999999999999999999999999999999988


Q ss_pred             HHHHHHHh-----c-CCeecCCCceEeecCCCCCCCCCC-ChHHHHHHHHHHH
Q 029202          148 DAAYYVQQ-----Q-GWTLDPASRMLTVKKQPLVTEQKL-DPSKLQRLTEYVF  193 (197)
Q Consensus       148 e~~~~~~~-----~-GW~~d~~~~~~~P~~~~~~~~~~~-~~~qL~~LT~~v~  193 (197)
                      ++...+.+     . -=++|...+++....+......-. .-+.+++|+++|.
T Consensus       372 ~~E~~l~~lI~~~~i~a~id~~~g~v~~~~~~~~~~~~~~~l~~~~~l~~~vd  424 (434)
T 4b4t_Q          372 QVEGKLSQMILDKIFYGVLDQGNGWLYVYETPNQDATYDSALELVGQLNKVVD  424 (434)
T ss_dssp             HHHHHHHHHHHHTSSCCEEETTTTEEECC------------------------
T ss_pred             HHHHHHHHHHhCCCcceecccccCeEeeCCCcchhHHHHHHHHHHHHHHHHHH
Confidence            87766543     1 224554444544332221111111 3345666666663

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

Probab=96.05  E-value=0.031  Score=49.54  Aligned_cols=98  Identities=9%  Similarity=0.146  Sum_probs=67.4

Q ss_pred             HHHHHHHHHHHHHHcCCh---HHHHHHhhCCCCc--------HHHHHHHHHHHHHHHHHHHHHHHHhhcccCHHHHHHHc
Q 029202           74 AEVVAAWKIGQHLWTRDY---AGVYDAIRGFDWS--------QEAQALVAAFSELYTKRMFQLLLSAYSTISTQDTALFL  142 (197)
Q Consensus        74 ~~l~~~~~l~~~L~~~~y---~~v~~~l~~~~ws--------~~~~~~i~~l~~~iR~~i~~lis~AY~sIs~~~~a~~L  142 (197)
                      +.+...-.|.+....++.   +.+...... ...        +....-+..|..++++.-+.-+++-|++|+++++|..|
T Consensus       291 ~~l~~~~~L~k~f~~~~L~~~~~~~~~~~~-~L~~~~~~~~~~~~~~~~~~L~~~v~ehnl~~i~k~Ys~I~l~~la~lL  369 (445)
T 4b4t_P          291 KKLESQESLVKLFTTNELMRWPIVQKTYEP-VLNEDDLAFGGEANKHHWEDLQKRVIEHNLRVISEYYSRITLLRLNELL  369 (445)
T ss_dssp             HHHHHHHHHHHHHHHCCSSSHHHHHHHTCS-STTTCCSSCCCSCSSHHHHHHHHHHHHHHHHHHHHHEEEEEHHHHHHHH
T ss_pred             cccHHHHHHHHHHHhchHhhhHHHHHHHHH-HhcccchhhhcchhhHHHHHHHHHHHHHHHHHHHHHhceeeHHHHHHHh
Confidence            455555567777777654   555444433 111        11134567899999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHh-------cCCeecCCCceEeecCCC
Q 029202          143 GMNEDDAAYYVQQ-------QGWTLDPASRMLTVKKQP  173 (197)
Q Consensus       143 gls~~e~~~~~~~-------~GW~~d~~~~~~~P~~~~  173 (197)
                      |++++++..++.+       .| ++|.-.++|.+..+.
T Consensus       370 ~l~~~evE~~ls~mI~~g~i~a-kIDq~~giV~F~~~~  406 (445)
T 4b4t_P          370 DLTESQTETYISDLVNQGIIYA-KVNRPAKIVNFEKPK  406 (445)
T ss_dssp             TSCHHHHHHHHHHHHHHTSSCC-EEETTTTEEEC----
T ss_pred             CcCHHHHHHHHHHHHHCCCEEE-EEcCCCCEEEECCCC
Confidence            9999888777543       25 777656677765543

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

Probab=94.41  E-value=0.077  Score=46.26  Aligned_cols=97  Identities=10%  Similarity=0.081  Sum_probs=65.2

Q ss_pred             hcHHHHHHHHHHHHHHcCChHHHHHHhhCC-CCcHHHHHHHHHHHHHHHHHHHHHHH--HhhcccCHHHHHHHcCCCHHH
Q 029202           72 SRAEVVAAWKIGQHLWTRDYAGVYDAIRGF-DWSQEAQALVAAFSELYTKRMFQLLL--SAYSTISTQDTALFLGMNEDD  148 (197)
Q Consensus        72 ~~~~l~~~~~l~~~L~~~~y~~v~~~l~~~-~ws~~~~~~i~~l~~~iR~~i~~lis--~AY~sIs~~~~a~~Lgls~~e  148 (197)
                      .+|+...+..+.+..-.|++..+-..++.+ ...+.+..-...+..++|-..+..+.  +.|++|+.+.+++.||++.+|
T Consensus       244 ~~~~~~~l~~Ll~~f~~g~~~~f~~~~~~~~~~~~~l~~~~~~l~~kirll~l~~l~~~~~~~~i~f~~ia~~l~i~~~e  323 (393)
T 4b4t_O          244 NDSNYDWLFQLLNALTVGDFDKFDSLIKVQISKIPILAQHESFLRQKICLMTLIETVFVKNIRMLSFEDISKATHLPKDN  323 (393)
T ss_dssp             SSSSTTHHHHHHHHHHHTCHHHHHHHCCHHHHHSHHHHHHHHHHHHHHHHHHHHHHHCSSSCCCEEHHHHHHHHTCCHHH
T ss_pred             cCCchHHHHHHHHHHhcCCHHHHHHHHHHhhhhCcchhhhHHHHHHHHHHHHHHHHhccCCCCcCcHHHHHHHhCcCHHH
Confidence            457788888999999999999987655431 11133444444555555544433222  457899999999999999988


Q ss_pred             HHHHHHh-------cCCeecCCCceEee
Q 029202          149 AAYYVQQ-------QGWTLDPASRMLTV  169 (197)
Q Consensus       149 ~~~~~~~-------~GW~~d~~~~~~~P  169 (197)
                      +..++.+       .| ++|.-.+++..
T Consensus       324 vE~lli~aI~~glI~G-kIDQv~~~v~v  350 (393)
T 4b4t_O          324 VEHLVMRAISLGLLKG-SIDQVNELVTI  350 (393)
T ss_dssp             HHHHHHHHHHHSCSSS-CEETTTTEECC
T ss_pred             HHHHHHHHHHcCCEEE-EEcCCCCEEEE
Confidence            8777543       25 56765556544

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

Probab=93.61  E-value=0.025  Score=51.46  Aligned_cols=95  Identities=14%  Similarity=0.249  Sum_probs=68.1

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHhhCCC--C-cHHHHHHHHHHHHHHHHHHHHHHHHhhcccCHHHHHHHcCCC-HHHHHH
Q 029202           76 VVAAWKIGQHLWTRDYAGVYDAIRGFD--W-SQEAQALVAAFSELYTKRMFQLLLSAYSTISTQDTALFLGMN-EDDAAY  151 (197)
Q Consensus        76 l~~~~~l~~~L~~~~y~~v~~~l~~~~--w-s~~~~~~i~~l~~~iR~~i~~lis~AY~sIs~~~~a~~Lgls-~~e~~~  151 (197)
                      +..=..|.+++..||..+|-..++.+.  | .+....+|..++..+.+.-++.++++|++||+.++|..||++ ++++..
T Consensus       342 L~pY~~Lv~Avr~GdL~~F~~~L~~h~~~F~~Dgty~LI~rLr~~vir~~irkis~~YsrIsL~dIa~kL~L~s~eeaE~  421 (523)
T 4b4t_S          342 LLPYYHLTKAVKLGDLKKFTSTITKYKQLLLKDDTYQLCVRLRSNVIKTGIRIISLTYKKISLRDICLKLNLDSEQTVEY  421 (523)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHHTTCTHHHHHHHHHHHHHHHHHSCCCSSEECHHHHHHHHHHHHSSCHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHhcceeccCChhHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHhCCCCHHHHHH
Confidence            444457888999999999888886532  2 123346888999999999999999999999999999999996 344444


Q ss_pred             HHH----hc--CCeecCCCceEeec
Q 029202          152 YVQ----QQ--GWTLDPASRMLTVK  170 (197)
Q Consensus       152 ~~~----~~--GW~~d~~~~~~~P~  170 (197)
                      ++.    +-  -=++|...+++..+
T Consensus       422 iVAkmI~dG~I~A~Idh~~g~v~sk  446 (523)
T 4b4t_S          422 MVSRAIRDGVIEAKINHEDGFIETT  446 (523)
T ss_dssp             HHHHHHHHTSSCCEECTTTCCEECC
T ss_pred             HHHHHHHcCCceEEEecCCCEEEeC
Confidence            433    21  11455555565554

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

Probab=93.39  E-value=0.17  Score=40.16  Aligned_cols=88  Identities=11%  Similarity=0.126  Sum_probs=55.5

Q ss_pred             HHHHHHHHHcCChHHHHHHhhCCCCcHHHHHHHH----HHHHHHHHHHHH----HHHH--hhcccCHHHHHHHcCC----
Q 029202           79 AWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVA----AFSELYTKRMFQ----LLLS--AYSTISTQDTALFLGM----  144 (197)
Q Consensus        79 ~~~l~~~L~~~~y~~v~~~l~~~~ws~~~~~~i~----~l~~~iR~~i~~----lis~--AY~sIs~~~~a~~Lgl----  144 (197)
                      -..|.+++..||..+|-.+++.+.     ..|+.    .+.++.|.-+.+    -+..  .|+.|++++++.-|.+    
T Consensus        83 y~~L~~Avr~Gdl~~f~~~l~~~~-----~~f~~~~~~lll~rlr~~v~r~l~rkv~~~~~~~rI~l~~i~~~l~~~~~~  157 (203)
T 3t5x_A           83 FAEVTRAVSEGNLLLLHEALAKHE-----AFFIRCGIFLILEKLKIITYRNLFKKVYLLLKTHQLSLDAFLVALKFMQVE  157 (203)
T ss_dssp             GHHHHHHHHHTCHHHHHHHHHHTH-----HHHHHHTCHHHHHTHHHHHHHHHHHHHHHHHCCSEEEHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHhH-----HHHHHCChHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHhcCCC
Confidence            347888999999999999998632     12222    134455553333    2222  6999999999999964    


Q ss_pred             --CHHHHHHHHHh-------cCCeecCCCceEeecCC
Q 029202          145 --NEDDAAYYVQQ-------QGWTLDPASRMLTVKKQ  172 (197)
Q Consensus       145 --s~~e~~~~~~~-------~GW~~d~~~~~~~P~~~  172 (197)
                        +.+|+.-.+.+       +| .+|...++++-.+.
T Consensus       158 ~~~~~evE~ila~lI~~G~Ikg-~I~~~~~~lVlsk~  193 (203)
T 3t5x_A          158 DVDIDEVQCILANLIYMGHVKG-YISHQHQKLVVSKQ  193 (203)
T ss_dssp             TCCHHHHHHHHHHHHHHTSSCE-EEETTTTEEEECSS
T ss_pred             CCCHHHHHHHHHHHHHcCceEE-EEcccccEEEECCC
Confidence              67777666443       36 45555555444443

>2heo_A Z-DNA binding protein 1; protein DLM1-Z-DNA complex, immune system-DNA complex; 1.70A {Mus musculus} PDB: 1j75_A

Probab=84.55  E-value=2.1  Score=27.47  Aligned_cols=44  Identities=5%  Similarity=0.021  Sum_probs=34.1

Q ss_pred             HHHHHHHHHHHHhhcccCHHHHHHHcCCCHHHHHHH---HHhcCCee
Q 029202          117 LYTKRMFQLLLSAYSTISTQDTALFLGMNEDDAAYY---VQQQGWTL  160 (197)
Q Consensus       117 ~iR~~i~~lis~AY~sIs~~~~a~~Lgls~~e~~~~---~~~~GW~~  160 (197)
                      ..|++|+.++...=..++..++|..||++...+.+.   .++.|+-.
T Consensus        10 ~~~~~IL~~L~~~~~~~s~~eLA~~lglsr~tv~~~l~~L~~~G~I~   56 (67)
T 2heo_A           10 NLEQKILQVLSDDGGPVAIFQLVKKCQVPKKTLNQVLYRLKKEDRVS   56 (67)
T ss_dssp             HHHHHHHHHHHHHCSCEEHHHHHHHHCSCHHHHHHHHHHHHHTTSEE
T ss_pred             HHHHHHHHHHHHcCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCcEe
Confidence            358899999987445699999999999997666555   44569944

>3e21_A HFAF1, FAS-associated factor 1; UBA, alternative splicing, apoptosis, nucleus, phosphoprotein; 1.73A {Homo sapiens}

Probab=83.54  E-value=0.24  Score=30.09  Aligned_cols=35  Identities=23%  Similarity=0.337  Sum_probs=27.1

Q ss_pred             HHHHHHHcCCCH-HHHHHHHHhcCCeecCCCceEee
Q 029202          135 TQDTALFLGMNE-DDAAYYVQQQGWTLDPASRMLTV  169 (197)
Q Consensus       135 ~~~~a~~Lgls~-~e~~~~~~~~GW~~d~~~~~~~P  169 (197)
                      +.+++++.|.++ +++..+..+.+|-++..-.-++|
T Consensus         9 ia~F~~iTG~~d~~~A~~~Lea~nWDLe~Av~~f~~   44 (45)
T 3e21_A            9 LADFQACTGIENIDEAITLLEQNNWDLVAAINGVIP   44 (45)
T ss_dssp             HHHHHHHHCCCCHHHHHHHHHHTTTCHHHHHTTC--
T ss_pred             HHHHHHHHCCCCHHHHHHHHHHcCCcHHHHHHHHcC
Confidence            567889999995 99999999999998754444444

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

Probab=80.18  E-value=2.5  Score=37.66  Aligned_cols=88  Identities=8%  Similarity=0.062  Sum_probs=55.6

Q ss_pred             HHHHHHhcCChhhhhhc---HHHHH-HHHHHHHHHcCChHHHHHHhhCCC-C--cHHH-HHHHHHHHHHHHHHHHHH---
Q 029202           57 SARFLWKSIPSTIKDSR---AEVVA-AWKIGQHLWTRDYAGVYDAIRGFD-W--SQEA-QALVAAFSELYTKRMFQL---  125 (197)
Q Consensus        57 ~ar~l~kRiP~~~~~~~---~~l~~-~~~l~~~L~~~~y~~v~~~l~~~~-w--s~~~-~~~i~~l~~~iR~~i~~l---  125 (197)
                      -++.+..++|..-.-..   +.|.. -..|.+++..||..+|-.+++.+. |  ...+ -.++..++..+=+..++-   
T Consensus       273 pv~LLlG~~P~~~ll~k~~~~~L~~~y~~L~~AVr~Gdl~~F~~~L~~~~~~f~~~gily~LlerLr~~v~RnLirkv~~  352 (455)
T 3t5v_B          273 PTGLILGKMVKWGPLRPFLSQETIDNWSVLYKHVRYGNIQGVSLWLRQNERHLCARQLLIVLLEKLPMVTYRNLIKTVIK  352 (455)
T ss_dssp             HHHHHTTCCBCHHHHGGGSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCCCCHHHHcccchHHHHHHHHHHHHHHHhCCHHHHHHHHHHhHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            35556666665433222   66776 557999999999999999998632 0  1112 344444444433333332   


Q ss_pred             -HHHhh--cccCHHHHHHHcCC
Q 029202          126 -LLSAY--STISTQDTALFLGM  144 (197)
Q Consensus       126 -is~AY--~sIs~~~~a~~Lgl  144 (197)
                       ....|  +.|++++++.-|.+
T Consensus       353 ~~~~~~~~srI~l~~i~~aL~~  374 (455)
T 3t5v_B          353 SWTTEWGQNKLPYSLIERVLQL  374 (455)
T ss_dssp             HHTTTTCCCEEEHHHHHHHHHH
T ss_pred             HHHhcCCCCeeeHHHHHHHHhh
Confidence             35558  89999999998874

---

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	197
d1rz4a1	85	Eukaryotic translation initiation factor 3 subunit	99.39
d1ufma_	84	COP9 signalosome complex subunit 4, GSN4 {Mouse (M	97.15
d1ng7a_	60	Soluble domain of poliovirus core protein 3a {Poli	82.21

>d1rz4a1 a.4.5.53 (A:132-216) Eukaryotic translation initiation factor 3 subunit 12, eIF3k, C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Eukaryotic translation initiation factor 3 subunit 12, eIF3k, C-terminal domain
domain: Eukaryotic translation initiation factor 3 subunit 12, eIF3k, C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.39  E-value=1.8e-13  Score=94.44  Aligned_cols=80  Identities=16%  Similarity=0.235  Sum_probs=70.0

Q ss_pred             HHHHHHHHHHHHHHHHhhcccCHHHHHHHcCCC-HHHHHHHHHhcCCeecCCCceEeecCCCCCCCCCC--ChHHHHHHH
Q 029202          113 AFSELYTKRMFQLLLSAYSTISTQDTALFLGMN-EDDAAYYVQQQGWTLDPASRMLTVKKQPLVTEQKL--DPSKLQRLT  189 (197)
Q Consensus       113 ~l~~~iR~~i~~lis~AY~sIs~~~~a~~Lgls-~~e~~~~~~~~GW~~d~~~~~~~P~~~~~~~~~~~--~~~qL~~LT  189 (197)
                      .|++.||..|...++.+|++|+.+.+++|||+. ++++..++++.||+.+. ++.++|.|+++.++++.  +...+++++
T Consensus         2 GFedsIR~~i~~vv~iTyq~I~~~~L~e~LG~~~d~~L~~~i~~~gW~~~~-~g~v~v~nqe~~iK~kni~EkI~fe~v~   80 (85)
T d1rz4a1           2 GFEDSVRKFICHVVGITYQHIDRWLLAEMLGDLSDSQLKVWMSKYGWSADE-SGQIFICSQEESIKPKNIVEKIDFDSVS   80 (85)
T ss_dssp             THHHHHHHHHHHHHHHHCSEECHHHHHHHTTSCCHHHHHHHHHHHTCEECC---CEECCCHHHHTSCCCSSCCCCHHHHH
T ss_pred             cHHHHHHHHHHhheeeeeeEEcHHHHHHHhCCCCHHHHHHHHHHcCCEEcC-CCEEEecChhhhcCccceeeeccHHHHH
Confidence            589999999999999999999999999999985 88899999999999985 45679999988887764  888888888


Q ss_pred             HHHH
Q 029202          190 EYVF  193 (197)
Q Consensus       190 ~~v~  193 (197)
                      .+++
T Consensus        81 ~ima   84 (85)
T d1rz4a1          81 SIMA   84 (85)
T ss_dssp             HHHC
T ss_pred             HHhc
Confidence            8764

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

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

Probab=97.15  E-value=0.00046  Score=46.24  Aligned_cols=62  Identities=10%  Similarity=0.118  Sum_probs=49.9

Q ss_pred             HHHHHHHHHHHHHHHHhhcccCHHHHHHHcCCCHHHHHHHHHh------cCCeecCCCceEeecCCCC
Q 029202          113 AFSELYTKRMFQLLLSAYSTISTQDTALFLGMNEDDAAYYVQQ------QGWTLDPASRMLTVKKQPL  174 (197)
Q Consensus       113 ~l~~~iR~~i~~lis~AY~sIs~~~~a~~Lgls~~e~~~~~~~------~GW~~d~~~~~~~P~~~~~  174 (197)
                      .|.+.+++.-+..+++.|++|+++++|+.||++.+++..++.+      ..=++|...++++...++.
T Consensus        11 ~L~~~i~Ehni~~is~~Y~~Isl~~la~~l~l~~~evE~~l~~mI~~~~i~akIDq~~g~V~F~~~e~   78 (84)
T d1ufma_          11 ILDRAVIEHNLLSASKLYNNITFEELGALLEIPAAKAEKIASQMITEGRMNGFIDQIDGIVHFETREA   78 (84)
T ss_dssp             CCCHHHHHHHHHHHHHSCSEEEHHHHHHHTTSCHHHHHHHHHHHHHTTSSCEEEETTTTEEEECCSSC
T ss_pred             HHHHHHHHHHHHHHHHhhceeeHHHHHHHHCCCHHHHHHHHHHHHhcCeEEEEEeCCCCEEEECCCCc
Confidence            3677889999999999999999999999999998887776553      2556787777877766543

>d1ng7a_ a.178.1.1 (A:) Soluble domain of poliovirus core protein 3a {Poliovirus type 1, strain Mahoney [TaxId: 12080]}

class: All alpha proteins
fold: Soluble domain of poliovirus core protein 3a
superfamily: Soluble domain of poliovirus core protein 3a
family: Soluble domain of poliovirus core protein 3a
domain: Soluble domain of poliovirus core protein 3a
species: Poliovirus type 1, strain Mahoney [TaxId: 12080]

Probab=82.21  E-value=0.23  Score=30.16  Aligned_cols=17  Identities=18%  Similarity=0.773  Sum_probs=15.4

Q ss_pred             CHHHHHHHHHhcCCeec
Q 029202          145 NEDDAAYYVQQQGWTLD  161 (197)
Q Consensus       145 s~~e~~~~~~~~GW~~d  161 (197)
                      +.+|+++||+++||-+.
T Consensus        30 DSeEVReYCk~kgWii~   46 (60)
T d1ng7a_          30 DSQEVRDYCEKKGWIVN   46 (60)
T ss_dssp             CCHHHHHHHHHHTCCCC
T ss_pred             CcHHHHHHHHHCCeeec
Confidence            57999999999999994