Citrus Sinensis ID: 025819

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------
Protein Sequence
MDIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSLSHKKLHTVSRPTLTAEGTRRSTLNLVE
Secondary Structure (PSIPRED)
ccHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHcccccEEcHHHHcccccccccccccHHHHHHHHHHHcccHHHHHHHHcccccccHHHHHHHHHHHHHHHHcccccccHHHHHHHccccccHHHHHHHHHHHHHHcccEEEEcccccEEEEEEEEcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHccccEEEHHHHHccHHHHHHHccccHHHHHHHHHHHHccHHHHHHcccccccccHHHHHHHHHHHHHHHHHccccccHHHHHHHcccccHHHHHHHHHHHHHHHccEEEEccccccEEEEEEcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccc
Coil and Loop (DISEMBL)
MDIEQRQAELIDHFVKQASNQKGAALGSVIVEatsqpslfafseilavpniaefegtenskyLDMLRLFAHGtwsdyknnaghlpqlvpdqvLKLKQLTVLTLAetnkvlpydelmeELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFaagrdlrpgqlgSMIQTLSNWLTTSDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSLShkklhtvsrptltaegtrrstlnlve
Flexible Loop (DISEMBL)
MDIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLaetnkvlpydelMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFaagrdlrpgqLGSMIQTLSNWLTTSDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAkkslshkklhtvsrptltaegtrrstlnlve
Low Complexity Region (SEG)
MDIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKNNAGHLPQLVPDqvlklkqltvltlAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSLSHKKLHTVSRPTLTAEGTRRSTLNLVE
Disordered region (IsUnstruct)
*************F*********AALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQEKIKWA****************************************************
Disordered Region (DISOPRED)
******Q***IDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQE*********************************************************
Disordered Region (DISEMBL)
MDIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQEKIKWADSMN*************************LHTVSRPTLTAEGTRRSTLNLVE
Disordered Region (DISPRO)
*DIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSLSHK************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQEKIKWADSMxxxxxxxxxxxxxxxxxxxxxxxxxxxxTVSRPTLTAEGTRRSTLNLVE
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	247	2.2.26 [Sep-21-2011]
Q94JU3	260	COP9 signalosome complex	no	no	0.902	0.857	0.784	1e-101
Q55BD5	259	COP9 signalosome complex	yes	no	0.753	0.718	0.449	3e-43
Q9H9Q2	264	COP9 signalosome complex	yes	no	0.858	0.803	0.356	2e-36
Q2KI56	264	COP9 signalosome complex	yes	no	0.850	0.795	0.360	2e-36
Q8BV13	264	COP9 signalosome complex	yes	no	0.858	0.803	0.356	2e-36
Q9V4S8	278	COP9 signalosome complex	yes	no	0.813	0.723	0.368	1e-33
Q9CZ04	275	COP9 signalosome complex	no	no	0.842	0.756	0.349	4e-32
Q5R762	275	COP9 signalosome complex	no	no	0.842	0.756	0.344	1e-31
Q9UBW8	275	COP9 signalosome complex	no	no	0.842	0.756	0.344	1e-31
Q7SGS1	417	COP9 signalosome complex	N/A	no	0.643	0.381	0.336	3e-20

>sp|Q94JU3|CSN7_ARATH COP9 signalosome complex subunit 7 OS=Arabidopsis thaliana GN=CSN7 PE=1 SV=1

 Score =  367 bits (943), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 175/223 (78%), Positives = 196/223 (87%)

Query: 1   MDIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENS 60
           MDIEQ+QAE+ID  VK+AS  K  ALG +I+EATS PSLFAFSEILA+PN+A+ EGT +S
Sbjct: 1   MDIEQKQAEIIDQLVKRASTCKSEALGPLIIEATSHPSLFAFSEILALPNVAQLEGTTDS 60

Query: 61  KYLDMLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELD 120
            YLD+LRLFAHGTW DYK NA  LP L PDQ+LKLKQLTVLTLAE+NKVLPYD LM ELD
Sbjct: 61  VYLDLLRLFAHGTWGDYKCNATRLPHLSPDQILKLKQLTVLTLAESNKVLPYDTLMVELD 120

Query: 121 VTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTT 180
           V+NVRELEDFLINECMY GIVRGKLDQL+RCFEV FAAGRDLRPGQLG+M+ TLSNWL T
Sbjct: 121 VSNVRELEDFLINECMYAGIVRGKLDQLKRCFEVPFAAGRDLRPGQLGNMLHTLSNWLNT 180

Query: 181 SDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSLSHK 223
           S+NLLISIQ+KIKWAD+M+EMDKKHRK+ EE VEE KKSLS K
Sbjct: 181 SENLLISIQDKIKWADNMSEMDKKHRKEAEEGVEEVKKSLSMK 223

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|Q55BD5|CSN7_DICDI COP9 signalosome complex subunit 7 OS=Dictyostelium discoideum GN=csn7 PE=1 SV=1

 Score =  175 bits (443), Expect = 3e-43,   Method: Compositional matrix adjust.
 Identities = 84/187 (44%), Positives = 125/187 (66%), Gaps = 1/187 (0%)

Query: 13  HFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHG 72
            FV  A + KG A+ S+I +A + PS+F F E+L +PN+ + + TE   Y D+L +FA+G
Sbjct: 16  QFVVLAKSSKGRAIVSIIEKALNHPSVFVFGELLDMPNVQQLKETEFKNYYDLLLIFAYG 75

Query: 73  TWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLI 132
           ++ DYKN    LPQL P  + KLKQLT++ L+ T+ V+PY  L E++++TNVRELED +I
Sbjct: 76  SFIDYKNKKDSLPQLTPQMITKLKQLTIVFLSSTSNVIPYSVLQEQIEITNVRELEDLII 135

Query: 133 NECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQEKI 192
            + +Y  I++GKLDQ  +  E+ F+ GRD++P QL SMI  L+NW +TS  LL  I   I
Sbjct: 136 -DSIYQNIIKGKLDQKNKHLEIDFSIGRDVQPEQLDSMINCLNNWSSTSQKLLDDISGLI 194

Query: 193 KWADSMN 199
             +D ++
Sbjct: 195 THSDKVH 201

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|Q9H9Q2|CSN7B_HUMAN COP9 signalosome complex subunit 7b OS=Homo sapiens GN=COPS7B PE=1 SV=1

 Score =  152 bits (385), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 76/213 (35%), Positives = 129/213 (60%), Gaps = 1/213 (0%)

Query: 8   AELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLR 67
           + L++ F+  A    G+AL ++I +    P ++ F E+L + N+ E     N+ YL +L 
Sbjct: 9   SNLLEQFILLAKGTSGSALTALISQVLEAPGVYVFGELLELANVQELAEGANAAYLQLLN 68

Query: 68  LFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVREL 127
           LFA+GT+ DY  N   LP+L   Q  KLK LT+++LA   K +PY  L+++L++ N+REL
Sbjct: 69  LFAYGTYPDYIANKESLPELSTAQQNKLKHLTIVSLASRMKCIPYSVLLKDLEMRNLREL 128

Query: 128 EDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLIS 187
           ED +I E +YT I++GKLDQ  +  EV F  GRD+R   + ++++TL  W    + +L+ 
Sbjct: 129 EDLII-EAVYTDIIQGKLDQRNQLLEVDFCIGRDIRKKDINNIVKTLHEWCDGCEAVLLG 187

Query: 188 IQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSL 220
           I++++  A+   E   + ++ +E +V   KK+L
Sbjct: 188 IEQQVLRANQYKENHNRTQQQVEAEVTNIKKTL 220

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, JUN, I-kappa-B-alpha/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|Q2KI56|CSN7B_BOVIN COP9 signalosome complex subunit 7b OS=Bos taurus GN=COPS7B PE=2 SV=1

 Score =  152 bits (385), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 76/211 (36%), Positives = 128/211 (60%), Gaps = 1/211 (0%)

Query: 10  LIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLF 69
           L++ F+  A    G+AL ++I +    P ++ F E+L + N+ E     N+ YL +L LF
Sbjct: 11  LLEQFILLAKGTSGSALTALISQVLEAPGVYVFGELLELANVQELAEGANAAYLQLLNLF 70

Query: 70  AHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELED 129
           A+GT+ DY  N   LP+L   Q  KLK LT+++LA   K +PY  L+++L++ N+RELED
Sbjct: 71  AYGTYPDYIANKESLPELSTAQQNKLKHLTIVSLASRMKCIPYSVLLKDLEMRNLRELED 130

Query: 130 FLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQ 189
            +I E +YT I++GKLDQ  +  EV F  GRD+R   + ++++TL  W    + +L+ I+
Sbjct: 131 LII-EAVYTDIIQGKLDQRNQLLEVDFCIGRDIRKKDINNIVKTLHEWCDGCEAVLLGIE 189

Query: 190 EKIKWADSMNEMDKKHRKDLEEKVEEAKKSL 220
           +++  A+   E   + ++ +E +V   KK+L
Sbjct: 190 QQVLRANQYKENHSRTQQQVEAEVTNIKKTL 220

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, JUN, I-kappa-B-alpha/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.

Bos taurus (taxid: 9913)

>sp|Q8BV13|CSN7B_MOUSE COP9 signalosome complex subunit 7b OS=Mus musculus GN=Cops7b PE=1 SV=1

 Score =  152 bits (384), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 76/213 (35%), Positives = 129/213 (60%), Gaps = 1/213 (0%)

Query: 8   AELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLR 67
           + L++ F+  A    G+AL ++I +    P ++ F E+L + N+ E     N+ YL +L 
Sbjct: 9   SNLLEQFILLAKGTSGSALTTLISQVLEAPGVYVFGELLELANVQELAEGANAAYLQLLN 68

Query: 68  LFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVREL 127
           LFA+GT+ DY  N   LP+L   Q  KLK LT+++LA   K +PY  L+++L++ N+REL
Sbjct: 69  LFAYGTYPDYIANKESLPELSVAQQNKLKHLTIVSLASRMKCIPYSVLLKDLEMRNLREL 128

Query: 128 EDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLIS 187
           ED +I E +YT I++GKLDQ  +  EV F  GRD+R   + ++++TL  W    + +L+ 
Sbjct: 129 EDLII-EAVYTDIIQGKLDQRNQLLEVDFCIGRDIRKKDINNIVKTLHEWCDGCEAVLLG 187

Query: 188 IQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSL 220
           I++++  A+   E   + ++ +E +V   KK+L
Sbjct: 188 IEQQVLRANQYKENHHRTQQQVEAEVSNIKKTL 220

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, JUN, I-kappa-B-alpha/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|Q9V4S8|CSN7_DROME COP9 signalosome complex subunit 7 OS=Drosophila melanogaster GN=CSN7 PE=1 SV=2

 Score =  143 bits (361), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 76/206 (36%), Positives = 124/206 (60%), Gaps = 5/206 (2%)

Query: 10  LIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLF 69
            ++ F   A +  GAAL  VI +A   P++F F E+LA P++ + +   +SK+ + L LF
Sbjct: 19  FLEKFCVLAKSSTGAALLDVIRQALEAPNVFVFGELLAEPSVLQLKDGPDSKHFETLNLF 78

Query: 70  AHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELED 129
           A+GT+ +Y+       +L P    KL+ LT+++LA   K +PY  L+ EL++ NVR LED
Sbjct: 79  AYGTYKEYRAQPEKFIELTPAMQKKLQHLTIVSLAIKAKSIPYALLLSELEIDNVRHLED 138

Query: 130 FLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQ 189
            +I E +Y  I+ GKL Q  R  EV +A GRD+ PG  G +++TL  W+ + D++   I+
Sbjct: 139 III-EAIYADIIHGKLFQNTRILEVDYAQGRDIPPGYTGQIVETLQAWVNSCDSVSNCIE 197

Query: 190 EKIKWADSMNEMDKKHRKDLEEKVEE 215
            +IK+A++    +K  R   +E+VE+
Sbjct: 198 MQIKYANA----EKSKRLINKERVEQ 219

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)

>sp|Q9CZ04|CSN7A_MOUSE COP9 signalosome complex subunit 7a OS=Mus musculus GN=Cops7a PE=1 SV=2

 Score =  138 bits (347), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 73/209 (34%), Positives = 123/209 (58%), Gaps = 1/209 (0%)

Query: 12  DHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAH 71
           + F+  A + KGAAL ++I +    P ++ F E+L +PN+ E   ++ +    +L +FA+
Sbjct: 13  EQFLLLAKSAKGAALATLIHQVLEAPGVYVFGELLDMPNVRELAESDFASTFRLLTVFAY 72

Query: 72  GTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFL 131
           GT++DY   A +LP L   Q  KL+ L+V+TLA   K +PY  L+E L + NVR+LED +
Sbjct: 73  GTYADYLAEARNLPPLTDAQKNKLRHLSVVTLAAKVKCIPYAVLLEALALRNVRQLEDLV 132

Query: 132 INECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQEK 191
           I E +Y  ++RG LDQ  +  EV ++ GRD++   L ++ QTL  W    + +L  I+E+
Sbjct: 133 I-EAVYADVLRGSLDQRNQRLEVDYSIGRDIQRQDLSAIAQTLQEWCVGCEVVLSGIEEQ 191

Query: 192 IKWADSMNEMDKKHRKDLEEKVEEAKKSL 220
           +  A+   E     ++ +E +V   KK++
Sbjct: 192 VSRANQHKEQQLGLKQQIESEVANLKKTI 220

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, JUN, I-kappa-B-alpha/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|Q5R762|CSN7A_PONAB COP9 signalosome complex subunit 7a OS=Pongo abelii GN=COPS7A PE=2 SV=1

 Score =  136 bits (343), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 72/209 (34%), Positives = 123/209 (58%), Gaps = 1/209 (0%)

Query: 12  DHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAH 71
           + F+  A + KGAAL ++I +    P ++ F E+L +PN+ E   ++ +    +L +FA+
Sbjct: 13  EQFLLLAKSAKGAALATLIHQVLEAPGVYVFGELLDMPNVRELAESDFASTFRLLTVFAY 72

Query: 72  GTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFL 131
           GT++DY   A +LP L   Q  KL+ L+V+TLA   K +PY  L+E L + NVR+LED +
Sbjct: 73  GTYADYLAEARNLPPLTEAQKNKLRHLSVVTLAAKVKCIPYAVLLEALALRNVRQLEDLV 132

Query: 132 INECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQEK 191
           I E +Y  ++RG LDQ  +  EV ++ GRD++   L ++ +TL  W    + +L  I+E+
Sbjct: 133 I-EAVYADVLRGSLDQRNQRLEVDYSIGRDIQRQDLSAIARTLQEWCVGCEVVLSGIEEQ 191

Query: 192 IKWADSMNEMDKKHRKDLEEKVEEAKKSL 220
           +  A+   E     ++ +E +V   KK++
Sbjct: 192 VSRANQHKEQQLGLKQQIESEVANLKKTI 220

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, JUN, I-kappa-B-alpha/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|Q9UBW8|CSN7A_HUMAN COP9 signalosome complex subunit 7a OS=Homo sapiens GN=COPS7A PE=1 SV=1

 Score =  136 bits (343), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 72/209 (34%), Positives = 123/209 (58%), Gaps = 1/209 (0%)

Query: 12  DHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAH 71
           + F+  A + KGAAL ++I +    P ++ F E+L +PN+ E   ++ +    +L +FA+
Sbjct: 13  EQFLLLAKSAKGAALATLIHQVLEAPGVYVFGELLDMPNVRELAESDFASTFRLLTVFAY 72

Query: 72  GTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFL 131
           GT++DY   A +LP L   Q  KL+ L+V+TLA   K +PY  L+E L + NVR+LED +
Sbjct: 73  GTYADYLAEARNLPPLTEAQKNKLRHLSVVTLAAKVKCIPYAVLLEALALRNVRQLEDLV 132

Query: 132 INECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQEK 191
           I E +Y  ++RG LDQ  +  EV ++ GRD++   L ++ +TL  W    + +L  I+E+
Sbjct: 133 I-EAVYADVLRGSLDQRNQRLEVDYSIGRDIQRQDLSAIARTLQEWCVGCEVVLSGIEEQ 191

Query: 192 IKWADSMNEMDKKHRKDLEEKVEEAKKSL 220
           +  A+   E     ++ +E +V   KK++
Sbjct: 192 VSRANQHKEQQLGLKQQIESEVANLKKTI 220

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, JUN, I-kappa-B-alpha/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|Q7SGS1|CSN7A_NEUCR COP9 signalosome complex subunit 7a OS=Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) GN=csn-7a PE=1 SV=1

 Score = 98.6 bits (244), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 62/184 (33%), Positives = 99/184 (53%), Gaps = 25/184 (13%)

Query: 16  KQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGT-ENSKYLDMLRLFAHGTW 74
           K A++ + AA   ++   TS P+ F F+E+L  P I   E + E S YL +L++F+HGT+
Sbjct: 18  KSATSPRAAA--DLVTRVTSAPNTFIFTELLQTPQIQSLEYSHEFSSYLTLLQIFSHGTY 75

Query: 75  SDYKNNAGHLPQLVPDQVLKLKQLTVLTLA----------------ETNKVLP----YDE 114
           +DY  NA  LP L  DQ LKL+QL++LTL                 E N+  P    Y  
Sbjct: 76  ADYIANASALPALNDDQKLKLRQLSLLTLVANDGSNVPLDYDAMQRENNQAQPPNQSYAS 135

Query: 115 LMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEV-QFAAGRDLRPGQLGSMIQT 173
           L   L++++ RELE+ +I+  +Y G++ G+LD      ++   AA RD+    +  ++ +
Sbjct: 136 LTRRLELSSARELEELVIS-AIYAGLIEGQLDPANEMVQINSVAALRDVPARGVNGLLSS 194

Query: 174 LSNW 177
           L  W
Sbjct: 195 LQGW 198

Component of the COP9 signalosome (CSN) complex that acts as an regulator of the ubiquitin (Ubl) conjugation pathway by mediating the deneddylation of the cullin subunit of SCF-type E3 ubiquitin-protein ligase complexes (By similarity). The CSN complex is involved in the regulation of the circadian clock through its control of the stability of the SCF(FWD1) complex.

Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) (taxid: 367110)

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	247
359489202	247	PREDICTED: COP9 signalosome complex subu	1.0	1.0	0.854	1e-115
329025154	247	COP9 complex subunit 7a [Solanum chacoen	1.0	1.0	0.805	1e-114
224067485	225	predicted protein [Populus trichocarpa]	0.902	0.991	0.838	1e-109
255541046	275	cop9 complex subunit 7a, putative [Ricin	0.902	0.810	0.834	1e-108
307136429	225	cop9 complex subunit 7a [Cucumis melo su	0.902	0.991	0.811	1e-105
449445513	259	PREDICTED: COP9 signalosome complex subu	0.902	0.861	0.816	1e-105
224136466	223	predicted protein [Populus trichocarpa]	0.902	1.0	0.820	1e-104
118485804	259	unknown [Populus trichocarpa]	0.902	0.861	0.820	1e-104
147788695	225	hypothetical protein VITISV_024935 [Viti	0.829	0.911	0.858	1e-101
225453392	259	PREDICTED: COP9 signalosome complex subu	0.829	0.791	0.858	1e-101

>gi|359489202|ref|XP_003633896.1| PREDICTED: COP9 signalosome complex subunit 7 isoform 2 [Vitis vinifera]

 Score =  420 bits (1080), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 211/247 (85%), Positives = 227/247 (91%)

Query: 1   MDIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENS 60
           MDIEQRQAELID FVKQAS   G+AL +VI++ATS PSLFAFSEILAVPN+ E  GTENS
Sbjct: 1   MDIEQRQAELIDAFVKQASTHNGSALATVILDATSHPSLFAFSEILAVPNVVELGGTENS 60

Query: 61  KYLDMLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELD 120
            YLDMLRLFAHGTWSDYK+N   LPQLVPDQ LKLKQLTVLTLAETNKVLPYD+LM+ELD
Sbjct: 61  VYLDMLRLFAHGTWSDYKSNVDRLPQLVPDQALKLKQLTVLTLAETNKVLPYDQLMQELD 120

Query: 121 VTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTT 180
           VTNVRELEDFLINECMY GIVRGKLDQLRRCFEVQFAAGRDLRPGQLG MIQTLSNWL T
Sbjct: 121 VTNVRELEDFLINECMYAGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGCMIQTLSNWLGT 180

Query: 181 SDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSLSHKKLHTVSRPTLTAEGTRR 240
           SDNLL+SIQEKIKWAD+M+E+DKKHRK++EE+VEE KKS S KKLHTVSRPTLT+EGTRR
Sbjct: 181 SDNLLLSIQEKIKWADTMSELDKKHRKEVEERVEEVKKSFSVKKLHTVSRPTLTSEGTRR 240

Query: 241 STLNLVE 247
           STLNLVE
Sbjct: 241 STLNLVE 247

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|329025154|gb|AEB71560.1| COP9 complex subunit 7a [Solanum chacoense]

 Score =  416 bits (1070), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 199/247 (80%), Positives = 225/247 (91%)

Query: 1   MDIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENS 60
           MDIEQ+QAE I+ FVKQAS  KG+AL SVIVEATS PSLFAFSEIL+VP++ E EGTENS
Sbjct: 1   MDIEQKQAEHIEFFVKQASALKGSALTSVIVEATSHPSLFAFSEILSVPSVLELEGTENS 60

Query: 61  KYLDMLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELD 120
            YLD+LRLFAHGTWSDYK+ A  LPQLV  Q LKLKQLTVLTLA+T+KVLPYD+LM+ELD
Sbjct: 61  VYLDLLRLFAHGTWSDYKSIACRLPQLVSAQALKLKQLTVLTLADTSKVLPYDQLMQELD 120

Query: 121 VTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTT 180
           VTNVRELEDFLINECMY GIVRGKLDQL+RCFEVQFAAGRDLRPGQLG+M+QTL++WLTT
Sbjct: 121 VTNVRELEDFLINECMYVGIVRGKLDQLKRCFEVQFAAGRDLRPGQLGNMLQTLTDWLTT 180

Query: 181 SDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSLSHKKLHTVSRPTLTAEGTRR 240
           SDNLL+SIQEKIKWAD+M+E D+KHRK++EE+V+E KKSLS KKL TVSRP LT+EG RR
Sbjct: 181 SDNLLVSIQEKIKWADTMSESDRKHRKEVEERVDEVKKSLSLKKLQTVSRPMLTSEGMRR 240

Query: 241 STLNLVE 247
           STLNLVE
Sbjct: 241 STLNLVE 247

Source: Solanum chacoense

Species: Solanum chacoense

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224067485|ref|XP_002302493.1| predicted protein [Populus trichocarpa] gi|222844219|gb|EEE81766.1| predicted protein [Populus trichocarpa]

 Score =  401 bits (1030), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 187/223 (83%), Positives = 208/223 (93%)

Query: 1   MDIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENS 60
           MDIEQ+QAELIDHFV QAS  K +AL  +I+EATS PSLFAFSEIL+VP ++E +GTENS
Sbjct: 1   MDIEQKQAELIDHFVNQASTLKASALWPLIIEATSHPSLFAFSEILSVPTVSELQGTENS 60

Query: 61  KYLDMLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELD 120
            YLD+LRLFAHGTW+DYKNNAGHLPQLVPDQVLKLKQLTVLTLAE NKVLPYD+LM+ELD
Sbjct: 61  LYLDVLRLFAHGTWTDYKNNAGHLPQLVPDQVLKLKQLTVLTLAEMNKVLPYDQLMQELD 120

Query: 121 VTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTT 180
           VTNVRELEDFLINECMY GIVRGKLDQLRRCFEVQFAAGRDLRPGQLG+M+QTLSNWL T
Sbjct: 121 VTNVRELEDFLINECMYAGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGNMLQTLSNWLAT 180

Query: 181 SDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSLSHK 223
           SDNLL+SIQEKIKWADSM+E+DKKHRKD++++VEE KKSLS K
Sbjct: 181 SDNLLVSIQEKIKWADSMSELDKKHRKDVDDRVEEVKKSLSLK 223

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255541046|ref|XP_002511587.1| cop9 complex subunit 7a, putative [Ricinus communis] gi|223548767|gb|EEF50256.1| cop9 complex subunit 7a, putative [Ricinus communis]

 Score =  395 bits (1015), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 186/223 (83%), Positives = 209/223 (93%)

Query: 1   MDIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENS 60
           M+IEQ+QAELIDHFVK AS  KG+ALG VIVEATS PSLFAFSEILAVP +AE EG +NS
Sbjct: 1   MEIEQKQAELIDHFVKIASALKGSALGPVIVEATSHPSLFAFSEILAVPTVAELEGVDNS 60

Query: 61  KYLDMLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELD 120
            YLD+LRLFAHGTW+DYKNN+G LPQL+PDQVLKLKQLTVLTLAETNKVLPYD+LM+ELD
Sbjct: 61  VYLDVLRLFAHGTWTDYKNNSGRLPQLIPDQVLKLKQLTVLTLAETNKVLPYDQLMQELD 120

Query: 121 VTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTT 180
           VTNVRELEDFLINECMY GIVRGKLDQLRRCFEVQFAAGRDLRP QLG+M+QTLSNWL+T
Sbjct: 121 VTNVRELEDFLINECMYAGIVRGKLDQLRRCFEVQFAAGRDLRPEQLGNMLQTLSNWLST 180

Query: 181 SDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSLSHK 223
           S+NLL+SIQEKIKWAD+M+E+DK+HRKD+E+KVEE KK+LS K
Sbjct: 181 SENLLVSIQEKIKWADTMSELDKRHRKDVEDKVEEVKKTLSLK 223

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|307136429|gb|ADN34236.1| cop9 complex subunit 7a [Cucumis melo subsp. melo]

 Score =  388 bits (996), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 181/223 (81%), Positives = 206/223 (92%)

Query: 1   MDIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENS 60
           MDIEQ+Q E IDHFVKQAS+ KG+ALGSV+ +ATS PSLFAFSEILAVP++ E EGTE+S
Sbjct: 1   MDIEQKQTEFIDHFVKQASSLKGSALGSVVTDATSHPSLFAFSEILAVPSVVELEGTEHS 60

Query: 61  KYLDMLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELD 120
            YLD+LRLFA+GTWSDYK+N+  LP+L  DQ LKLKQLTVLTLAETNKVL YD+LM+ELD
Sbjct: 61  IYLDVLRLFAYGTWSDYKSNSSRLPELSSDQALKLKQLTVLTLAETNKVLAYDQLMQELD 120

Query: 121 VTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTT 180
           VTNVRELEDFLINECMY GIVRGKLDQLRRCFEVQFAAGRDLRPGQLG+MI+TLSNWLTT
Sbjct: 121 VTNVRELEDFLINECMYAGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGNMIRTLSNWLTT 180

Query: 181 SDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSLSHK 223
           SDNLL+SIQEKIKWAD+M+E+DKKHRKD++++VEE KKSLS K
Sbjct: 181 SDNLLVSIQEKIKWADNMSELDKKHRKDVDDRVEEVKKSLSLK 223

Source: Cucumis melo subsp. melo

Species: Cucumis melo

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449445513|ref|XP_004140517.1| PREDICTED: COP9 signalosome complex subunit 7-like [Cucumis sativus] gi|449514708|ref|XP_004164457.1| PREDICTED: COP9 signalosome complex subunit 7-like [Cucumis sativus]

 Score =  388 bits (996), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 182/223 (81%), Positives = 206/223 (92%)

Query: 1   MDIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENS 60
           MDIEQ+Q E IDHFVKQAS+ KG+ALGSV+ +ATS PSLFAFSEILAVPN+ E EGTE+S
Sbjct: 1   MDIEQKQTEFIDHFVKQASSLKGSALGSVVTDATSHPSLFAFSEILAVPNVVELEGTEHS 60

Query: 61  KYLDMLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELD 120
            YLD+LRLFA+GTWSDYK+N+  LP+L  DQ LKLKQLTVLTLAETNKVL YD+LM+ELD
Sbjct: 61  IYLDVLRLFAYGTWSDYKSNSSRLPELSSDQALKLKQLTVLTLAETNKVLAYDQLMQELD 120

Query: 121 VTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTT 180
           VTNVRELEDFLINECMY GIVRGKLDQLRRCFEVQFAAGRDLRPGQLG+MI+TLSNWLTT
Sbjct: 121 VTNVRELEDFLINECMYAGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGNMIRTLSNWLTT 180

Query: 181 SDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSLSHK 223
           SDNLL+SIQEKIKWAD+M+E+DKKHRKD++++VEE KKSLS K
Sbjct: 181 SDNLLVSIQEKIKWADNMSELDKKHRKDVDDRVEEVKKSLSLK 223

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224136466|ref|XP_002326867.1| predicted protein [Populus trichocarpa] gi|222835182|gb|EEE73617.1| predicted protein [Populus trichocarpa]

 Score =  385 bits (988), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 183/223 (82%), Positives = 203/223 (91%)

Query: 1   MDIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENS 60
           MDIEQ+QAELIDHFV QAS  K +AL  +I+EATS PSLFAFSEIL+ P ++E EGTENS
Sbjct: 1   MDIEQKQAELIDHFVNQASTLKASALWPLIIEATSHPSLFAFSEILSSPTVSELEGTENS 60

Query: 61  KYLDMLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELD 120
             LD+LRLFAHGTWSDYK+NAG LPQLVPDQVLKLKQLTVLTLAE NKVLPYD+LM+ELD
Sbjct: 61  FCLDVLRLFAHGTWSDYKSNAGRLPQLVPDQVLKLKQLTVLTLAEMNKVLPYDQLMQELD 120

Query: 121 VTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTT 180
           VTNVRELEDFLINECMY GIVRGKLDQLRRCFEVQFAAGRDLRPGQLG+M+QTLSNWL T
Sbjct: 121 VTNVRELEDFLINECMYAGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGNMLQTLSNWLDT 180

Query: 181 SDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSLSHK 223
           SD+LL+SIQEKIKWADS +E+DKKH+KD+E +VEE KKSLS K
Sbjct: 181 SDDLLVSIQEKIKWADSTSELDKKHQKDVEYRVEEVKKSLSLK 223

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118485804|gb|ABK94750.1| unknown [Populus trichocarpa]

 Score =  383 bits (983), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 183/223 (82%), Positives = 203/223 (91%)

Query: 1   MDIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENS 60
           MDIEQ+QAELIDHFV QAS  K +AL  +I+EATS PSLFAFSEIL+ P ++E EGTENS
Sbjct: 1   MDIEQKQAELIDHFVNQASTLKASALWPLIIEATSHPSLFAFSEILSSPTVSELEGTENS 60

Query: 61  KYLDMLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELD 120
             LD+LRLFAHGTWSDYK+NAG LPQLVPDQVLKLKQLTVLTLAE NKVLPYD+LM+ELD
Sbjct: 61  FCLDVLRLFAHGTWSDYKSNAGRLPQLVPDQVLKLKQLTVLTLAEMNKVLPYDQLMQELD 120

Query: 121 VTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTT 180
           VTNVRELEDFLINECMY GIVRGKLDQLRRCFEVQFAAGRDLRPGQLG+M+QTLSNWL T
Sbjct: 121 VTNVRELEDFLINECMYAGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGNMLQTLSNWLDT 180

Query: 181 SDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSLSHK 223
           SD+LL+SIQEKIKWADS +E+DKKH+KD+E +VEE KKSLS K
Sbjct: 181 SDDLLVSIQEKIKWADSTSELDKKHQKDVEYRVEEVKKSLSLK 223

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147788695|emb|CAN69751.1| hypothetical protein VITISV_024935 [Vitis vinifera]

 Score =  374 bits (961), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 176/205 (85%), Positives = 188/205 (91%)

Query: 1   MDIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENS 60
           MDIEQRQAELID FVKQAS   G+AL +VI++ATS PSLFAFSEILAVPN+ E  GTENS
Sbjct: 1   MDIEQRQAELIDAFVKQASTHNGSALATVILDATSHPSLFAFSEILAVPNVVELGGTENS 60

Query: 61  KYLDMLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELD 120
            YLDMLRLFAHGTWSDYK+N   LPQLVPDQ LKLKQLTVLTLAETNKVLPYD+LM+ELD
Sbjct: 61  VYLDMLRLFAHGTWSDYKSNVDRLPQLVPDQALKLKQLTVLTLAETNKVLPYDQLMQELD 120

Query: 121 VTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTT 180
           VTNVRELEDFLINECMY GIVRGKLDQLRRCFEVQFAAGRDLRPGQLG MIQTLSNWL T
Sbjct: 121 VTNVRELEDFLINECMYAGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGCMIQTLSNWLGT 180

Query: 181 SDNLLISIQEKIKWADSMNEMDKKH 205
           SDNLL+SIQEKIKWAD+M+E+DKKH
Sbjct: 181 SDNLLLSIQEKIKWADTMSELDKKH 205

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225453392|ref|XP_002273686.1| PREDICTED: COP9 signalosome complex subunit 7 isoform 1 [Vitis vinifera] gi|297734611|emb|CBI16662.3| unnamed protein product [Vitis vinifera]

 Score =  373 bits (957), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 176/205 (85%), Positives = 188/205 (91%)

Query: 1   MDIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENS 60
           MDIEQRQAELID FVKQAS   G+AL +VI++ATS PSLFAFSEILAVPN+ E  GTENS
Sbjct: 1   MDIEQRQAELIDAFVKQASTHNGSALATVILDATSHPSLFAFSEILAVPNVVELGGTENS 60

Query: 61  KYLDMLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELD 120
            YLDMLRLFAHGTWSDYK+N   LPQLVPDQ LKLKQLTVLTLAETNKVLPYD+LM+ELD
Sbjct: 61  VYLDMLRLFAHGTWSDYKSNVDRLPQLVPDQALKLKQLTVLTLAETNKVLPYDQLMQELD 120

Query: 121 VTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTT 180
           VTNVRELEDFLINECMY GIVRGKLDQLRRCFEVQFAAGRDLRPGQLG MIQTLSNWL T
Sbjct: 121 VTNVRELEDFLINECMYAGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGCMIQTLSNWLGT 180

Query: 181 SDNLLISIQEKIKWADSMNEMDKKH 205
           SDNLL+SIQEKIKWAD+M+E+DKKH
Sbjct: 181 SDNLLLSIQEKIKWADTMSELDKKH 205

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	247
TAIR|locus:2205593	260	FUS5 "FUSCA 5" [Arabidopsis th	0.902	0.857	0.730	1.5e-83
DICTYBASE|DDB_G0271282	259	csn7 "proteasome component reg	0.834	0.795	0.400	3.7e-39
UNIPROTKB|Q2KI56	264	COPS7B "COP9 signalosome compl	0.874	0.818	0.325	1.3e-31
UNIPROTKB|E2R501	264	COPS7B "Uncharacterized protei	0.874	0.818	0.325	1.3e-31
UNIPROTKB|Q9H9Q2	264	COPS7B "COP9 signalosome compl	0.874	0.818	0.325	1.3e-31
MGI|MGI:1349388	264	Cops7b "COP9 (constitutive pho	0.874	0.818	0.325	1.6e-31
RGD|1306918	322	Cops7b "COP9 signalosome subun	0.874	0.670	0.321	3.3e-31
UNIPROTKB|E1C3R1	267	COPS7B "Uncharacterized protei	0.874	0.808	0.316	1.8e-30
FB|FBgn0028836	278	CSN7 "COP9 complex homolog sub	0.846	0.751	0.333	5.6e-29
UNIPROTKB|F1NGK0	275	COPS7A "Uncharacterized protei	0.939	0.843	0.305	1.9e-28

TAIR|locus:2205593 FUS5 "FUSCA 5" [Arabidopsis thaliana (taxid:3702)]

 Score = 837 (299.7 bits), Expect = 1.5e-83, P = 1.5e-83
 Identities = 163/223 (73%), Positives = 183/223 (82%)

Query:     1 MDIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENS 60
             MDIEQ+QAE+ID  VK+AS  K  ALG +I+EATS PSLFAFSEILA+PN+A+ EGT +S
Sbjct:     1 MDIEQKQAEIIDQLVKRASTCKSEALGPLIIEATSHPSLFAFSEILALPNVAQLEGTTDS 60

Query:    61 KYLDMLRLFAHGTWSDYKNNAGHLPQLVPDXXXXXXXXXXXXXAETNKVLPYDELMEELD 120
              YLD+LRLFAHGTW DYK NA  LP L PD             AE+NKVLPYD LM ELD
Sbjct:    61 VYLDLLRLFAHGTWGDYKCNATRLPHLSPDQILKLKQLTVLTLAESNKVLPYDTLMVELD 120

Query:   121 VTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTT 180
             V+NVRELEDFLINECMY GIVRGKLDQL+RCFEV FAAGRDLRPGQLG+M+ TLSNWL T
Sbjct:   121 VSNVRELEDFLINECMYAGIVRGKLDQLKRCFEVPFAAGRDLRPGQLGNMLHTLSNWLNT 180

Query:   181 SDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSLSHK 223
             S+NLLISIQ+KIKWAD+M+EMDKKHRK+ EE VEE KKSLS K
Sbjct:   181 SENLLISIQDKIKWADNMSEMDKKHRKEAEEGVEEVKKSLSMK 223

GO:0005737 "cytoplasm" evidence=ISM

GO:0004708 "MAP kinase kinase activity" evidence=ISS

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=ISS

GO:0008180 "signalosome" evidence=TAS;IPI

GO:0009640 "photomorphogenesis" evidence=RCA;TAS

GO:0010387 "signalosome assembly" evidence=IMP

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

GO:0005829 "cytosol" evidence=IDA

GO:0016567 "protein ubiquitination" evidence=RCA

GO:0016571 "histone methylation" evidence=RCA

GO:0016579 "protein deubiquitination" evidence=RCA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA

DICTYBASE|DDB_G0271282 csn7 "proteasome component region PCI (PINT) domain-containing protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 418 (152.2 bits), Expect = 3.7e-39, P = 3.7e-39
 Identities = 83/207 (40%), Positives = 126/207 (60%)

Query:    11 IDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFA 70
             +  FV  A + KG A+ S+I +A + PS+F F E+L +PN+ + + TE   Y D+L +FA
Sbjct:    14 LKQFVVLAKSSKGRAIVSIIEKALNHPSVFVFGELLDMPNVQQLKETEFKNYYDLLLIFA 73

Query:    71 HGTWSDYKNNAGHLPQLVPDXXXXXXXXXXXXXAETNKVLPYDELMEELDVTNVRELEDF 130
             +G++ DYKN    LPQL P              + T+ V+PY  L E++++TNVRELED 
Sbjct:    74 YGSFIDYKNKKDSLPQLTPQMITKLKQLTIVFLSSTSNVIPYSVLQEQIEITNVRELEDL 133

Query:   131 LINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQE 190
             +I+  +Y  I++GKLDQ  +  E+ F+ GRD++P QL SMI  L+NW +TS  LL  I  
Sbjct:   134 IIDS-IYQNIIKGKLDQKNKHLEIDFSIGRDVQPEQLDSMINCLNNWSSTSQKLLDDISG 192

Query:   191 KIKWADSMNEMDKKHRKDLEEKVEEAK 217
              I  +D ++   +K +++ E K E AK
Sbjct:   193 LITHSDKVHLQYRKEKEEFESKFEIAK 219

GO:0008180 "signalosome" evidence=IEA;ISS;IPI

GO:0005515 "protein binding" evidence=IPI

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

UNIPROTKB|Q2KI56 COPS7B "COP9 signalosome complex subunit 7b" [Bos taurus (taxid:9913)]

 Score = 347 (127.2 bits), Expect = 1.3e-31, P = 1.3e-31
 Identities = 71/218 (32%), Positives = 122/218 (55%)

Query:     4 EQR-QAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKY 62
             EQ+  + L++ F+  A    G+AL ++I +    P ++ F E+L + N+ E     N+ Y
Sbjct:     4 EQKPSSNLLEQFILLAKGTSGSALTALISQVLEAPGVYVFGELLELANVQELAEGANAAY 63

Query:    63 LDMLRLFAHGTWSDYKNNAGHLPQLVPDXXXXXXXXXXXXXAETNKVLPYDELMEELDVT 122
             L +L LFA+GT+ DY  N   LP+L                A   K +PY  L+++L++ 
Sbjct:    64 LQLLNLFAYGTYPDYIANKESLPELSTAQQNKLKHLTIVSLASRMKCIPYSVLLKDLEMR 123

Query:   123 NVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSD 182
             N+RELED +I E +YT I++GKLDQ  +  EV F  GRD+R   + ++++TL  W    +
Sbjct:   124 NLRELEDLII-EAVYTDIIQGKLDQRNQLLEVDFCIGRDIRKKDINNIVKTLHEWCDGCE 182

Query:   183 NLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSL 220
              +L+ I++++  A+   E   + ++ +E +V   KK+L
Sbjct:   183 AVLLGIEQQVLRANQYKENHSRTQQQVEAEVTNIKKTL 220

GO:0005737 "cytoplasm" evidence=IEA

GO:0010388 "cullin deneddylation" evidence=IEA

GO:0008180 "signalosome" evidence=IEA

UNIPROTKB|E2R501 COPS7B "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 347 (127.2 bits), Expect = 1.3e-31, P = 1.3e-31
 Identities = 71/218 (32%), Positives = 122/218 (55%)

Query:     4 EQR-QAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKY 62
             EQ+  + L++ F+  A    G+AL ++I +    P ++ F E+L + N+ E     N+ Y
Sbjct:     4 EQKPSSNLLEQFILLAKGTSGSALTALISQVLEAPGVYVFGELLELANVQELAEGANAAY 63

Query:    63 LDMLRLFAHGTWSDYKNNAGHLPQLVPDXXXXXXXXXXXXXAETNKVLPYDELMEELDVT 122
             L +L LFA+GT+ DY  N   LP+L                A   K +PY  L+++L++ 
Sbjct:    64 LQLLNLFAYGTYPDYIANKESLPELSTAQQNKLKHLTIVSLASRMKCIPYSVLLKDLEMR 123

Query:   123 NVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSD 182
             N+RELED +I E +YT I++GKLDQ  +  EV F  GRD+R   + ++++TL  W    +
Sbjct:   124 NLRELEDLII-EAVYTDIIQGKLDQRNQLLEVDFCIGRDIRKKDINNIVKTLHEWCDGCE 182

Query:   183 NLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSL 220
              +L+ I++++  A+   E   + ++ +E +V   KK+L
Sbjct:   183 AVLLGIEQQVLRANQYKENHSRTQQQVEAEVTNIKKTL 220

GO:0010388 "cullin deneddylation" evidence=IEA

GO:0008180 "signalosome" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|Q9H9Q2 COPS7B "COP9 signalosome complex subunit 7b" [Homo sapiens (taxid:9606)]

 Score = 347 (127.2 bits), Expect = 1.3e-31, P = 1.3e-31
 Identities = 71/218 (32%), Positives = 122/218 (55%)

Query:     4 EQR-QAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKY 62
             EQ+  + L++ F+  A    G+AL ++I +    P ++ F E+L + N+ E     N+ Y
Sbjct:     4 EQKPSSNLLEQFILLAKGTSGSALTALISQVLEAPGVYVFGELLELANVQELAEGANAAY 63

Query:    63 LDMLRLFAHGTWSDYKNNAGHLPQLVPDXXXXXXXXXXXXXAETNKVLPYDELMEELDVT 122
             L +L LFA+GT+ DY  N   LP+L                A   K +PY  L+++L++ 
Sbjct:    64 LQLLNLFAYGTYPDYIANKESLPELSTAQQNKLKHLTIVSLASRMKCIPYSVLLKDLEMR 123

Query:   123 NVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSD 182
             N+RELED +I E +YT I++GKLDQ  +  EV F  GRD+R   + ++++TL  W    +
Sbjct:   124 NLRELEDLII-EAVYTDIIQGKLDQRNQLLEVDFCIGRDIRKKDINNIVKTLHEWCDGCE 182

Query:   183 NLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSL 220
              +L+ I++++  A+   E   + ++ +E +V   KK+L
Sbjct:   183 AVLLGIEQQVLRANQYKENHNRTQQQVEAEVTNIKKTL 220

GO:0008180 "signalosome" evidence=IDA

GO:0010388 "cullin deneddylation" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

MGI|MGI:1349388 Cops7b "COP9 (constitutive photomorphogenic) homolog, subunit 7b (Arabidopsis thaliana)" [Mus musculus (taxid:10090)]

 Score = 346 (126.9 bits), Expect = 1.6e-31, P = 1.6e-31
 Identities = 71/218 (32%), Positives = 122/218 (55%)

Query:     4 EQR-QAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKY 62
             EQ+  + L++ F+  A    G+AL ++I +    P ++ F E+L + N+ E     N+ Y
Sbjct:     4 EQKPSSNLLEQFILLAKGTSGSALTTLISQVLEAPGVYVFGELLELANVQELAEGANAAY 63

Query:    63 LDMLRLFAHGTWSDYKNNAGHLPQLVPDXXXXXXXXXXXXXAETNKVLPYDELMEELDVT 122
             L +L LFA+GT+ DY  N   LP+L                A   K +PY  L+++L++ 
Sbjct:    64 LQLLNLFAYGTYPDYIANKESLPELSVAQQNKLKHLTIVSLASRMKCIPYSVLLKDLEMR 123

Query:   123 NVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSD 182
             N+RELED +I E +YT I++GKLDQ  +  EV F  GRD+R   + ++++TL  W    +
Sbjct:   124 NLRELEDLII-EAVYTDIIQGKLDQRNQLLEVDFCIGRDIRKKDINNIVKTLHEWCDGCE 182

Query:   183 NLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSL 220
              +L+ I++++  A+   E   + ++ +E +V   KK+L
Sbjct:   183 AVLLGIEQQVLRANQYKENHHRTQQQVEAEVSNIKKTL 220

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0008180 "signalosome" evidence=ISO

GO:0010388 "cullin deneddylation" evidence=ISO

RGD|1306918 Cops7b "COP9 signalosome subunit 7B" [Rattus norvegicus (taxid:10116)]

 Score = 343 (125.8 bits), Expect = 3.3e-31, P = 3.3e-31
 Identities = 70/218 (32%), Positives = 122/218 (55%)

Query:     4 EQR-QAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKY 62
             EQ+  + L++ F+  A    G+AL ++I +    P ++ F E+L + N+ E     N+ Y
Sbjct:    62 EQKPSSNLLEQFILLAKGTSGSALTTLISQVLEAPGVYVFGELLELANVQELAEGANAAY 121

Query:    63 LDMLRLFAHGTWSDYKNNAGHLPQLVPDXXXXXXXXXXXXXAETNKVLPYDELMEELDVT 122
             L +L LFA+GT+ DY  N   LP+L                A   K +PY  L+++L++ 
Sbjct:   122 LQLLNLFAYGTYPDYIANKESLPELSAAQQNKLKHLTIVSLASRMKCIPYSVLLKDLEMR 181

Query:   123 NVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSD 182
             N+RELED +I E +YT I++GKLDQ  +  EV F  GRD++   + ++++TL  W    +
Sbjct:   182 NLRELEDLII-EAVYTDIIQGKLDQRNQLLEVDFCIGRDIQKKDINNIVKTLHEWCDGCE 240

Query:   183 NLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSL 220
              +L+ I++++  A+   E   + ++ +E +V   KK+L
Sbjct:   241 AVLLGIEQQVLRANQYKENHHRTQQQVEAEVSNIKKTL 278

GO:0005737 "cytoplasm" evidence=ISO

GO:0008180 "signalosome" evidence=ISO

GO:0010388 "cullin deneddylation" evidence=ISO

UNIPROTKB|E1C3R1 COPS7B "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 336 (123.3 bits), Expect = 1.8e-30, P = 1.8e-30
 Identities = 70/221 (31%), Positives = 122/221 (55%)

Query:     4 EQRQA-ELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKY 62
             EQ+ +  L++ F+  A    G+AL ++I +    P ++ F E+L + N+ E     N+ Y
Sbjct:     4 EQKPSCNLLEQFILLAKGTSGSALTALINQVLEAPGVYVFGELLELTNVQELAEGSNAAY 63

Query:    63 LDMLRLFAHGTWSDY---KNNAGHLPQLVPDXXXXXXXXXXXXXAETNKVLPYDELMEEL 119
               +L LFA+GT+ DY     N  +LP+L                A   K +PY  L+++L
Sbjct:    64 FQLLNLFAYGTYPDYVALTANKDNLPELTATQKNKLKHLTIVSLASRMKCIPYSVLLKDL 123

Query:   120 DVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLT 179
             D+ N+RELED +I E +YT I++GKLDQ  +  EV F  GRD++   + ++++TL  W  
Sbjct:   124 DMRNLRELEDLII-EAVYTDIIQGKLDQRNQMLEVDFCIGRDIQKKDISNIVKTLQEWCD 182

Query:   180 TSDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSL 220
               + +L+ I++++  A+   E   + ++ +E +V   KK+L
Sbjct:   183 GCEAVLLGIEQQVLRANQYKENHHRTQQQVEMEVTNIKKTL 223

GO:0005737 "cytoplasm" evidence=IEA

GO:0008180 "signalosome" evidence=IEA

GO:0010388 "cullin deneddylation" evidence=IEA

FB|FBgn0028836 CSN7 "COP9 complex homolog subunit 7" [Drosophila melanogaster (taxid:7227)]

 Score = 322 (118.4 bits), Expect = 5.6e-29, P = 5.6e-29
 Identities = 70/210 (33%), Positives = 116/210 (55%)

Query:    11 IDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFA 70
             ++ F   A +  GAAL  VI +A   P++F F E+LA P++ + +   +SK+ + L LFA
Sbjct:    20 LEKFCVLAKSSTGAALLDVIRQALEAPNVFVFGELLAEPSVLQLKDGPDSKHFETLNLFA 79

Query:    71 HGTWSDYKNNAGHLPQLVPDXXXXXXXXXXXXXAETNKVLPYDELMEELDVTNVRELEDF 130
             +GT+ +Y+       +L P              A   K +PY  L+ EL++ NVR LED 
Sbjct:    80 YGTYKEYRAQPEKFIELTPAMQKKLQHLTIVSLAIKAKSIPYALLLSELEIDNVRHLEDI 139

Query:   131 LINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQE 190
             +I E +Y  I+ GKL Q  R  EV +A GRD+ PG  G +++TL  W+ + D++   I+ 
Sbjct:   140 II-EAIYADIIHGKLFQNTRILEVDYAQGRDIPPGYTGQIVETLQAWVNSCDSVSNCIEM 198

Query:   191 KIKWADSMNEMDKKHRKDLEEKVEEAKKSL 220
             +IK+A++       +++ +E+ +   KK L
Sbjct:   199 QIKYANAEKSKRLINKERVEQDLINLKKVL 228

GO:0005515 "protein binding" evidence=IPI

GO:0008180 "signalosome" evidence=ISS;IDA;IPI

GO:0050821 "protein stabilization" evidence=IMP

GO:0007095 "mitotic G2 DNA damage checkpoint" evidence=IGI

GO:0046331 "lateral inhibition" evidence=IMP

UNIPROTKB|F1NGK0 COPS7A "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 317 (116.6 bits), Expect = 1.9e-28, P = 1.9e-28
 Identities = 72/236 (30%), Positives = 122/236 (51%)

Query:    12 DHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAH 71
             + F+  A   +GAAL S+I +    P ++ F E+L +P + E   +E S    +L +FA 
Sbjct:    13 EQFLLLAKAARGAALASLIHQVLEAPGIYVFGELLDMPAVRELADSEFSPVFHLLTIFAC 72

Query:    72 GTWSDYKNNAGHLPQLVPDXXXXXXXXXXXXXAETNKVLPYDELMEELDVTNVRELEDFL 131
             GT++DY   A +LP L                A   K +PY  L+E+L + NVR+LED +
Sbjct:    73 GTYADYLAEAANLPPLTEAQKNKLRHLSVVTLAAKIKCIPYSVLLEQLQLKNVRQLEDLV 132

Query:   132 INECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQEK 191
             I E +Y  ++RG LDQ  +  EV ++ GRD+R  +L ++ +TL  W    + +L  I+E+
Sbjct:   133 I-EAVYADVLRGSLDQRNQRLEVDYSIGRDIRREELSTITRTLQEWCQGCEVVLSGIEEQ 191

Query:   192 IKWADSMNEMDKKHRKDLEEKVEEAKKSLSHKKLHTVSRPTLTAEGTRRSTLNLVE 247
             +  A+   E     ++ +E +V   KK++   K+ T +    T++   +    L E
Sbjct:   192 VSRANQHKEQQLALKQQIESEVANLKKTI---KVTTAAAAAATSQDPEQHLTELRE 244

GO:0005737 "cytoplasm" evidence=IEA

GO:0008180 "signalosome" evidence=IEA

GO:0010388 "cullin deneddylation" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q8BV13	CSN7B_MOUSE	No assigned EC number	0.3568	0.8582	0.8030	yes	no
Q94JU3	CSN7_ARATH	No assigned EC number	0.7847	0.9028	0.8576	no	no
Q9H9Q2	CSN7B_HUMAN	No assigned EC number	0.3568	0.8582	0.8030	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	fgenesh4_pm.C_LG_II000624	hypothetical protein (225 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	grail3.0012044601	SubName- Full=Putative uncharacterized protein; (398 aa)					•		•		0.543
	eugene3.01400002	SubName- Full=Putative uncharacterized protein; (306 aa)					•		•		0.464

---

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	247
pfam01399	100	pfam01399, PCI, PCI domain	7e-13
smart00753	88	smart00753, PAM, PCI/PINT associated module	5e-12
smart00088	88	smart00088, PINT, motif in proteasome subunits, In	5e-12

>gnl|CDD|216479 pfam01399, PCI, PCI domain

 Score = 62.6 bits (153), Expect = 7e-13
 Identities = 27/102 (26%), Positives = 47/102 (46%), Gaps = 11/102 (10%)

Query: 62  YLDMLRLFAHGTWSDYKNNAG---------HLPQLVPDQVLKLKQLTVLTLAETNKVLPY 112
           Y D+LR F  G  SD++              L +L+ D   K+++L +  LA+    +  
Sbjct: 1   YRDLLRAFYSGDLSDFEEILADNEDELLDDGLAELLEDLRRKIRELNLRRLAKPYSSISL 60

Query: 113 DELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEV 154
            +L + L ++ V E+E  L    +  G +RGK+DQ+      
Sbjct: 61  SDLAKLLGLS-VDEVEKILSK-LIRDGRIRGKIDQVNGIVVF 100

This domain has also been called the PINT motif (Proteasome, Int-6, Nip-1 and TRIP-15). Length = 100

>gnl|CDD|214803 smart00753, PAM, PCI/PINT associated module

 Score = 59.9 bits (146), Expect = 5e-12
 Identities = 21/92 (22%), Positives = 38/92 (41%), Gaps = 4/92 (4%)

Query: 86  QLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKL 145
           QLV     K++   +L L+E    +   +L + L ++   E+E  +    +  G +  K+
Sbjct: 1   QLVERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLSVP-EVEKLVSK-AIRDGEISAKI 58

Query: 146 DQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNW 177
           DQ+    E +    R  R   L    +TL   
Sbjct: 59  DQVNGIVEFEEVDPR--RSEPLAQFAETLKKL 88

Length = 88

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

 Score = 59.9 bits (146), Expect = 5e-12
 Identities = 21/92 (22%), Positives = 38/92 (41%), Gaps = 4/92 (4%)

Query: 86  QLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKL 145
           QLV     K++   +L L+E    +   +L + L ++   E+E  +    +  G +  K+
Sbjct: 1   QLVERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLSVP-EVEKLVSK-AIRDGEISAKI 58

Query: 146 DQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNW 177
           DQ+    E +    R  R   L    +TL   
Sbjct: 59  DQVNGIVEFEEVDPR--RSEPLAQFAETLKKL 88

Also called the PCI (Proteasome, COP9, Initiation factor 3) domain. Unknown function. Length = 88

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	247
KOG3250	258	consensus COP9 signalosome, subunit CSN7 [Posttran	100.0
KOG2753	378	consensus Uncharacterized conserved protein, conta	99.97
KOG2908	380	consensus 26S proteasome regulatory complex, subun	99.97
PF01399	105	PCI: PCI domain; InterPro: IPR000717 A homology do	99.52
smart00753	88	PAM PCI/PINT associated module.	99.52
smart00088	88	PINT motif in proteasome subunits, Int-6, Nip-1 an	99.52
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	98.93
KOG2581	493	consensus 26S proteasome regulatory complex, subun	97.74
KOG1498	439	consensus 26S proteasome regulatory complex, subun	96.46
KOG2758	432	consensus Translation initiation factor 3, subunit	96.36
KOG0686	466	consensus COP9 signalosome, subunit CSN1 [Posttran	96.31
KOG1497	399	consensus COP9 signalosome, subunit CSN4 [Posttran	95.9
COG5071	439	RPN5 26S proteasome regulatory complex component [	95.61
KOG2582	422	consensus COP9 signalosome, subunit CSN3 [Posttran	93.74
KOG1463	411	consensus 26S proteasome regulatory complex, subun	93.31
KOG2688	394	consensus Transcription-associated recombination p	93.27
COG5159	421	RPN6 26S proteasome regulatory complex component [	91.02
KOG2072	988	consensus Translation initiation factor 3, subunit	90.48
COG5600	413	Transcription-associated recombination protein [DN	90.18
PF10075	143	PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro	90.12
PF09756	188	DDRGK: DDRGK domain; InterPro: IPR019153 This is a	90.11
KOG0687	393	consensus 26S proteasome regulatory complex, subun	89.04
COG3355	126	Predicted transcriptional regulator [Transcription	86.1
KOG3054	299	consensus Uncharacterized conserved protein [Funct	82.94
PF09012	69	FeoC: FeoC like transcriptional regulator; InterPr	82.89
PF02082	83	Rrf2: Transcriptional regulator; InterPro: IPR0009	81.85

>KOG3250 consensus COP9 signalosome, subunit CSN7 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=100.00  E-value=2.7e-62  Score=419.99  Aligned_cols=239  Identities=40%  Similarity=0.632  Sum_probs=233.9

Q ss_pred             CchhHHHHhHHHHHHHhccCccHHHHHHHHHHHhcCCCcccchhhhcCchhhhccCCCchHHHHHHHHHhcCChhhHhhh
Q 025819            1 MDIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKNN   80 (247)
Q Consensus         1 ~~~~~~~~~~l~~f~~lak~~~~~~a~~lI~~AL~~p~vf~F~eLL~lp~v~~L~~~~~~~~~~LL~iFa~Gt~~dy~~~   80 (247)
                      |++|+++++.++||+++||+.+|+|...+|.+||++|+||+|||||.+|+|.+|..+.++.+++||++||||||.||.++
T Consensus         1 m~~ek~~~~~~eqfvllak~~kg~al~~lIsqale~P~vf~F~ELl~l~nv~qlae~~dsa~lrlL~lFa~Gt~~Dy~ae   80 (258)
T KOG3250|consen    1 MDIEKKQAEIIEQFVLLAKTCKGEALEELISQALEAPGVFVFGELLILPNVVQLAEPIDSAYLRLLELFAYGTYRDYSAE   80 (258)
T ss_pred             CCcchhhHHHHHHHHHHHhccchhHHHHHHHHHhcCCCeeeHHHHHhhhhHHHHcccccHHHHHHHHHHhcCchhhhhhh
Confidence            99999999999999999999999999999999999999999999999999999999889999999999999999999999


Q ss_pred             hCCCCCcchHHHHHHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCC
Q 025819           81 AGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGR  160 (247)
Q Consensus        81 ~~~l~~L~~~~~~KLr~LtllsLa~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~~~~~R  160 (247)
                      +-.+|.|+++++.||++||+++||+..++|||+.+.+.|.+.|+++|||+|| +|||+++++|||||.+|+++|.|+++|
T Consensus        81 a~rlp~Ls~~q~~kLk~ltV~slas~~k~lpy~~Ll~~l~~~nvrelEd~ii-eamya~IlrGkldqr~q~leV~faigR  159 (258)
T KOG3250|consen   81 ALRLPKLSLAQLNKLKHLTVVSLASFEKCLPYLVLLRLLPSRNVRELEDLII-EAMYADILRGKLDQRNQTLEVDFAIGR  159 (258)
T ss_pred             hhcCCCCCHHHHHhhhcceehhhhhhchhhhHHHHHhhccCCchhHHHHHHH-HHHHHHHHHhhHHhhcceEeechhhcc
Confidence            9999999999999999999999999999999999999999999999999999 999999999999999999999999999


Q ss_pred             CCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhc---------CccccccccCC
Q 025819          161 DLRPGQLGSMIQTLSNWLTTSDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSL---------SHKKLHTVSRP  231 (247)
Q Consensus       161 dl~~~q~~~l~~~L~~W~~~~~~vl~~Ie~~i~~a~~~~~~~~~~~~~~~~~~~~~k~~~---------~~~~~~~~~~~  231 (247)
                      |+++.++++|..+|++||+.|+++|..|++++.|||++++...+++++.|.+|.++||++         +.|.|-++| |
T Consensus       160 dlr~k~i~nm~~TL~~w~~~cenvL~~ie~qv~~anq~~e~~~r~~qq~e~ev~~~kKtlk~~ad~d~~~~eq~l~ep-p  238 (258)
T KOG3250|consen  160 DLRSKDIDNMKYTLDEWCEGCENVLFGIEAQVPRANQSKERASRMSQQDEIEVMNFKKTLKPTADTDFQLNEQMLGEP-P  238 (258)
T ss_pred             cccHhHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhHHHHHHhhhhhhhhhHHhhhcccCCCccccccchHHHhCCC-C
Confidence            999999999999999999999999999999999999999999999999999999999999         678888998 8


Q ss_pred             Cccccccccc
Q 025819          232 TLTAEGTRRS  241 (247)
Q Consensus       232 ~~~~~~~~~~  241 (247)
                      .|++.+++|.
T Consensus       239 ~~~qrqp~kk  248 (258)
T KOG3250|consen  239 VMDQRQPGKK  248 (258)
T ss_pred             CccccCCCcC
Confidence            8999988764

>KOG2753 consensus Uncharacterized conserved protein, contains PCI domain [General function prediction only]

Probab=99.97  E-value=3.7e-32  Score=246.52  Aligned_cols=150  Identities=28%  Similarity=0.539  Sum_probs=139.7

Q ss_pred             HHHHHHHHHHhcCCCcccchhhhcCchhhhccCCCchHHHHHHHHHhcCChhhHhh----hhCCCCC---cchHHHHHHH
Q 025819           24 AALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKN----NAGHLPQ---LVPDQVLKLK   96 (247)
Q Consensus        24 ~~a~~lI~~AL~~p~vf~F~eLL~lp~v~~L~~~~~~~~~~LL~iFa~Gt~~dy~~----~~~~l~~---L~~~~~~KLr   96 (247)
                      .+|.+||+.|+.+|++|.|++|+.+|+|+.|+++   .+|+||.||..|.+.+|.+    |++++..   ..+++.+|||
T Consensus       205 edA~rcV~~av~dP~~F~fD~Ll~L~pV~qLE~d---~i~qLL~IF~s~~L~aYveF~~~N~~Fvqs~gl~~E~~~~KMR  281 (378)
T KOG2753|consen  205 EDAMRCVVEAVKDPKIFLFDHLLTLPPVKQLEGD---LIHQLLKIFVSGKLDAYVEFVAANSGFVQSQGLVHEQNMAKMR  281 (378)
T ss_pred             HHHHHHHHHHHcCCceeccchhccCchHHHhccc---hHHHHHHHHHhcchHHHHHHHHhChHHHHHhcccHHHHHHHHH
Confidence            5699999999999999999999999999999886   4999999999999999986    4444443   3367799999


Q ss_pred             HHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcHHHHHHHHHH
Q 025819           97 QLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSN  176 (247)
Q Consensus        97 ~LtllsLa~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~~~~~Rdl~~~q~~~l~~~L~~  176 (247)
                      +||+++||+.+.+|||+.|+++|+|. .+|||.||| +||.+|+|.|||||.+++|.|+++.+|.|+..||..|+++|..
T Consensus       282 LLTlm~LA~es~eisy~~l~k~LqI~-edeVE~fVI-daI~aklV~~kidq~~~~viVs~~~hR~FG~~qW~~L~~kL~a  359 (378)
T KOG2753|consen  282 LLTLMSLAEESNEISYDTLAKELQIN-EDEVELFVI-DAIRAKLVEGKIDQMNRTVIVSSSTHRTFGKQQWQQLRDKLAA  359 (378)
T ss_pred             HHHHHHHhccCCCCCHHHHHHHhccC-HHHHHHHHH-HHHHHHHHHhhHHhhcceEEeehhhhhhcccHHHHHHHHHHHH
Confidence            99999999999999999999999996 999999999 9999999999999999999999999999999999999999999


Q ss_pred             HH
Q 025819          177 WL  178 (247)
Q Consensus       177 W~  178 (247)
                      |.
T Consensus       360 w~  361 (378)
T KOG2753|consen  360 WG  361 (378)
T ss_pred             HH
Confidence            95

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

Probab=99.97  E-value=6.2e-31  Score=239.54  Aligned_cols=180  Identities=18%  Similarity=0.357  Sum_probs=162.6

Q ss_pred             HHHHHhc------cCccHHHHHHHHHHHhcCCCcccchhhhcCchhhhccCCCchHHHHHHHHHhcCChhhHhhh---hC
Q 025819           12 DHFVKQA------SNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKNN---AG   82 (247)
Q Consensus        12 ~~f~~la------k~~~~~~a~~lI~~AL~~p~vf~F~eLL~lp~v~~L~~~~~~~~~~LL~iFa~Gt~~dy~~~---~~   82 (247)
                      -.|+...      .+.+...|.+|..+||.+.++|||||||.+|+...|.||++.|++++|.+|+.||+..|...   .+
T Consensus       181 L~YL~~~d~~~l~~se~~~lA~~L~~aALLGe~iyNfGELL~HPilesL~gT~~eWL~dll~Afn~Gdl~~f~~l~~~~~  260 (380)
T KOG2908|consen  181 LLYLGCSDIDDLSESEKQDLAFDLSLAALLGENIYNFGELLAHPILESLKGTNREWLKDLLIAFNSGDLKRFESLKGVWG  260 (380)
T ss_pred             HHHhccccccccCHHHHHHHHHHHHHHHHhccccccHHHHHhhHHHHHhcCCcHHHHHHHHHHhccCCHHHHHHHHHHhc
Confidence            4566655      44566889999999999999999999999999999999999999999999999999999974   34


Q ss_pred             CCCCcchH---HHHHHHHHHhhhccc----CCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEE
Q 025819           83 HLPQLVPD---QVLKLKQLTVLTLAE----TNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQ  155 (247)
Q Consensus        83 ~l~~L~~~---~~~KLr~LtllsLa~----~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~  155 (247)
                      ..|.|...   ..+|+++++++-++.    ..|.+||++|+++++|| .++||.+|+ +|++.|||+|.|||++++|+++
T Consensus       261 ~~p~L~~~e~~L~qKI~LmaLiEi~F~rpa~~R~lsf~~Ia~~tkip-~~eVE~LVM-KAlslgLikG~Idqv~~~v~~s  338 (380)
T KOG2908|consen  261 KQPDLASNEDFLLQKIRLLALIEITFSRPANERTLSFKEIAEATKIP-NKEVELLVM-KALSLGLIKGSIDQVEGVVYMS  338 (380)
T ss_pred             cCchHHHHHHHHHHHHHHHHHHHHHhcCcchhccccHHHHHHHhCCC-HHHHHHHHH-HHHhccceeeeecccccEEEEe
Confidence            56777633   478999999998885    57999999999999999 899999999 9999999999999999999999


Q ss_pred             eecCCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025819          156 FAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQEKIK  193 (247)
Q Consensus       156 ~~~~Rdl~~~q~~~l~~~L~~W~~~~~~vl~~Ie~~i~  193 (247)
                      |++||.++.+|+-.|.++++.|++.++++...++++.+
T Consensus       339 wvqPRvl~~~qI~~Mk~rl~~W~~~v~~me~~ve~~~~  376 (380)
T KOG2908|consen  339 WVQPRVLDRSQIVKMKDRLDEWNKDVKSMEGLVEHRGH  376 (380)
T ss_pred             cccccccCHHHHHhHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            99999999999999999999999999999999887654

>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=99.52  E-value=3.1e-14  Score=108.57  Aligned_cols=95  Identities=20%  Similarity=0.399  Sum_probs=81.5

Q ss_pred             hHHHHHHHHHhcCChhhHhhhh----------CCCCCcchHHHHHHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHH
Q 025819           60 SKYLDMLRLFAHGTWSDYKNNA----------GHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELED  129 (247)
Q Consensus        60 ~~~~~LL~iFa~Gt~~dy~~~~----------~~l~~L~~~~~~KLr~LtllsLa~~~k~Isy~~I~~~L~I~~~~evE~  129 (247)
                      +|+.+|+++|..|++..|...-          +.+..+.+....+++..++.+++..++.|+++.|++.|+++ ..+||.
T Consensus         1 ~~~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~~~~l~~~i~~~~l~~l~~~y~~i~~~~ia~~l~~~-~~~vE~   79 (105)
T PF01399_consen    1 PPYSELLRAFRSGDLQEFEEFLEKHSESLFKDPFLAEYVEQLKEKIRRRNLRQLSKPYSSISISEIAKALQLS-EEEVES   79 (105)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHTCHHHHHCTTHHHHHHHHHHHHHHHHHHHHHHC-SEEEHHHHHHHHTCC-HHHHHH
T ss_pred             CHHHHHHHHHHhCCHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHhccc-hHHHHH
Confidence            4789999999999999997621          12223456778999999999999999999999999999998 899999


Q ss_pred             HHHHHhHhcCccEEEecCCCCEEEEEe
Q 025819          130 FLINECMYTGIVRGKLDQLRRCFEVQF  156 (247)
Q Consensus       130 llI~~aI~~glI~GkIDQ~~~~v~V~~  156 (247)
                      +++ ++|..|.|.|+|||.+++|.++|
T Consensus        80 ~l~-~~I~~~~i~~~ID~~~~~v~~~k  105 (105)
T PF01399_consen   80 ILI-DLISNGLIKAKIDQVNGVVVFSK  105 (105)
T ss_dssp             HHH-HHHHTTSSEEEEETTTTEEEE-S
T ss_pred             HHH-HHHHCCCEEEEEECCCCEEEecC
Confidence            999 99999999999999999999875

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.

>smart00753 PAM PCI/PINT associated module

Probab=99.52  E-value=3e-14  Score=106.91  Aligned_cols=87  Identities=23%  Similarity=0.346  Sum_probs=81.3

Q ss_pred             cchHHHHHHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCc
Q 025819           87 LVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQ  166 (247)
Q Consensus        87 L~~~~~~KLr~LtllsLa~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~~~~~Rdl~~~q  166 (247)
                      +.+....|+|..++..++..+++|+|+.|++.++++ .+++|.+|+ ++|..|.|.|+|||.++++.+.+..+|.  .++
T Consensus         2 ~~~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~-~~~vE~~i~-~~i~~~~l~~~ID~~~~~v~~~~~~~r~--~~~   77 (88)
T smart00753        2 LVERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLS-VPEVEKLVS-KAIRDGEISAKIDQVNGIVEFEEVDPRR--SEP   77 (88)
T ss_pred             hHHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcC-HHHHHHHHH-HHHHCCCeEEEEcCcCCEEEECCCchhh--hhH
Confidence            345678999999999999999999999999999998 789999999 9999999999999999999999999997  788


Q ss_pred             HHHHHHHHHHH
Q 025819          167 LGSMIQTLSNW  177 (247)
Q Consensus       167 ~~~l~~~L~~W  177 (247)
                      |..+.++|..|
T Consensus        78 ~~~~~~~l~~~   88 (88)
T smart00753       78 LAQFAETLKKL   88 (88)
T ss_pred             HHHHHHHhhcC
Confidence            99999999887

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

Probab=99.52  E-value=3e-14  Score=106.91  Aligned_cols=87  Identities=23%  Similarity=0.346  Sum_probs=81.3

Q ss_pred             cchHHHHHHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCc
Q 025819           87 LVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQ  166 (247)
Q Consensus        87 L~~~~~~KLr~LtllsLa~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~~~~~Rdl~~~q  166 (247)
                      +.+....|+|..++..++..+++|+|+.|++.++++ .+++|.+|+ ++|..|.|.|+|||.++++.+.+..+|.  .++
T Consensus         2 ~~~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~-~~~vE~~i~-~~i~~~~l~~~ID~~~~~v~~~~~~~r~--~~~   77 (88)
T smart00088        2 LVERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLS-VPEVEKLVS-KAIRDGEISAKIDQVNGIVEFEEVDPRR--SEP   77 (88)
T ss_pred             hHHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcC-HHHHHHHHH-HHHHCCCeEEEEcCcCCEEEECCCchhh--hhH
Confidence            345678999999999999999999999999999998 789999999 9999999999999999999999999997  788


Q ss_pred             HHHHHHHHHHH
Q 025819          167 LGSMIQTLSNW  177 (247)
Q Consensus       167 ~~~l~~~L~~W  177 (247)
                      |..+.++|..|
T Consensus        78 ~~~~~~~l~~~   88 (88)
T smart00088       78 LAQFAETLKKL   88 (88)
T ss_pred             HHHHHHHhhcC
Confidence            99999999887

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

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

Probab=98.93  E-value=2.3e-09  Score=97.18  Aligned_cols=126  Identities=13%  Similarity=0.346  Sum_probs=106.0

Q ss_pred             chHHHHHHHHHhcCChhhHhh----hhC------CCCCcchHHHHHHHHHHhhhcccCCcccChHHHHHHcCCCChHHHH
Q 025819           59 NSKYLDMLRLFAHGTWSDYKN----NAG------HLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELE  128 (247)
Q Consensus        59 ~~~~~~LL~iFa~Gt~~dy~~----~~~------~l~~L~~~~~~KLr~LtllsLa~~~k~Isy~~I~~~L~I~~~~evE  128 (247)
                      --.+.+|+..+...++..|+.    |.+      ++-+..++.++++|...++.|..++..|....|+++|+|+ ..+||
T Consensus       304 IlAMTnlv~aYQ~NdI~eFE~Il~~~~~~IM~DpFIReh~EdLl~niRTQVLlkLIkPYt~i~Ipfis~~Lnv~-~~dV~  382 (440)
T KOG1464|consen  304 ILAMTNLVAAYQNNDIIEFERILKSNRSNIMDDPFIREHIEDLLRNIRTQVLLKLIKPYTNIGIPFISKELNVP-EADVE  382 (440)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHhccccccCchhhHhhcCCC-HHHHH
Confidence            346889999999999999986    332      2334567889999999999999999999999999999998 99999


Q ss_pred             HHHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025819          129 DFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQEKI  192 (247)
Q Consensus       129 ~llI~~aI~~glI~GkIDQ~~~~v~V~~~~~Rdl~~~q~~~l~~~L~~W~~~~~~vl~~Ie~~i  192 (247)
                      .+++ .||-.+-|+|+|||+++.+........      =..+.+.|+.|.+.++++.+.|-.++
T Consensus       383 ~LLV-~~ILD~~i~g~Ide~n~~l~~~~~~~s------~~k~~~al~kW~~ql~Sl~~~i~sr~  439 (440)
T KOG1464|consen  383 SLLV-SCILDDTIDGRIDEVNQYLELDKSKNS------GSKLYKALDKWNNQLKSLQSNIVSRV  439 (440)
T ss_pred             HHHH-HHHhccccccchHHhhhHhccCccCCc------chHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            9999 999999999999999999987643221      12378999999999999888776553

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

Probab=97.74  E-value=0.00026  Score=67.32  Aligned_cols=93  Identities=10%  Similarity=0.305  Sum_probs=69.9

Q ss_pred             hHHHHHHHHHhcCChhhHhhhhCCCCC-c----chHHHHHHHHHHhhh----cccCCcccChHHHHHHcCCCChHHHHHH
Q 025819           60 SKYLDMLRLFAHGTWSDYKNNAGHLPQ-L----VPDQVLKLKQLTVLT----LAETNKVLPYDELMEELDVTNVRELEDF  130 (247)
Q Consensus        60 ~~~~~LL~iFa~Gt~~dy~~~~~~l~~-L----~~~~~~KLr~Ltlls----La~~~k~Isy~~I~~~L~I~~~~evE~l  130 (247)
                      .+||.|-+....||++-|...-..+.+ +    +=..+..||+=.|=+    +.-.++.|||.+|+..|+++|..++|.+
T Consensus       319 ~~Yf~Lt~AVr~gdlkkF~~~leq~k~~f~~D~ty~LivRLR~NVIkTgIR~ISlsYSRISl~DIA~kL~l~Seed~Eyi  398 (493)
T KOG2581|consen  319 RPYFKLTQAVRLGDLKKFNETLEQFKDKFQADGTYTLIVRLRHNVIKTGIRKISLSYSRISLQDIAKKLGLNSEEDAEYI  398 (493)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhheeeeeeeccHHHHHHHhcCCCchhHHHH
Confidence            579999999999999999874332221 1    111234455532221    1125889999999999999999999999


Q ss_pred             HHHHhHhcCccEEEecCCCCEEE
Q 025819          131 LINECMYTGIVRGKLDQLRRCFE  153 (247)
Q Consensus       131 lI~~aI~~glI~GkIDQ~~~~v~  153 (247)
                      |- +||+.|+|+|+||..++.+.
T Consensus       399 Va-kAIRDGvIea~Id~~~g~m~  420 (493)
T KOG2581|consen  399 VA-KAIRDGVIEAKIDHEDGFMQ  420 (493)
T ss_pred             HH-HHHHhccceeeeccccCcee
Confidence            99 99999999999999999554

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

Probab=96.46  E-value=0.03  Score=53.31  Aligned_cols=128  Identities=21%  Similarity=0.310  Sum_probs=92.2

Q ss_pred             CchHHHHHHHHHhcCChhhHhhh---------hC-CCC--CcchHH--HHHHHH--HHhhhcccCCcccChHHHHHHcCC
Q 025819           58 ENSKYLDMLRLFAHGTWSDYKNN---------AG-HLP--QLVPDQ--VLKLKQ--LTVLTLAETNKVLPYDELMEELDV  121 (247)
Q Consensus        58 ~~~~~~~LL~iFa~Gt~~dy~~~---------~~-~l~--~L~~~~--~~KLr~--LtllsLa~~~k~Isy~~I~~~L~I  121 (247)
                      +.+.+-.+|.+|..|-+--|...         .+ ++.  ...+..  -.+.|.  .-+--.|.=+.+||+..+++-|+.
T Consensus       286 e~p~~k~lLklfv~~EL~rw~s~~~~yg~~l~~~~~~~~~~~gek~~~dL~~RIiEHNiRiiA~yYSrIt~~rl~eLLdl  365 (439)
T KOG1498|consen  286 ELPDYKELLKLFVTMELIRWVSLVESYGDELRTNDFFDGGEEGEKRWSDLKLRIIEHNIRIIAKYYSRITLKRLAELLDL  365 (439)
T ss_pred             cCccHHHHHHHHHhcceeeehhHhhhhHHHHhhcccccccchhhhHHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHhCC
Confidence            34567789999998876655421         11 111  111111  122222  333344556899999999999999


Q ss_pred             CChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 025819          122 TNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQEKIKWADS  197 (247)
Q Consensus       122 ~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~~~~~Rdl~~~q~~~l~~~L~~W~~~~~~vl~~Ie~~i~~a~~  197 (247)
                      | .++.|.++- +.+..|.+.+|||+..+.+.+...          ..+.+.|..|..++++++..++..-+-..+
T Consensus       366 ~-~ee~E~~LS-~lv~t~ti~aKidrpsgII~F~k~----------K~~~~~LneW~~nve~L~~ll~K~~HLI~K  429 (439)
T KOG1498|consen  366 P-VEEMEKFLS-DLVVTGTIYAKIDRPSGIINFQKV----------KDSNEILNEWASNVEKLLGLLEKVSHLIHK  429 (439)
T ss_pred             C-HHHHHHHHH-HHHhccceEEEecCCCceEEEEec----------ccHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence            8 999999999 899999999999999999988754          347889999999999999998865555443

>KOG2758 consensus Translation initiation factor 3, subunit e (eIF-3e) [Translation, ribosomal structure and biogenesis]

Probab=96.36  E-value=0.0065  Score=56.66  Aligned_cols=98  Identities=16%  Similarity=0.229  Sum_probs=76.9

Q ss_pred             hHHHHHHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcHH
Q 025819           89 PDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLG  168 (247)
Q Consensus        89 ~~~~~KLr~LtllsLa~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~~~~~Rdl~~~q~~  168 (247)
                      ++=+..-|++-.=+.|.-..+|+.+-+++.|+++ .++.|.|++ +.|+...+.+|||..-++|.+.-...-     --+
T Consensus       329 ~~F~E~ARl~ifEtfCRIHqcIti~mLA~kLnm~-~eeaErwiv-nlIr~~rl~AkidSklg~Vvmg~~~~s-----~~q  401 (432)
T KOG2758|consen  329 DEFLENARLLIFETFCRIHQCITIDMLADKLNMD-PEEAERWIV-NLIRTARLDAKIDSKLGHVVMGHPTVS-----PHQ  401 (432)
T ss_pred             HHHHHHHHHHHHHHHHHHHHheeHHHHHHHhcCC-HHHHHHHHH-HHHHHhhhhhhhccccCceeecCCCCC-----HHH
Confidence            3445677888888888889999999999999997 999999999 899999999999999999888643322     245


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 025819          169 SMIQTLSNWLTTSDNLLISIQEKIK  193 (247)
Q Consensus       169 ~l~~~L~~W~~~~~~vl~~Ie~~i~  193 (247)
                      .++++-..-.-+..++-..++..++
T Consensus       402 Q~ie~tksLS~rsq~la~~lek~~~  426 (432)
T KOG2758|consen  402 QLIEKTKSLSFRSQNLAQQLEKKIQ  426 (432)
T ss_pred             HHHHhccccchhHHHHHHHHHHHHH
Confidence            5666666666666666666665544

>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=96.31  E-value=0.031  Score=53.50  Aligned_cols=105  Identities=14%  Similarity=0.204  Sum_probs=80.2

Q ss_pred             HHHHHHHHHhcCChhhHhh----hhCCCC---Ccc---hHHHHHHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHH
Q 025819           61 KYLDMLRLFAHGTWSDYKN----NAGHLP---QLV---PDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDF  130 (247)
Q Consensus        61 ~~~~LL~iFa~Gt~~dy~~----~~~~l~---~L~---~~~~~KLr~LtllsLa~~~k~Isy~~I~~~L~I~~~~evE~l  130 (247)
                      .+.++|.-|..+-|..-..    .++.+-   -|.   .....++|.=.++.--.++..++++.++.+.+.+ +..+|.=
T Consensus       307 qlr~il~~fy~sky~~cl~~L~~~k~~llLD~yLaphVd~Ly~~IR~r~llqy~~py~s~~m~~mA~af~~s-v~~le~~  385 (466)
T KOG0686|consen  307 QLREILFKFYSSKYASCLELLREIKPRLLLDMYLAPHVDNLYSLIRNRALLQYLSPYSSADMSKMAEAFNTS-VAILESE  385 (466)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHhccceeechhcchhHHHHHHHHHHhhHHHhcCccccchHHHHHHHhccc-HHHHHHH
Confidence            4566777777777665433    222211   122   4457899999999988999999999999999997 9999999


Q ss_pred             HHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcH
Q 025819          131 LINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQL  167 (247)
Q Consensus       131 lI~~aI~~glI~GkIDQ~~~~v~V~~~~~Rdl~~~q~  167 (247)
                      |. +.|-.|.|+||||+.++++++.-+..|.-+-++.
T Consensus       386 l~-~LI~~~~i~~rIDs~~ki~~~~~~~~en~~fe~~  421 (466)
T KOG0686|consen  386 LL-ELILEGKISGRIDSHNKILYARDADSENATFERV  421 (466)
T ss_pred             HH-HHHHccchheeeccccceeeecccccccchhhhc
Confidence            99 9999999999999999999998765554333333

>KOG1497 consensus COP9 signalosome, subunit CSN4 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=95.90  E-value=0.034  Score=51.91  Aligned_cols=155  Identities=11%  Similarity=0.142  Sum_probs=91.3

Q ss_pred             HHHHHHHHhcCCCcccc-hhhhcCchhhhccCCC-chHHHHHHHHHhcCChhhHhhh-----hCCCCCcchHHHHHHHHH
Q 025819           26 LGSVIVEATSQPSLFAF-SEILAVPNIAEFEGTE-NSKYLDMLRLFAHGTWSDYKNN-----AGHLPQLVPDQVLKLKQL   98 (247)
Q Consensus        26 a~~lI~~AL~~p~vf~F-~eLL~lp~v~~L~~~~-~~~~~~LL~iFa~Gt~~dy~~~-----~~~l~~L~~~~~~KLr~L   98 (247)
                      |..|..-|.-+|.+--| ..|...|.+++|..=+ -.++| |=++....+...|...     +...+.=+.-.-+-+.--
T Consensus       228 a~~CtlLA~~gpqrsr~Latlfkder~~~l~~y~ileKmy-l~riI~k~el~ef~~~L~pHQka~~~dgssil~ra~~Eh  306 (399)
T KOG1497|consen  228 ALQCTLLASAGPQRSRMLATLFKDERCQKLPAYGILEKMY-LERIIRKEELQEFEAFLQPHQKAHTMDGSSILDRAVIEH  306 (399)
T ss_pred             hHhheeecCCChHHHHHHHHHhcCcccccccchHHHHHHH-HHHHhcchhHHHHHHHhcchhhhcccCcchhhhhHHHHH
Confidence            44444445555555443 4555566666663211 12222 2223333345555541     111121111111233335


Q ss_pred             HhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcHHHHHHHHHHHH
Q 025819           99 TVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWL  178 (247)
Q Consensus        99 tllsLa~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~~~~~Rdl~~~q~~~l~~~L~~W~  178 (247)
                      .|+++.+-+..|+|+++...|+|+ .+.+|...- +.|..|-+.|.|||.++.+++.-   |. ...+|+.   ....-|
T Consensus       307 Nlls~Skly~nisf~~Lg~ll~i~-~ekaekiaa-~MI~qeRmng~IDQ~egiihFe~---~e-~l~~wdk---qi~sl~  377 (399)
T KOG1497|consen  307 NLLSASKLYNNISFEELGALLKID-AEKAEKIAA-QMITQERMNGSIDQIEGIIHFED---RE-ELPQWDK---QIQSLC  377 (399)
T ss_pred             hHHHHHHHHHhccHHHHHHHhCCC-HHHHHHHHH-HHHhHHHhccchHhhcceEeecc---hh-hhhhhhH---HHHHHH
Confidence            566777777889999999999998 999999999 89999999999999999999863   21 1134544   334456


Q ss_pred             HHHHHHHHHHHH
Q 025819          179 TTSDNLLISIQE  190 (247)
Q Consensus       179 ~~~~~vl~~Ie~  190 (247)
                      +.++++++.|..
T Consensus       378 ~qvNki~~~i~~  389 (399)
T KOG1497|consen  378 NQVNKILDKISH  389 (399)
T ss_pred             HHHHHHHHHHHH
Confidence            666666666554

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

Probab=95.61  E-value=0.06  Score=50.08  Aligned_cols=77  Identities=17%  Similarity=0.250  Sum_probs=66.3

Q ss_pred             ccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcHHHHHHHHHHHHHHHHH
Q 025819          104 AETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDN  183 (247)
Q Consensus       104 a~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~~~~~Rdl~~~q~~~l~~~L~~W~~~~~~  183 (247)
                      +.=+..|+-..|..-++.| ..+.|.+|- +.+..|++.+||++..+.+.+...          ++..+.|..|..+++.
T Consensus       348 ~~yYSrI~~~rl~~lld~~-~s~te~~IS-dlVN~G~~yaKiNrpa~Ii~FEK~----------~n~~~~lneW~~NV~e  415 (439)
T COG5071         348 ANYYSRIHCSRLGVLLDMS-PSETEQFIS-DLVNKGHFYAKINRPAQIISFEKS----------QNVQEQLNEWGSNVTE  415 (439)
T ss_pred             HHHhhhhhHHHHHHHHcCC-HHHHHHHHH-HHHhcCcEEEEecCccceEEeecc----------ccHHHHHHHhcccHHH
Confidence            3457889999999999998 999999999 899999999999999999987643          2367889999999999


Q ss_pred             HHHHHHHHH
Q 025819          184 LLISIQEKI  192 (247)
Q Consensus       184 vl~~Ie~~i  192 (247)
                      ++..++.--
T Consensus       416 llgklek~~  424 (439)
T COG5071         416 LLGKLEKVR  424 (439)
T ss_pred             HHHHHHHHh
Confidence            999887543

>KOG2582 consensus COP9 signalosome, subunit CSN3 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=93.74  E-value=0.45  Score=45.20  Aligned_cols=106  Identities=11%  Similarity=0.253  Sum_probs=79.2

Q ss_pred             hHHHHHHHHHhcCChhhHhh----hhCCC-CC----cchHHHHHHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHH
Q 025819           60 SKYLDMLRLFAHGTWSDYKN----NAGHL-PQ----LVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDF  130 (247)
Q Consensus        60 ~~~~~LL~iFa~Gt~~dy~~----~~~~l-~~----L~~~~~~KLr~LtllsLa~~~k~Isy~~I~~~L~I~~~~evE~l  130 (247)
                      .+|.++++++..+.-...+.    +++.+ .+    +.-..+.-+..-+|..|-....+++.++|++..++.+..|||..
T Consensus       259 ~pY~ef~~~Y~~~~~~eLr~lVk~~~~rF~kDnnt~l~k~av~sl~k~nI~rltktF~sLsL~dIA~~vQLa~~qevek~  338 (422)
T KOG2582|consen  259 NPYHEFLNVYLKDSSTELRTLVKKHSERFTKDNNTGLAKQAVSSLYKKNIQRLTKTFLSLSLSDIASRVQLASAQEVEKY  338 (422)
T ss_pred             chHHHHHHHHhcCCcHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcchHHHHHH
Confidence            48999999999998876554    23222 21    33333455556667777777788999999997777778999999


Q ss_pred             HHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcHHH
Q 025819          131 LINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGS  169 (247)
Q Consensus       131 lI~~aI~~glI~GkIDQ~~~~v~V~~~~~Rdl~~~q~~~  169 (247)
                      |+ ..|..|=|-..||   |-+..+.-...+..|+...+
T Consensus       339 Il-qmie~~~i~a~iN---G~v~f~~n~e~~~SpeM~~n  373 (422)
T KOG2582|consen  339 IL-QMIEDGEIFASIN---GMVFFTDNPEKYNSPEMHEN  373 (422)
T ss_pred             HH-HHhccCceEEEec---ceEEEecCcccCCCHHHHhh
Confidence            99 8999999999999   77877776666666665554

>KOG1463 consensus 26S proteasome regulatory complex, subunit RPN6/PSMD11 [Posttranslational modification, protein turnover, chaperones]

Probab=93.31  E-value=0.21  Score=47.03  Aligned_cols=114  Identities=16%  Similarity=0.225  Sum_probs=80.9

Q ss_pred             hhhcCchhhhccCCCchHHHHHHHHHhcCChhhHhhh-hCCCCCcc-----hHHH----HHHHHHHhhhcccCCcccChH
Q 025819           44 EILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKNN-AGHLPQLV-----PDQV----LKLKQLTVLTLAETNKVLPYD  113 (247)
Q Consensus        44 eLL~lp~v~~L~~~~~~~~~~LL~iFa~Gt~~dy~~~-~~~l~~L~-----~~~~----~KLr~LtllsLa~~~k~Isy~  113 (247)
                      .|+.-.......+..-..+...=+.|..-++.||..- .+.-++|-     ...+    ..|=---|+.+.+++.++..+
T Consensus       270 ~lls~K~~l~y~g~~i~AmkavAeA~~nRSLkdF~~AL~~yk~eL~~D~ivr~Hl~~Lyd~lLEknl~riIEPyS~Vei~  349 (411)
T KOG1463|consen  270 ALLSAKLALKYAGRDIDAMKAVAEAFGNRSLKDFEKALADYKKELAEDPIVRSHLQSLYDNLLEKNLCRIIEPYSRVEIS  349 (411)
T ss_pred             HHHhhHHHHhccCcchHHHHHHHHHhcCCcHHHHHHHHHHhHHHHhcChHHHHHHHHHHHHHHHHhHHHHcCchhhhhHH
Confidence            3443333333444445567777788999999999862 21111222     1112    223334577888999999999


Q ss_pred             HHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecC
Q 025819          114 ELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAG  159 (247)
Q Consensus       114 ~I~~~L~I~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~~~~~  159 (247)
                      -|++-+|++ +..||.=+- ..|-...+.|.|||-++++.|.--.+
T Consensus       350 hIA~~IGl~-~~~VEkKLs-qMILDKkf~G~LDQg~g~Liv~~e~~  393 (411)
T KOG1463|consen  350 HIAEVIGLD-VPQVEKKLS-QMILDKKFYGTLDQGEGCLIVFEEPP  393 (411)
T ss_pred             HHHHHHCCC-cHHHHHHHH-HHHHHHHhhcccccCCCeEEEeCCCC
Confidence            999999998 999999988 89999999999999999999975443

>KOG2688 consensus Transcription-associated recombination protein - Thp1p [Cell cycle control, cell division, chromosome partitioning]

Probab=93.27  E-value=0.17  Score=48.31  Aligned_cols=98  Identities=15%  Similarity=0.195  Sum_probs=70.2

Q ss_pred             chHHHHHHHHHhcCChhhHhh----hhCCCCCcchH-HHHHHHHHHhhhcc-------cCCcccChHHHHHHcCCCC---
Q 025819           59 NSKYLDMLRLFAHGTWSDYKN----NAGHLPQLVPD-QVLKLKQLTVLTLA-------ETNKVLPYDELMEELDVTN---  123 (247)
Q Consensus        59 ~~~~~~LL~iFa~Gt~~dy~~----~~~~l~~L~~~-~~~KLr~LtllsLa-------~~~k~Isy~~I~~~L~I~~---  123 (247)
                      -..+-.|+.....|++..|..    |...+....-- .+.|++.++.=.|.       .+...+|++.+..++....   
T Consensus       271 ~~~~~~lv~aVr~Gnl~~f~~al~~~E~~f~~~gi~l~l~~l~lv~yrnL~kkv~~~~~~~~~lpls~~~~al~~~~~~~  350 (394)
T KOG2688|consen  271 LDKYSPLVQAVRSGNLRLFDLALADNERFFIRSGIYLTLEKLPLVVYRNLFKKVIQLWGKTSQLPLSRFLTALQFSGVTD  350 (394)
T ss_pred             HHhHHHHHHHHHhccHHHHHHHHhhhHHHHHHhccHHHhhhhhHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHhhcCCCC
Confidence            346777899999999999975    22222111100 12234444333332       2678999999999998765   


Q ss_pred             --hHHHHHHHHHHhHhcCccEEEecCCCCEEEEEee
Q 025819          124 --VRELEDFLINECMYTGIVRGKLDQLRRCFEVQFA  157 (247)
Q Consensus       124 --~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~~~  157 (247)
                        .+|||-.+. .+|+.|.|+|.|+...+++.+...
T Consensus       351 ~~~deveciLa-~lI~~G~ikgYish~~~~~V~sK~  385 (394)
T KOG2688|consen  351 VDLDEVECILA-NLIDLGRIKGYISHQLQTLVFSKK  385 (394)
T ss_pred             CchhhHHHHHH-hhhhhccccchhchhhheEEEecC
Confidence              689999999 899999999999999999998754

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=91.02  E-value=1.7  Score=40.58  Aligned_cols=100  Identities=17%  Similarity=0.228  Sum_probs=74.0

Q ss_pred             chHHHHHHHHHhcCChhhHhhh-hCCCCCcc-----hHH----HHHHHHHHhhhcccCCcccChHHHHHHcCCCChHHHH
Q 025819           59 NSKYLDMLRLFAHGTWSDYKNN-AGHLPQLV-----PDQ----VLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELE  128 (247)
Q Consensus        59 ~~~~~~LL~iFa~Gt~~dy~~~-~~~l~~L~-----~~~----~~KLr~LtllsLa~~~k~Isy~~I~~~L~I~~~~evE  128 (247)
                      -..+...-+.|..-++.||..- +..-|+|-     -..    -..|---.|+.+.++..++..+-|++-+|++ ..+||
T Consensus       283 I~am~avaea~~NRsL~df~~aL~qY~~el~~D~~iRsHl~~LYD~LLe~Nl~kiiEPfs~VeishIa~viGld-t~qvE  361 (421)
T COG5159         283 IRAMLAVAEAFGNRSLKDFSDALAQYSDELHQDSFIRSHLQYLYDVLLEKNLVKIIEPFSVVEISHIADVIGLD-TNQVE  361 (421)
T ss_pred             HHHHHHHHHHhCCCcHhhHHHHHHHhhHHhccCHHHHHHHHHHHHHHHHhhhhhhcCcceeeehhHHHHHhccc-HHHHH
Confidence            3456667788888889999762 22222222     111    1222234577788899999999999999997 99999


Q ss_pred             HHHHHHhHhcCccEEEecCCCCEEEEEeecCC
Q 025819          129 DFLINECMYTGIVRGKLDQLRRCFEVQFAAGR  160 (247)
Q Consensus       129 ~llI~~aI~~glI~GkIDQ~~~~v~V~~~~~R  160 (247)
                      .=+- ..|-.+++-|.+||.++|+.|.-....
T Consensus       362 gKLs-qMILDKifyG~LDqg~gcLivy~ep~q  392 (421)
T COG5159         362 GKLS-QMILDKIFYGTLDQGDGCLIVYGEPAQ  392 (421)
T ss_pred             HHHH-HHHHHHHHHhhhccCCceEEEeCCccc
Confidence            9888 889999999999999999999755433

>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]

Probab=90.48  E-value=5.1  Score=41.78  Aligned_cols=50  Identities=16%  Similarity=0.219  Sum_probs=44.0

Q ss_pred             cCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEE
Q 025819          105 ETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQ  155 (247)
Q Consensus       105 ~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~  155 (247)
                      .-+.+|+|+.|.+-.-.=|.-+||.+++ +|...+.+..+||...++|.+.
T Consensus       443 qiY~sIs~~~l~~La~F~~~~~lEk~~v-~a~k~~~v~iriDH~~~~v~Fg  492 (988)
T KOG2072|consen  443 QIYESISFERLYKLAPFFSAFELEKLLV-EAAKHNDVSIRIDHESNSVSFG  492 (988)
T ss_pred             HHHHHHhHHHHHHHHhhcCHHHHHHHHH-HHHhccceeEEeccccceeeec
Confidence            3577899998887665556899999999 9999999999999999999987

>COG5600 Transcription-associated recombination protein [DNA replication, recombination, and repair]

Probab=90.18  E-value=0.95  Score=43.17  Aligned_cols=99  Identities=21%  Similarity=0.336  Sum_probs=65.0

Q ss_pred             chHHHHHHHHHhcCChhhHhh----hhCCCCC------cc---hH-HHHHHHHHHhhhcccCCcccChHHHHHHcCCC--
Q 025819           59 NSKYLDMLRLFAHGTWSDYKN----NAGHLPQ------LV---PD-QVLKLKQLTVLTLAETNKVLPYDELMEELDVT--  122 (247)
Q Consensus        59 ~~~~~~LL~iFa~Gt~~dy~~----~~~~l~~------L~---~~-~~~KLr~LtllsLa~~~k~Isy~~I~~~L~I~--  122 (247)
                      .+.+--|.++.-+|++++|..    |...+-.      |.   |. +.+.|.. -+..++-....+|++.+...++++  
T Consensus       288 ~s~~~~LvkavrsGni~~~~~~l~~ner~~~~~~l~ltl~~~~~~V~~RNL~r-k~w~~~~~qsrlp~sil~~~~qls~~  366 (413)
T COG5600         288 CSVYSPLVKAVRSGNIEDFDLALSRNERKFAKRGLYLTLLAHYPLVCFRNLFR-KIWRLHGKQSRLPLSILLIVLQLSAI  366 (413)
T ss_pred             cchhHHHHHHHHcCCHHHHHHHHHHhHHHHHHcchHHHHHhhccHHHHHHHHH-HHHhhccccccCcHHHHHHHHHccCC
Confidence            455667889999999999975    2111110      00   11 1122211 233334455557777766666554  


Q ss_pred             C----hHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecC
Q 025819          123 N----VRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAG  159 (247)
Q Consensus       123 ~----~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~~~~~  159 (247)
                      +    ..+||-.++ .+|..|+++|.|....+++.+....|
T Consensus       367 dn~~~~~~VEciL~-tlI~~G~lrgYis~s~~~vV~sk~~p  406 (413)
T COG5600         367 DNFHSFKEVECILV-TLIGLGLLRGYISHSRRTVVFSKKDP  406 (413)
T ss_pred             CcccChHHHHHHHH-HHHhhhhhhheecccceEEEEecCCC
Confidence            2    568999999 89999999999999999999986543

>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=90.12  E-value=2.5  Score=34.15  Aligned_cols=107  Identities=14%  Similarity=0.180  Sum_probs=73.5

Q ss_pred             HHHHHHHHHhcCCCcccchhhhcCchhhhccC-CCchHHHHHHHHHhcCChhhHhhh-hCC-----CCCcchHHHHHHHH
Q 025819           25 ALGSVIVEATSQPSLFAFSEILAVPNIAEFEG-TENSKYLDMLRLFAHGTWSDYKNN-AGH-----LPQLVPDQVLKLKQ   97 (247)
Q Consensus        25 ~a~~lI~~AL~~p~vf~F~eLL~lp~v~~L~~-~~~~~~~~LL~iFa~Gt~~dy~~~-~~~-----l~~L~~~~~~KLr~   97 (247)
                      ....+...+|..-.+-+|.-++..-.-...+. .+-..++.|.+.+-.|+|..|-+. .+.     +..+.+.-..++|.
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            34445555666666788888876554443333 345778899999999999998772 221     11233555778888


Q ss_pred             HHhhhcccCCcccChHHHHHHcCCCChHHHHHHHH
Q 025819           98 LTVLTLAETNKVLPYDELMEELDVTNVRELEDFLI  132 (247)
Q Consensus        98 LtllsLa~~~k~Isy~~I~~~L~I~~~~evE~llI  132 (247)
                      -++-.+...+..|+.+.+++-||++ ..+++.++.
T Consensus        86 ~i~~~i~~aY~sIs~~~la~~Lg~~-~~el~~~~~  119 (143)
T PF10075_consen   86 RIAHLISKAYSSISLSDLAEMLGLS-EEELEKFIK  119 (143)
T ss_dssp             HHHHHHHHH-SEE-HHHHHHHTTS--HHHHHHHHH
T ss_pred             HHHHHHHHHHhHcCHHHHHHHhCCC-HHHHHHHHH
Confidence            7777888889999999999999998 999999877

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.

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

Probab=90.11  E-value=0.4  Score=41.46  Aligned_cols=57  Identities=14%  Similarity=0.268  Sum_probs=41.0

Q ss_pred             HHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEE
Q 025819           97 QLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQ  155 (247)
Q Consensus        97 ~LtllsLa~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~  155 (247)
                      +-.++..+...++++.++|+.+.++. ..++-+-|- +....|.|.|-||...+-|+|+
T Consensus       101 L~~Fi~yIK~~Kvv~ledla~~f~l~-t~~~i~ri~-~L~~~g~ltGv~DdrGkfIyIs  157 (188)
T PF09756_consen  101 LQEFINYIKEHKVVNLEDLAAEFGLR-TQDVINRIQ-ELEAEGRLTGVIDDRGKFIYIS  157 (188)
T ss_dssp             HHHHHHHHHH-SEE-HHHHHHHH-S--HHHHHHHHH-HHHHHSSS-EEE-TT--EEE--
T ss_pred             HHHHHHHHHHcceeeHHHHHHHcCCC-HHHHHHHHH-HHHHCCCceeeEcCCCCeEEec
Confidence            34566777789999999999999998 788888888 8999999999999999889887

They contain a highly conserved DDRGK motif. The function is unknown. ; PDB: 1WI9_A.

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

Probab=89.04  E-value=1.8  Score=40.84  Aligned_cols=64  Identities=17%  Similarity=0.267  Sum_probs=56.5

Q ss_pred             HHHHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEee
Q 025819           92 VLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFA  157 (247)
Q Consensus        92 ~~KLr~LtllsLa~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~~~  157 (247)
                      .+-||...--.|-+.+|.++.+-.|+..|++ ++-++.=+= +-|-+|-+++|||-++++|++++-
T Consensus       300 vREMR~rvY~QlLESYrsl~l~~MA~aFgVS-VefiDreL~-rFI~~grL~ckIDrVnGVVEtNrp  363 (393)
T KOG0687|consen  300 VREMRRRVYAQLLESYRSLTLESMAKAFGVS-VEFIDRELG-RFIAAGRLHCKIDRVNGVVETNRP  363 (393)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhCch-HHHHHhHHH-HhhccCceeeeeecccceeecCCc
Confidence            5778888888888999999999999999997 887777677 778899999999999999999853

>COG3355 Predicted transcriptional regulator [Transcription]

Probab=86.10  E-value=7.1  Score=31.73  Aligned_cols=80  Identities=20%  Similarity=0.362  Sum_probs=57.7

Q ss_pred             cCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEE-EecCCC-CEEEEEeecCCCCCCCcHH-HHHHHHHHHHHHH
Q 025819          105 ETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRG-KLDQLR-RCFEVQFAAGRDLRPGQLG-SMIQTLSNWLTTS  181 (247)
Q Consensus       105 ~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~G-kIDQ~~-~~v~V~~~~~Rdl~~~q~~-~l~~~L~~W~~~~  181 (247)
                      +.++.++-++|++.|+++ -..|..-|= +.+..|+|.= |..-.. +-.++-    +.++++++. .+...|+.|++++
T Consensus        38 ~~~~~~tvdelae~lnr~-rStv~rsl~-~L~~~GlV~Rek~~~~~Ggy~yiY----~~i~~ee~k~~i~~~l~~w~~~~  111 (126)
T COG3355          38 EENGPLTVDELAEILNRS-RSTVYRSLQ-NLLEAGLVEREKVNLKGGGYYYLY----KPIDPEEIKKKILKDLDEWYDKM  111 (126)
T ss_pred             hhcCCcCHHHHHHHHCcc-HHHHHHHHH-HHHHcCCeeeeeeccCCCceeEEE----ecCCHHHHHHHHHHHHHHHHHHH
Confidence            367889999999999997 778888777 8999999873 333222 233332    234456665 4788999999999


Q ss_pred             HHHHHHHHH
Q 025819          182 DNLLISIQE  190 (247)
Q Consensus       182 ~~vl~~Ie~  190 (247)
                      ...+...+.
T Consensus       112 ~~~i~~~~~  120 (126)
T COG3355         112 KQLIEEFEK  120 (126)
T ss_pred             HHHHHHHhc
Confidence            988876553

>KOG3054 consensus Uncharacterized conserved protein [Function unknown]

Probab=82.94  E-value=2  Score=38.71  Aligned_cols=54  Identities=19%  Similarity=0.401  Sum_probs=44.0

Q ss_pred             hhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEE
Q 025819          100 VLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQ  155 (247)
Q Consensus       100 llsLa~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~  155 (247)
                      ++..+.++++++.++|+.+.++. ..+.=+-+= +.+..|+|.|-||...+-++|+
T Consensus       205 Fv~YIk~nKvV~ledLas~f~Lr-tqd~inriq-~~l~eg~ltGVmDDRGKfIYIS  258 (299)
T KOG3054|consen  205 FVEYIKKNKVVPLEDLASEFGLR-TQDSINRIQ-ELLAEGLLTGVMDDRGKFIYIS  258 (299)
T ss_pred             HHHHHHhcCeeeHHHHHHHhCcc-HHHHHHHHH-HHHHhhhheeeecCCCceEEec
Confidence            45556689999999999999998 444444445 5667899999999999999997

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

Probab=82.89  E-value=1.3  Score=31.48  Aligned_cols=42  Identities=17%  Similarity=0.294  Sum_probs=33.0

Q ss_pred             hhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEE
Q 025819          100 VLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRG  143 (247)
Q Consensus       100 llsLa~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~G  143 (247)
                      |......++.+|+++|+.+++++ ...||.++= ..+..|-|+-
T Consensus         5 i~~~l~~~~~~S~~eLa~~~~~s-~~~ve~mL~-~l~~kG~I~~   46 (69)
T PF09012_consen    5 IRDYLRERGRVSLAELAREFGIS-PEAVEAMLE-QLIRKGYIRK   46 (69)
T ss_dssp             HHHHHHHS-SEEHHHHHHHTT---HHHHHHHHH-HHHCCTSCEE
T ss_pred             HHHHHHHcCCcCHHHHHHHHCcC-HHHHHHHHH-HHHHCCcEEE
Confidence            44455578899999999999998 999999887 8999998883

FeoC acts as a [Fe-S] dependent transcriptional repressor []. ; PDB: 1XN7_A 2K02_A.

>PF02082 Rrf2: Transcriptional regulator; InterPro: IPR000944 The following uncharacterised bacterial proteins have been shown to be evolutionary related, Desulfovibrio vulgaris protein Rrf2; Escherichia coli hypothetical proteins yfhP and yjeB; Bacillus subtilis hypothetical proteins yhdE, yrzC and ywgB; Mycobacterium tuberculosis hypothetical protein Rv1287; and Synechocystis sp

Probab=81.85  E-value=4.3  Score=29.79  Aligned_cols=58  Identities=17%  Similarity=0.230  Sum_probs=39.6

Q ss_pred             HHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEE
Q 025819           95 LKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQ  155 (247)
Q Consensus        95 Lr~LtllsLa~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~  155 (247)
                      ++.|..+......+.++-.+|++.++++ ...|+.++= +...+|+|+.+= ..++.+...
T Consensus        11 l~~l~~la~~~~~~~~s~~eiA~~~~i~-~~~l~kil~-~L~~~Gli~s~~-G~~GGy~L~   68 (83)
T PF02082_consen   11 LRILLYLARHPDGKPVSSKEIAERLGIS-PSYLRKILQ-KLKKAGLIESSR-GRGGGYRLA   68 (83)
T ss_dssp             HHHHHHHHCTTTSC-BEHHHHHHHHTS--HHHHHHHHH-HHHHTTSEEEET-STTSEEEES
T ss_pred             HHHHHHHHhCCCCCCCCHHHHHHHHCcC-HHHHHHHHH-HHhhCCeeEecC-CCCCceeec
Confidence            3444444333345569999999999998 999999877 889999987552 444555443

(strain PCC 6803) hypothetical protein slr0846. These are small proteins of 12 to 18kDa which seem to contain a signal sequence, and may represent a family of probable transcriptional regulators.; PDB: 3T8T_A 3T8R_A 3K69_A 3LWF_C 1XD7_A 2Y75_E 1YLF_C.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	247
3chm_A	169	Crystal Structure Of Pci Domain From A. Thaliana Co		2e-68

>pdb|3CHM|A Chain A, Crystal Structure Of Pci Domain From A. Thaliana Cop9 Signalosome Subunit 7 (Csn7) Length = 169

Iteration: 1
 Score =  255 bits (651), Expect = 2e-68,   Method: Compositional matrix adjust.
 Identities = 120/168 (71%), Positives = 134/168 (79%)
Query: 2   DIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSK 61
           DIEQ+QAE+ID  VK+AS  K  ALG +I+EATS PSLFAFSEILA+PN+A+ EGT +S 
Sbjct: 2   DIEQKQAEIIDQLVKRASTCKSEALGPLIIEATSHPSLFAFSEILALPNVAQLEGTTDSV 61
Query: 62  YLDMLRLFAHGTWSDYKNNAGHLPQLVPDXXXXXXXXXXXXXAETNKVLPYDELMEELDV 121
           YLD+LRLFAHGTW DYK NA  LP L PD             AE+NKVLPYD LM ELDV
Sbjct: 62  YLDLLRLFAHGTWGDYKCNATRLPHLSPDQILKLKQLTVLTLAESNKVLPYDTLMVELDV 121
Query: 122 TNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGS 169
           +NVRELEDFLINECMY GIVRGKLDQL+RCFEV FAAGRDLRPGQLG+
Sbjct: 122 SNVRELEDFLINECMYAGIVRGKLDQLKRCFEVPFAAGRDLRPGQLGN 169

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	247
3chm_A	169	COP9 signalosome complex subunit 7; heat/ARM repea	9e-61
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-04

>3chm_A COP9 signalosome complex subunit 7; heat/ARM repeats, winged helix motif, developmental protein, phosphoprotein; 1.50A {Arabidopsis thaliana} Length = 169

 Score =  188 bits (478), Expect = 9e-61
 Identities = 132/168 (78%), Positives = 147/168 (87%)

Query: 2   DIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSK 61
           DIEQ+QAE+ID  VK+AS  K  ALG +I+EATS PSLFAFSEILA+PN+A+ EGT +S 
Sbjct: 2   DIEQKQAEIIDQLVKRASTCKSEALGPLIIEATSHPSLFAFSEILALPNVAQLEGTTDSV 61

Query: 62  YLDMLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDV 121
           YLD+LRLFAHGTW DYK NA  LP L PDQ+LKLKQLTVLTLAE+NKVLPYD LM ELDV
Sbjct: 62  YLDLLRLFAHGTWGDYKCNATRLPHLSPDQILKLKQLTVLTLAESNKVLPYDTLMVELDV 121

Query: 122 TNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGS 169
           +NVRELEDFLINECMY GIVRGKLDQL+RCFEV FAAGRDLRPGQLG+
Sbjct: 122 SNVRELEDFLINECMYAGIVRGKLDQLKRCFEVPFAAGRDLRPGQLGN 169

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

 Score = 39.5 bits (91), Expect = 8e-04
 Identities = 36/231 (15%), Positives = 68/231 (29%), Gaps = 67/231 (29%)

Query: 3   IEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKY 62
           +  +Q E++  FV++        L S I     QPS+              +    +   
Sbjct: 71  LLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSM----------MTRMYIEQRD--- 117

Query: 63  LDMLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVT 122
               RL     ++D               V +L+    L  A           + EL   
Sbjct: 118 ----RL-----YND-------NQVFAKYNVSRLQPYLKLRQA-----------LLELRP- 149

Query: 123 NVRELEDFLINECMYTGIVRGK--------LD---QLRRCFEVQF--AAGRDLRPGQLGS 169
                   ++ + +  G   GK        L    Q +  F++ F         P  +  
Sbjct: 150 -----AKNVLIDGV-LGS--GKTWVALDVCLSYKVQCKMDFKI-FWLNLKNCNSPETVLE 200

Query: 170 MIQTLSNWLTTSDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSL 220
           M+Q L   +  +          IK    ++ +  + R+ L+ K    +  L
Sbjct: 201 MLQKLLYQIDPNWTSRSDHSSNIK--LRIHSIQAELRRLLKSK--PYENCL 247

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	247
3chm_A	169	COP9 signalosome complex subunit 7; heat/ARM repea	100.0
4b4t_O	393	26S proteasome regulatory subunit RPN9; hydrolase,	100.0
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	99.41
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	98.98
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	98.81
3t5x_A	203	PCI domain-containing protein 2; PCI, mRNA nuclear	98.56
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.54
1ufm_A	84	COP9 complex subunit 4; helix-turn-helix, structur	98.36
4b4t_S	523	RPN3, 26S proteasome regulatory subunit RPN3; hydr	98.05
3t5v_B	455	Nuclear mRNA export protein THP1; PCI, mRNA nuclea	97.6
4b0z_A	229	RPN12, 26S proteasome regulatory subunit RPN12; pr	93.81
1wi9_A	72	Protein C20ORF116 homolog; helix-turn-helix motif,	92.71
3df8_A	111	Possible HXLR family transcriptional factor; APC89	87.43
2hzt_A	107	Putative HTH-type transcriptional regulator YTCD;	87.04
1qbj_A	81	Protein (double-stranded RNA specific adenosine D	84.01
1i1g_A	141	Transcriptional regulator LRPA; helix-turn-helix,	83.18
3r0a_A	123	Putative transcriptional regulator; structural gen	82.43
1qgp_A	77	Protein (double stranded RNA adenosine deaminase);	80.79

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

Probab=100.00  E-value=3.6e-51  Score=344.30  Aligned_cols=168  Identities=79%  Similarity=1.223  Sum_probs=158.7

Q ss_pred             chhHHHHhHHHHHHHhccCccHHHHHHHHHHHhcCCCcccchhhhcCchhhhccCCCchHHHHHHHHHhcCChhhHhhhh
Q 025819            2 DIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKNNA   81 (247)
Q Consensus         2 ~~~~~~~~~l~~f~~lak~~~~~~a~~lI~~AL~~p~vf~F~eLL~lp~v~~L~~~~~~~~~~LL~iFa~Gt~~dy~~~~   81 (247)
                      ++|+++.+.||||+.+||++++++|+++|.+||.+|++|+|||||.+|+|++|++++++|+++||++|++|||.+|.+++
T Consensus         2 ~~~~~~~~~l~~f~~la~~~~~~~a~~li~~Al~~p~vf~F~eLL~~p~v~~L~~~~~~~~~~LL~iF~~G~~~~y~~~~   81 (169)
T 3chm_A            2 DIEQKQAEIIDQLVKRASTCKSEALGPLIIEATSHPSLFAFSEILALPNVAQLEGTTDSVYLDLLRLFAHGTWGDYKCNA   81 (169)
T ss_dssp             --CCCHHHHHHHHHHHHTTSCGGGHHHHHHHHHHCTTCCCCHHHHTCHHHHTTTTSTTHHHHHHHHHHHHCCHHHHHHHG
T ss_pred             chhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHhcCCCeeehHHHhCChHHHHhcCCChhHHHHHHHHHhcCCHHHHHHhH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             CCCCCcchHHHHHHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCC
Q 025819           82 GHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRD  161 (247)
Q Consensus        82 ~~l~~L~~~~~~KLr~LtllsLa~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~~~~~Rd  161 (247)
                      +.+|.|++.+.+|||+|||++||..+++|||++|+++|+|+|+++||+||||+||+.|||+|||||++++|+|+|++||+
T Consensus        82 ~~~p~L~~~~~~KlrlLtL~sLa~~~~~lsy~~I~~~l~i~~~~evE~lvI~~ai~~gLI~gkiDQ~~~~v~V~~~~~R~  161 (169)
T 3chm_A           82 TRLPHLSPDQILKLKQLTVLTLAESNKVLPYDTLMVELDVSNVRELEDFLINECMYAGIVRGKLDQLKRCFEVPFAAGRD  161 (169)
T ss_dssp             GGSCCCCHHHHHHHHHHHHHHHHHHCSEEEHHHHHHHHTCCSHHHHHHHHHHTHHHHTSEEEEEETTTTEEEEEEECCTT
T ss_pred             HhCcchHHHHHHHHHHHHHHHHHHhCCCcCHHHHHHHhCCCCHHHHHHHHHHHHHHhCCeEEEEcCcCCEEEEEeecCCc
Confidence            89999999999999999999999999999999999999999999999999988999999999999999999999999999


Q ss_pred             CCCCcHHH
Q 025819          162 LRPGQLGS  169 (247)
Q Consensus       162 l~~~q~~~  169 (247)
                      |+++||++
T Consensus       162 l~~~qi~~  169 (169)
T 3chm_A          162 LRPGQLGN  169 (169)
T ss_dssp             CCC-----
T ss_pred             cCHHhccC
Confidence            99999963

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

Probab=100.00  E-value=3.3e-35  Score=275.24  Aligned_cols=171  Identities=13%  Similarity=0.312  Sum_probs=118.8

Q ss_pred             cHHHHHHHHHHHhcCCCcccchhhhcCchhhhccC-CCchHHHHHHHHHhcCChhhHhh----hhCCCCCcchH---HHH
Q 025819           22 KGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEG-TENSKYLDMLRLFAHGTWSDYKN----NAGHLPQLVPD---QVL   93 (247)
Q Consensus        22 ~~~~a~~lI~~AL~~p~vf~F~eLL~lp~v~~L~~-~~~~~~~~LL~iFa~Gt~~dy~~----~~~~l~~L~~~---~~~   93 (247)
                      +...|+.++..||.+|++|+||+|+.+|.+++|++ +++.|+++||++|++||+.+|.+    +.+.+|.+.+.   ..+
T Consensus       210 ~~~~a~~l~~~all~~~i~~f~eLL~~p~i~~L~~~~~~~~l~~Ll~~f~~g~~~~f~~~~~~~~~~~~~l~~~~~~l~~  289 (393)
T 4b4t_O          210 RQQLAYDLSISALLGDKIYNFGELLHHPIMETIVNDSNYDWLFQLLNALTVGDFDKFDSLIKVQISKIPILAQHESFLRQ  289 (393)
T ss_dssp             HHHHHHHHHHHHHHCCSSCSTHHHHHSCCTTSSCSSSSTTHHHHHHHHHHHTCHHHHHHHCCHHHHHSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCCCChHHHhCChHHHHhhcCCchHHHHHHHHHHhcCCHHHHHHHHHHhhhhCcchhhhHHHHHH
Confidence            45679999999999999999999999999999975 46999999999999999999976    44566766644   478


Q ss_pred             HHHHHHhhhccc--CCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcHHHHH
Q 025819           94 KLKQLTVLTLAE--TNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMI  171 (247)
Q Consensus        94 KLr~LtllsLa~--~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~~~~~Rdl~~~q~~~l~  171 (247)
                      |+|.+++++|+.  +++.|||++|+++|+|+ +++||+||| +||+.|+|+|+|||++++|+|+|++||+++++||..|.
T Consensus       290 kirll~l~~l~~~~~~~~i~f~~ia~~l~i~-~~evE~lli-~aI~~glI~GkIDQv~~~v~v~~~~pR~~~~~q~~~l~  367 (393)
T 4b4t_O          290 KICLMTLIETVFVKNIRMLSFEDISKATHLP-KDNVEHLVM-RAISLGLLKGSIDQVNELVTISWVQPRIISGDQITKMK  367 (393)
T ss_dssp             HHHHHHHHHHHCSSSCCCEEHHHHHHHHTCC-HHHHHHHHH-HHHHHSCSSSCEETTTTEECC-----------------
T ss_pred             HHHHHHHHHHhccCCCCcCcHHHHHHHhCcC-HHHHHHHHH-HHHHcCCEEEEEcCCCCEEEEEeccCCCCCHHHHHHHH
Confidence            999999999884  57899999999999997 999999999 99999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 025819          172 QTLSNWLTTSDNLLISIQEKIKW  194 (247)
Q Consensus       172 ~~L~~W~~~~~~vl~~Ie~~i~~  194 (247)
                      ++|..|+++|++++..|+++.+.
T Consensus       368 ~~L~~W~~~v~~l~~~ve~~~~~  390 (393)
T 4b4t_O          368 DRLVEWNDQVEKLGKKMEARGQS  390 (393)
T ss_dssp             -----------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCC
Confidence            99999999999999999987653

>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=99.41  E-value=1e-12  Score=123.15  Aligned_cols=159  Identities=11%  Similarity=0.109  Sum_probs=111.4

Q ss_pred             HHHHHHHHHHhcCCCcccchhhhcCchhhhccCCCchHHHHHHHHHhcCChhhHhhh----hCCCCC---cc---hHHHH
Q 025819           24 AALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKNN----AGHLPQ---LV---PDQVL   93 (247)
Q Consensus        24 ~~a~~lI~~AL~~p~vf~F~eLL~lp~v~~L~~~~~~~~~~LL~iFa~Gt~~dy~~~----~~~l~~---L~---~~~~~   93 (247)
                      ..+.-++..+|..-+.+.+++++..|......+++..|+.+|+..|.+|++..|...    .+.+..   +.   ....+
T Consensus       221 ~~lkYlvL~aLl~~~r~el~~~l~~~~~~~~~~pei~~l~~L~~a~~~~dl~~f~~iL~~~~~~l~~D~~l~~h~~~L~~  300 (394)
T 3txn_A          221 TSLKYMLLCKIMLGQSDDVNQLVSGKLAITYSGRDIDAMKSVAEASHKRSLADFQAALKEYKKELAEDVIVQAHLGTLYD  300 (394)
T ss_dssp             HHHHHHHHHHHHTTCGGGHHHHHHSHHHHTTCSHHHHHHHHHHHHHHTTCHHHHHHHHHHSTTTTTTSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHhccccccccCCccHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcChHHHHHHHHHHH
Confidence            456668888888888999999999887665645457899999999999999999762    232221   11   33467


Q ss_pred             HHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcHHHHHHH
Q 025819           94 KLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQT  173 (247)
Q Consensus        94 KLr~LtllsLa~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~~~~~Rdl~~~q~~~l~~~  173 (247)
                      ++|...++.+..++++|+++.|++.++++ ++++|.+|+ ++|..|.|.|+|||++++|++....+|+   ...+...+.
T Consensus       301 ~Ir~~~L~~i~~pYsrIsl~~iA~~l~ls-~~evE~~L~-~lI~dg~I~a~IDq~~giv~~~~~~~r~---~~y~~ale~  375 (394)
T 3txn_A          301 TMLEQNLCRIIEPYSRVQVAHVAESIQLP-MPQVEKKLS-QMILDKKFSGILDQGEGVLIVFEETPVD---KTYERVLET  375 (394)
T ss_dssp             HHHHHHHHHHHTTCSEEEHHHHHHHHTCC-HHHHHHHHH-HHHHTTSSCEEEETTTTEEEECCC----------------
T ss_pred             HHHHHHHHHHhHhhceeeHHHHHHHHCcC-HHHHHHHHH-HHHHCCCeeEEEcCCCCEEEECCCcchh---hHHHHHHHH
Confidence            89999999999999999999999999997 999999999 9999999999999999999998766665   445566789


Q ss_pred             HHHHHHHHHHHHHH
Q 025819          174 LSNWLTTSDNLLIS  187 (247)
Q Consensus       174 L~~W~~~~~~vl~~  187 (247)
                      +..|...++.++..
T Consensus       376 l~~ls~vVd~L~~~  389 (394)
T 3txn_A          376 IQSMGKVVDTLYQK  389 (394)
T ss_dssp             --------------
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999988877653

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

Probab=98.98  E-value=1.1e-09  Score=103.42  Aligned_cols=162  Identities=14%  Similarity=0.154  Sum_probs=99.0

Q ss_pred             HHHHHHHHHHhcCCCcccchhhhcCchhhhccCCCchHHHHHHHHHhcCChhhHhh----hhCCCC--------Cc----
Q 025819           24 AALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKN----NAGHLP--------QL----   87 (247)
Q Consensus        24 ~~a~~lI~~AL~~p~vf~F~eLL~lp~v~~L~~~~~~~~~~LL~iFa~Gt~~dy~~----~~~~l~--------~L----   87 (247)
                      .+...+|...+.+|..-.++.++.-+.... ...+.+.+..|+.+|..+.+..|..    +...+.        ..    
T Consensus       259 ~~L~~~v~~~iLa~~~~~~~~ll~~~~~~~-~~~~l~~~~~L~k~f~~~~L~~~~~~~~~~~~~L~~~~~~~~~~~~~~~  337 (445)
T 4b4t_P          259 PVLSHIVYFLVLSPYGNLQNDLIHKIQNDN-NLKKLESQESLVKLFTTNELMRWPIVQKTYEPVLNEDDLAFGGEANKHH  337 (445)
T ss_dssp             HHHHHHHHHHHHSSCSSTTHHHHHSHHHHS-SCHHHHHHHHHHHHHHHCCSSSHHHHHHHTCSSTTTCCSSCCCSCSSHH
T ss_pred             HHHHHHHHHHHhCCCCchHHHHHHHHhhcc-cccccHHHHHHHHHHHhchHhhhHHHHHHHHHHhcccchhhhcchhhHH
Confidence            355667778888888888888886543221 1123568899999999999887764    222111        01    


Q ss_pred             chHHHHHHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcH
Q 025819           88 VPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQL  167 (247)
Q Consensus        88 ~~~~~~KLr~LtllsLa~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~~~~~Rdl~~~q~  167 (247)
                      -....+.++...|..++..++.|+++.|++.|+++ ++++|.++. ++|..|.|.|+|||++|+|++....+        
T Consensus       338 ~~~L~~~v~ehnl~~i~k~Ys~I~l~~la~lL~l~-~~evE~~ls-~mI~~g~i~akIDq~~giV~F~~~~~--------  407 (445)
T 4b4t_P          338 WEDLQKRVIEHNLRVISEYYSRITLLRLNELLDLT-ESQTETYIS-DLVNQGIIYAKVNRPAKIVNFEKPKN--------  407 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHHEEEEEHHHHHHHHTSC-HHHHHHHHH-HHHHHTSSCCEEETTTTEEEC-------------
T ss_pred             HHHHHHHHHHHHHHHHHHHhceeeHHHHHHHhCcC-HHHHHHHHH-HHHHCCCEEEEEcCCCCEEEECCCCC--------
Confidence            13345677778899999999999999999999998 999999999 99999999999999999887654322        


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 025819          168 GSMIQTLSNWLTTSDNLLISIQEKIKWADSM  198 (247)
Q Consensus       168 ~~l~~~L~~W~~~~~~vl~~Ie~~i~~a~~~  198 (247)
                        -.+.|..|..++++++..|+.-.+-.+++
T Consensus       408 --~~~~l~~W~~~i~~l~~~v~k~~~lI~kE  436 (445)
T 4b4t_P          408 --SSQLLNEWSHNVDELLEHIETIGHLITKE  436 (445)
T ss_dssp             -------------------------------
T ss_pred             --hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence              23578999999999999987655555543

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

Probab=98.81  E-value=1.8e-08  Score=94.51  Aligned_cols=135  Identities=13%  Similarity=0.121  Sum_probs=97.5

Q ss_pred             HHHHHHHHHhcCCCcccc-hhhhcCchhhhc-cCCC-chHHHHHHHHHhcCChhhHhhh-----hCC------CCCcchH
Q 025819           25 ALGSVIVEATSQPSLFAF-SEILAVPNIAEF-EGTE-NSKYLDMLRLFAHGTWSDYKNN-----AGH------LPQLVPD   90 (247)
Q Consensus        25 ~a~~lI~~AL~~p~vf~F-~eLL~lp~v~~L-~~~~-~~~~~~LL~iFa~Gt~~dy~~~-----~~~------l~~L~~~   90 (247)
                      .+.-.+.-++..++.-.+ ..++.-|.+... ...| ..++.+++..|-.+.+..|...     ...      +.+-...
T Consensus       249 ~~~y~~l~al~~~~r~~l~~~v~~~~~~~~~l~~~p~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~d~~l~~h~~~  328 (429)
T 4b4t_R          249 IATYASVTGLFTLERTDLKSKVIDSPELLSLISTTAALQSISSLTISLYASDYASYFPYLLETYANVLIPCKYLNRHADF  328 (429)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHSSSSSHHHHHGGGSHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHSTTTTTCTTSTTTHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHhcCHHHHhhccCChhHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhccCHHHHHHHHH
Confidence            344555555555544332 235566665543 3333 3567788888888888886431     111      2222355


Q ss_pred             HHHHHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCC
Q 025819           91 QVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRD  161 (247)
Q Consensus        91 ~~~KLr~LtllsLa~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~~~~~Rd  161 (247)
                      ..+.+|...++.++.++++|+++.+++.+|++ +.++|.++. +.|..|-|.|||||++|+|++....+|.
T Consensus       329 l~~~ir~~~l~q~~~~Ys~I~l~~mA~~l~~s-~~~~E~~L~-~lI~~g~l~akID~~~giv~~~~~d~~~  397 (429)
T 4b4t_R          329 FVREMRRKVYAQLLESYKTLSLKSMASAFGVS-VAFLDNDLG-KFIPNKQLNCVIDRVNGIVETNRPDNKN  397 (429)
T ss_dssp             HHHHHHHHHHHHHHHTCSEEEHHHHHHHHTSC-HHHHHHHHH-HHHHHTSSCEEEETTTTEEEECC-----
T ss_pred             HHHHHHHHHHHHHhHHhceeeHHHHHHHhCcC-HHHHHHHHH-HHHHcCCeEEEEcCCCCEEEECCCCchh
Confidence            68999999999999999999999999999998 999999999 9999999999999999999988776664

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

Probab=98.56  E-value=2.8e-08  Score=85.04  Aligned_cols=97  Identities=18%  Similarity=0.236  Sum_probs=77.0

Q ss_pred             hHHHHHHHHHhcCChhhHhhh----hCCCC-CcchHHHHHHHHHHhhhccc------CCcccChHHHHHHcCCC-----C
Q 025819           60 SKYLDMLRLFAHGTWSDYKNN----AGHLP-QLVPDQVLKLKQLTVLTLAE------TNKVLPYDELMEELDVT-----N  123 (247)
Q Consensus        60 ~~~~~LL~iFa~Gt~~dy~~~----~~~l~-~L~~~~~~KLr~LtllsLa~------~~k~Isy~~I~~~L~I~-----~  123 (247)
                      ..+.+|..++..||+..|.+.    .+.+. .-.-..+.|+|.+.+..|..      ++..||++.|+.+|++.     +
T Consensus        81 ~~y~~L~~Avr~Gdl~~f~~~l~~~~~~f~~~~~~lll~rlr~~v~r~l~rkv~~~~~~~rI~l~~i~~~l~~~~~~~~~  160 (203)
T 3t5x_A           81 MQFAEVTRAVSEGNLLLLHEALAKHEAFFIRCGIFLILEKLKIITYRNLFKKVYLLLKTHQLSLDAFLVALKFMQVEDVD  160 (203)
T ss_dssp             GGGHHHHHHHHHTCHHHHHHHHHHTHHHHHHHTCHHHHHTHHHHHHHHHHHHHHHHHCCSEEEHHHHHHHHHHTTCTTCC
T ss_pred             hHHHHHHHHHHhCCHHHHHHHHHHhHHHHHHCChHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHhcCCCCCC
Confidence            368899999999999999862    22111 11112367888888877765      68899999999999652     4


Q ss_pred             hHHHHHHHHHHhHhcCccEEEecCCCCEEEEEee
Q 025819          124 VRELEDFLINECMYTGIVRGKLDQLRRCFEVQFA  157 (247)
Q Consensus       124 ~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~~~  157 (247)
                      .+|||.+|. .+|+.|.|+|+||+.++++.++..
T Consensus       161 ~~evE~ila-~lI~~G~Ikg~I~~~~~~lVlsk~  193 (203)
T 3t5x_A          161 IDEVQCILA-NLIYMGHVKGYISHQHQKLVVSKQ  193 (203)
T ss_dssp             HHHHHHHHH-HHHHHTSSCEEEETTTTEEEECSS
T ss_pred             HHHHHHHHH-HHHHcCceEEEEcccccEEEECCC
Confidence            899999999 899999999999999999988754

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

Probab=98.54  E-value=7e-08  Score=86.55  Aligned_cols=122  Identities=13%  Similarity=0.117  Sum_probs=79.5

Q ss_pred             chHHHHHHHHHhcCChhhHhhhhC----CCCC------cchHHHHHHHHHHhhhcccCCcccChHHHHHHcCCCChHHHH
Q 025819           59 NSKYLDMLRLFAHGTWSDYKNNAG----HLPQ------LVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELE  128 (247)
Q Consensus        59 ~~~~~~LL~iFa~Gt~~dy~~~~~----~l~~------L~~~~~~KLr~LtllsLa~~~k~Isy~~I~~~L~I~~~~evE  128 (247)
                      ..++..++..|..+++..|.....    .+..      ......+.++...+..++..++.|+++.|++.|+++ ++++|
T Consensus       296 ~~~~~~l~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~l~~~~~~y~~i~l~~la~~l~~~-~~~~E  374 (434)
T 4b4t_Q          296 IDAMKAVAEAYNNRSLLDFNTALKQYEKELMGDELTRSHFNALYDTLLESNLCKIIEPFECVEISHISKIIGLD-TQQVE  374 (434)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHTHHHHTCSHHHHHHHHHHHHHHHHHHHHHHHSSCSCEEHHHHHHHHTCC-HHHHH
T ss_pred             hhHHHHHHHHHHhhhHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHhCcC-HHHHH
Confidence            567889999999999999876321    1111      123345678888899999999999999999999997 99999


Q ss_pred             HHHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025819          129 DFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQEKI  192 (247)
Q Consensus       129 ~llI~~aI~~glI~GkIDQ~~~~v~V~~~~~Rdl~~~q~~~l~~~L~~W~~~~~~vl~~Ie~~i  192 (247)
                      .+|. ++|..|.|.|+|||.+++|.+.....++          .....|.+.++++...|+...
T Consensus       375 ~~l~-~lI~~~~i~a~id~~~g~v~~~~~~~~~----------~~~~~~l~~~~~l~~~vd~L~  427 (434)
T 4b4t_Q          375 GKLS-QMILDKIFYGVLDQGNGWLYVYETPNQD----------ATYDSALELVGQLNKVVDQLF  427 (434)
T ss_dssp             HHHH-HHHHHTSSCCEEETTTTEEECC-------------------------------------
T ss_pred             HHHH-HHHhCCCcceecccccCeEeeCCCcchh----------HHHHHHHHHHHHHHHHHHHHH
Confidence            9999 9999999999999999999986554443          234555555555555555433

>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=98.36  E-value=9.4e-07  Score=65.61  Aligned_cols=63  Identities=14%  Similarity=0.257  Sum_probs=54.5

Q ss_pred             HHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeec
Q 025819           94 KLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAA  158 (247)
Q Consensus        94 KLr~LtllsLa~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~~~~  158 (247)
                      ++..-.|..+++.++.|+++.|++.++++ .+++|.++. ++|..|-|.|+|||++++|.+....
T Consensus        15 ~v~E~nl~~is~~Y~~Isl~~La~ll~ls-~~~vE~~ls-~mI~~~~l~akIDq~~g~V~f~~~e   77 (84)
T 1ufm_A           15 AVIEHNLLSASKLYNNITFEELGALLEIP-AAKAEKIAS-QMITEGRMNGFIDQIDGIVHFETRE   77 (84)
T ss_dssp             HHHHHHHHHHHHSCSEEEHHHHHHHTTSC-HHHHHHHHH-HHHHTTSSCEEEETTTTEEEECCSS
T ss_pred             HHHHHHHHHHHHhcCeeeHHHHHHHHCcC-HHHHHHHHH-HHHhCCcEEEEEeCCCCEEEeCCcc
Confidence            34444455677899999999999999998 999999999 9999999999999999999875433

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

Probab=98.05  E-value=2.1e-06  Score=82.93  Aligned_cols=94  Identities=12%  Similarity=0.239  Sum_probs=71.8

Q ss_pred             hHHHHHHHHHhcCChhhHhhh----hCCC-CCcchHHHHHHHHH----HhhhcccCCcccChHHHHHHcCCCChHHHHHH
Q 025819           60 SKYLDMLRLFAHGTWSDYKNN----AGHL-PQLVPDQVLKLKQL----TVLTLAETNKVLPYDELMEELDVTNVRELEDF  130 (247)
Q Consensus        60 ~~~~~LL~iFa~Gt~~dy~~~----~~~l-~~L~~~~~~KLr~L----tllsLa~~~k~Isy~~I~~~L~I~~~~evE~l  130 (247)
                      .+|+.|..+|..|++..|.+.    ...+ ..=+-..+.++|+.    .|..+...+..||+++|+..|++++.+++|.+
T Consensus       343 ~pY~~Lv~Avr~GdL~~F~~~L~~h~~~F~~Dgty~LI~rLr~~vir~~irkis~~YsrIsL~dIa~kL~L~s~eeaE~i  422 (523)
T 4b4t_S          343 LPYYHLTKAVKLGDLKKFTSTITKYKQLLLKDDTYQLCVRLRSNVIKTGIRIISLTYKKISLRDICLKLNLDSEQTVEYM  422 (523)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHTHHHHHHTTCTHHHHHHHHHHHHHHHHHSCCCSSEECHHHHHHHHHHHHSSCHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhcceeccCChhHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHhCCCCHHHHHHH
Confidence            579999999999999999862    1111 11111223444443    34556667899999999999999878899999


Q ss_pred             HHHHhHhcCccEEEecCCCCEEEE
Q 025819          131 LINECMYTGIVRGKLDQLRRCFEV  154 (247)
Q Consensus       131 lI~~aI~~glI~GkIDQ~~~~v~V  154 (247)
                      |- ++|+.|.|+|+|||.++.|..
T Consensus       423 VA-kmI~dG~I~A~Idh~~g~v~s  445 (523)
T 4b4t_S          423 VS-RAIRDGVIEAKINHEDGFIET  445 (523)
T ss_dssp             HH-HHHHHTSSCCEECTTTCCEEC
T ss_pred             HH-HHHHcCCceEEEecCCCEEEe
Confidence            99 999999999999999997653

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

Probab=97.60  E-value=2.6e-05  Score=74.19  Aligned_cols=95  Identities=17%  Similarity=0.180  Sum_probs=72.3

Q ss_pred             HHHHHHHHhcCChhhHhhh----hCCC-CCcc-hHHHHHHHHHHhhhcc----------cCCcccChHHHHHHcCC----
Q 025819           62 YLDMLRLFAHGTWSDYKNN----AGHL-PQLV-PDQVLKLKQLTVLTLA----------ETNKVLPYDELMEELDV----  121 (247)
Q Consensus        62 ~~~LL~iFa~Gt~~dy~~~----~~~l-~~L~-~~~~~KLr~LtllsLa----------~~~k~Isy~~I~~~L~I----  121 (247)
                      +..|..++..||+..|.+.    ...+ ..-. --.+.|+|++++-.|.          .+...||++.|+.+|++    
T Consensus       299 y~~L~~AVr~Gdl~~F~~~L~~~~~~f~~~gily~LlerLr~~v~RnLirkv~~~~~~~~~~srI~l~~i~~aL~~~~~~  378 (455)
T 3t5v_B          299 WSVLYKHVRYGNIQGVSLWLRQNERHLCARQLLIVLLEKLPMVTYRNLIKTVIKSWTTEWGQNKLPYSLIERVLQLSIGP  378 (455)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHTHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHTTTTCCCEEEHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHhHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCeeeHHHHHHHHhhccCc
Confidence            7889999999999999862    2211 1112 3345677776543332          23379999999999984    


Q ss_pred             ----------------CChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEee
Q 025819          122 ----------------TNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFA  157 (247)
Q Consensus       122 ----------------~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~~~  157 (247)
                                      .+.+|||-++. .+|+.|+|+|+||+.++++.+...
T Consensus       379 ~~~~~~~~~~~~~~~~~~~devEcIlA-~LI~~G~IkGyIsh~~~~lVlSK~  429 (455)
T 3t5v_B          379 TFEDPGAQEITIYNGIHSPKNVENVLV-TLINLGLLRANCFPQLQLCVVKKT  429 (455)
T ss_dssp             CTTSTTCCCCCTTTSSCCSSCHHHHHH-HHHHHTSCCEEEETTTTEEEECCC
T ss_pred             cccccccccccccccCCCHHHHHHHHH-HHHHcCCeEEEEecCCCEEEECCC
Confidence                            24889999999 899999999999999999998765

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

Probab=93.81  E-value=0.089  Score=45.12  Aligned_cols=100  Identities=14%  Similarity=0.156  Sum_probs=69.7

Q ss_pred             hcCCCcccchhhh-cCchhhhccCCC-chHHHHHHHHHhcCChhhHhhhhCCCCC-----cchHHHHHHHHHHhhhcccC
Q 025819           34 TSQPSLFAFSEIL-AVPNIAEFEGTE-NSKYLDMLRLFAHGTWSDYKNNAGHLPQ-----LVPDQVLKLKQLTVLTLAET  106 (247)
Q Consensus        34 L~~p~vf~F~eLL-~lp~v~~L~~~~-~~~~~~LL~iFa~Gt~~dy~~~~~~l~~-----L~~~~~~KLr~LtllsLa~~  106 (247)
                      |.-.++-.|.-.+ .+|.-..+++++ -...+++-+.+..|+|..|-......|.     +.+-...++|.-++-+++..
T Consensus       108 L~~~~~~ef~~~le~l~~~~~~~~~~~I~~al~l~~al~~GnY~kff~l~~~~p~~~~~~~~~~l~~~vR~~~l~~i~ka  187 (229)
T 4b0z_A          108 LSENRIAEFHTALESVPDKSLFERDPYVEWVISLEQNVMEGAFDKVASMIRSCNFPEFSYFMKIVMSMVRNEIATCAEKV  187 (229)
T ss_dssp             HHTTCHHHHHHHHHHCSCTTHHHHCHHHHHHHHHHHHHHTTCHHHHHHHHHTCCCGGGHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHcCCchHHHHHHHhcChHHHhhcCHHHHHHHHHHHHHHcCCHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444454554333 233222233333 2456789999999999998764444443     22445788998888888888


Q ss_pred             CcccChHHHHHHcCCCChHHHHHHHHHH
Q 025819          107 NKVLPYDELMEELDVTNVRELEDFLINE  134 (247)
Q Consensus       107 ~k~Isy~~I~~~L~I~~~~evE~llI~~  134 (247)
                      +..||.+++++.|+++|.++++.++- +
T Consensus       188 Y~~i~l~~~~~~L~f~s~~e~~~f~~-~  214 (229)
T 4b0z_A          188 YSEIPLSNATSLLYLENTKETEKLAE-E  214 (229)
T ss_dssp             CSEEEHHHHHHHTTCSSHHHHHHHHH-H
T ss_pred             cCCCCHHHHHHHhCCCCHHHHHHHHH-H
Confidence            89999999999999999999999988 6

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

Probab=92.71  E-value=0.13  Score=36.66  Aligned_cols=54  Identities=11%  Similarity=0.280  Sum_probs=46.9

Q ss_pred             hhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEE
Q 025819          100 VLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQ  155 (247)
Q Consensus       100 llsLa~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~  155 (247)
                      ++.....+|+++.++||.++++. ..++-+-|- +....|.|.|-||...+-++|+
T Consensus        12 Fi~yIk~~Kvv~LedLA~~F~l~-t~~~i~RI~-~Le~~g~ltGViDDRGKfIyIs   65 (72)
T 1wi9_A           12 FINYIKKSKVVLLEDLAFQMGLR-TQDAINRIQ-DLLTEGTLTGVIDDRGKFIYIT   65 (72)
T ss_dssp             HHHHHHHCSEECHHHHHHHHCSC-HHHHHHHHH-HHHHHSSSCEEECTTCCEEECC
T ss_pred             HHHHHHHcCeeeHHHHHHHhCCC-hHHHHHHHH-HHHHCCCeEEEEeCCCCEEEec
Confidence            45556678999999999999998 777777777 8888999999999999999886

>3df8_A Possible HXLR family transcriptional factor; APC89000, structural genomics, midwest center for structural genomics, MCSG; 1.65A {Thermoplasma volcanium} SCOP: a.4.5.0

Probab=87.43  E-value=2.7  Score=31.38  Aligned_cols=80  Identities=11%  Similarity=0.218  Sum_probs=52.2

Q ss_pred             HHHHHHhhhcccCCcccChHHHHHHc-CCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcHHHHHH
Q 025819           94 KLKQLTVLTLAETNKVLPYDELMEEL-DVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQ  172 (247)
Q Consensus        94 KLr~LtllsLa~~~k~Isy~~I~~~L-~I~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~~~~~Rdl~~~q~~~l~~  172 (247)
                      |-|.+.|..|......++|.+|++.+ +|+ ..-|=.-+= ..-..|+|.-+.+  .++.+--...|+.     +-....
T Consensus        27 ~wrl~IL~~L~~g~~~~~~~eL~~~l~gis-~~~ls~~L~-~Le~~GlV~r~~~--r~~~y~LT~~G~~-----l~~~l~   97 (111)
T 3df8_A           27 KYTMLIISVLGNGSTRQNFNDIRSSIPGIS-STILSRRIK-DLIDSGLVERRSG--QITTYALTEKGMN-----VRNSLM   97 (111)
T ss_dssp             TTHHHHHHHHTSSSSCBCHHHHHHTSTTCC-HHHHHHHHH-HHHHTTSEEEEES--SSEEEEECHHHHH-----HHHHHH
T ss_pred             ccHHHHHHHHhcCCCCCCHHHHHHHccCCC-HHHHHHHHH-HHHHCCCEEEeec--CcEEEEECccHHH-----HHHHHH
Confidence            44554455555444456799999999 897 777776666 7788999999888  2222211223332     445677


Q ss_pred             HHHHHHHHHH
Q 025819          173 TLSNWLTTSD  182 (247)
Q Consensus       173 ~L~~W~~~~~  182 (247)
                      .+..|....+
T Consensus        98 ~l~~w~~~~~  107 (111)
T 3df8_A           98 PLLQYISVLD  107 (111)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhc
Confidence            7888887544

>2hzt_A Putative HTH-type transcriptional regulator YTCD; DNA-binding protein, HTH-type transcription regulators, structural genomics, PSI-2; HET: CSU MSE; 2.00A {Bacillus subtilis} SCOP: a.4.5.69

Probab=87.04  E-value=4.9  Score=29.48  Aligned_cols=70  Identities=14%  Similarity=0.090  Sum_probs=48.9

Q ss_pred             CcccChHHHHHHc-CCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcHHHHHHHHHHHHHHH
Q 025819          107 NKVLPYDELMEEL-DVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTS  181 (247)
Q Consensus       107 ~k~Isy~~I~~~L-~I~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~~~~~Rdl~~~q~~~l~~~L~~W~~~~  181 (247)
                      ....++.+|++.+ +++ ...|=..|= .....|+|..+-+..++....-+..+.  + .++-.....+..|....
T Consensus        25 ~~~~~~~eLa~~l~~is-~~tls~~L~-~Le~~GlI~r~~~~~d~r~~~y~LT~~--G-~~l~~~~~~l~~w~~~~   95 (107)
T 2hzt_A           25 HGKKRTSELKRLMPNIT-QKMLTQQLR-ELEADGVINRIVYNQVPPKVEYELSEY--G-RSLEGILDMLXAWGANH   95 (107)
T ss_dssp             TCCBCHHHHHHHCTTSC-HHHHHHHHH-HHHHTTSEEEEEECSSSCEEEEEECTT--G-GGGHHHHHHHHHHHHHH
T ss_pred             hCCCCHHHHHHHhcCCC-HHHHHHHHH-HHHHCCCEEEeecCCCCCeEEEEECcc--H-HHHHHHHHHHHHHHHHh
Confidence            3578999999999 997 777777666 788899999998876654433333332  1 22445567778887543

>1qbj_A Protein (double-stranded RNA specific adenosine D (ADAR1)); protein-Z-DNA complex, hydrolase-DNA complex; HET: DNA; 2.10A {Homo sapiens} SCOP: a.4.5.19 PDB: 3f21_A* 3f22_A* 3f23_A* 3irr_A* 3irq_D* 2gxb_A 2acj_A 2l54_A

Probab=84.01  E-value=2.8  Score=30.04  Aligned_cols=58  Identities=14%  Similarity=0.183  Sum_probs=41.4

Q ss_pred             HHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEE
Q 025819           94 KLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEV  154 (247)
Q Consensus        94 KLr~LtllsLa~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V  154 (247)
                      ..+.|.++.-..+++.+++.+|++.|+++ ...|...|- +....|+|.-. +...+.-.|
T Consensus        12 ~~~IL~~L~~~~pg~~~t~~eLA~~Lgvs-r~tV~~~L~-~Le~~G~I~~~-g~~~~~W~i   69 (81)
T 1qbj_A           12 EQRILKFLEELGEGKATTAHDLSGKLGTP-KKEINRVLY-SLAKKGKLQKE-AGTPPLWKI   69 (81)
T ss_dssp             HHHHHHHHHHHCTTCCBCHHHHHHHHTCC-HHHHHHHHH-HHHHTTSEEEE-SSSSCEEEE
T ss_pred             HHHHHHHHHHcCCCCCcCHHHHHHHHCcC-HHHHHHHHH-HHHHCCCEEec-CCCCCeeEE
Confidence            33445555533456799999999999998 899999988 88889998643 344444444

>1i1g_A Transcriptional regulator LRPA; helix-turn-helix, LRP/ASNC family; 2.90A {Pyrococcus furiosus} SCOP: a.4.5.32 d.58.4.2

Probab=83.18  E-value=0.94  Score=34.72  Aligned_cols=71  Identities=15%  Similarity=0.320  Sum_probs=43.7

Q ss_pred             CCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEE---ecCCCCEEEEEeecCCCCCCCcHHHHHHHHHHHH
Q 025819          106 TNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGK---LDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWL  178 (247)
Q Consensus       106 ~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~Gk---IDQ~~~~v~V~~~~~Rdl~~~q~~~l~~~L~~W~  178 (247)
                      .+..+|+.+|++.++++ ...+=..+= .....|+|.+.   +|...--..++....-.+.+.....+.+.|..|-
T Consensus        15 ~~~~~~~~ela~~lg~s-~~tv~~~l~-~L~~~G~i~~~~~~~~~~~~g~~~~~~v~~~~~~~~~~~~~~~l~~~~   88 (141)
T 1i1g_A           15 KDARTPFTEIAKKLGIS-ETAVRKRVK-ALEEKGIIEGYTIKINPKKLGYSLVTITGVDTKPEKLFEVAEKLKEYD   88 (141)
T ss_dssp             HCTTCCHHHHHHHHTSC-HHHHHHHHH-HHHHHTSSCCCCCCCCSGGGTCCEEEEEEEEECGGGHHHHHHHHHHST
T ss_pred             HcCCCCHHHHHHHHCcC-HHHHHHHHH-HHHHCCCEeccccccChHHhCccEEEEEEEEECchhHHHHHHHHhcCC
Confidence            34568999999999997 777766666 77788999765   3432211111111000123456777777777774

>3r0a_A Putative transcriptional regulator; structural genomics, PSI-biology, midwest center for structu genomics, MCSG; 2.31A {Methanosarcina mazei}

Probab=82.43  E-value=2.5  Score=32.11  Aligned_cols=81  Identities=11%  Similarity=0.114  Sum_probs=55.9

Q ss_pred             hcccCCcc-cChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCC--CCEEEEEeecCCCCCCCc-HHHHHHHHHHH
Q 025819          102 TLAETNKV-LPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQL--RRCFEVQFAAGRDLRPGQ-LGSMIQTLSNW  177 (247)
Q Consensus       102 sLa~~~k~-Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~GkIDQ~--~~~v~V~~~~~Rdl~~~q-~~~l~~~L~~W  177 (247)
                      .|...... ++-.+|++.++++ ...|-..|= .....|+|...-+..  .+..++-.+.+    +.+ .+.+...+..|
T Consensus        34 ~L~~~~~~~~t~~eLa~~l~~s-~sTV~r~L~-~L~~~GlV~r~~~~~d~~~~~~~y~~~~----~~~~~~~i~~~~~~~  107 (123)
T 3r0a_A           34 SFLNEPDRWIDTDALSKSLKLD-VSTVQRSVK-KLHEKEILQRSQQNLDGGGYVYIYKIYS----KNQIRNIIQKIVQSW  107 (123)
T ss_dssp             HHHHSTTCCEEHHHHHHHHTSC-HHHHHHHHH-HHHHTTSEEEEEEECTTSCEEEEEEECC----HHHHHHHHHHHHHHH
T ss_pred             HHHHCCCCCcCHHHHHHHHCcC-HHHHHHHHH-HHHHCCCEEeeCCccCCCcceEEEecCC----HHHHHHHHHHHHHHH
Confidence            34445555 9999999999997 788887766 788899998765443  23333333322    233 45678899999


Q ss_pred             HHHHHHHHHHH
Q 025819          178 LTTSDNLLISI  188 (247)
Q Consensus       178 ~~~~~~vl~~I  188 (247)
                      .+.+...++.+
T Consensus       108 ~~~~~~~l~~~  118 (123)
T 3r0a_A          108 ADRLGQELKEW  118 (123)
T ss_dssp             HHHHHHTTTTT
T ss_pred             HHHHHHHHHHH
Confidence            99888766544

>1qgp_A Protein (double stranded RNA adenosine deaminase); Z-alpha-Z-DNA binding domain, RNA-editing, Z-DNA recognition, ADAR1, helix- turn-helix; NMR {Homo sapiens} SCOP: a.4.5.19

Probab=80.79  E-value=3.7  Score=28.93  Aligned_cols=48  Identities=17%  Similarity=0.201  Sum_probs=37.8

Q ss_pred             HHHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEe
Q 025819           96 KQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKL  145 (247)
Q Consensus        96 r~LtllsLa~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~GkI  145 (247)
                      +.|.++.-...+..+++.+||+.|+++ ...|...|= .....|+|.+.-
T Consensus        18 ~IL~~L~~~~~~~~~t~~eLA~~Lgvs-~~tV~~~L~-~L~~~G~I~~~g   65 (77)
T 1qgp_A           18 RILKFLEELGEGKATTAHDLSGKLGTP-KKEINRVLY-SLAKKGKLQKEA   65 (77)
T ss_dssp             HHHHHHHHHCSSSCEEHHHHHHHHCCC-HHHHHHHHH-HHHHHTSEEEEC
T ss_pred             HHHHHHHHcCCCCCcCHHHHHHHHCcC-HHHHHHHHH-HHHHCCCEEecC
Confidence            344444444446689999999999998 899999877 888999998864

---

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	247
d1ufma_	84	COP9 signalosome complex subunit 4, GSN4 {Mouse (M	98.44
d1wi9a_	72	Hypothetical protein C20orf116 homolog {Mouse (Mus	90.95
d2cfxa1	63	Transcriptional regulator LrpC {Bacillus subtilis	89.59
d2cg4a1	63	Regulatory protein AsnC {Escherichia coli [TaxId:	88.99
d2cyya1	60	Putative transcriptional regulator PH1519 {Archaeo	88.14
d1ub9a_	100	Hypothetical protein PH1061 {Archaeon Pyrococcus h	88.09
d1i1ga1	60	LprA {Archaeon Pyrococcus furiosus [TaxId: 2261]}	88.08

>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=98.44  E-value=2.3e-07  Score=67.16  Aligned_cols=63  Identities=14%  Similarity=0.245  Sum_probs=56.3

Q ss_pred             HHHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEee
Q 025819           93 LKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFA  157 (247)
Q Consensus        93 ~KLr~LtllsLa~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~~~  157 (247)
                      +.++...|..++..+.+|+++.|++.|+++ .+++|.+|. ++|..|-|.|+|||.+++|+++.-
T Consensus        14 ~~i~Ehni~~is~~Y~~Isl~~la~~l~l~-~~evE~~l~-~mI~~~~i~akIDq~~g~V~F~~~   76 (84)
T d1ufma_          14 RAVIEHNLLSASKLYNNITFEELGALLEIP-AAKAEKIAS-QMITEGRMNGFIDQIDGIVHFETR   76 (84)
T ss_dssp             HHHHHHHHHHHHHSCSEEEHHHHHHHTTSC-HHHHHHHHH-HHHHTTSSCEEEETTTTEEEECCS
T ss_pred             HHHHHHHHHHHHHhhceeeHHHHHHHHCCC-HHHHHHHHH-HHHhcCeEEEEEeCCCCEEEECCC
Confidence            345666677788899999999999999997 999999999 999999999999999999988754

>d1wi9a_ a.4.5.47 (A:) Hypothetical protein C20orf116 homolog {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: Hypothetical protein C20orf116 homolog
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.95  E-value=0.13  Score=35.00  Aligned_cols=58  Identities=10%  Similarity=0.239  Sum_probs=47.4

Q ss_pred             hhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecC
Q 025819          100 VLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAG  159 (247)
Q Consensus       100 llsLa~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~~~~~  159 (247)
                      ++..+...|+++.++|+.+.++. ..++=+-|- +....|.|.|-||...+-++|+-+-|
T Consensus        12 FI~~Ik~~Kvv~LedLAa~F~lk-tqd~i~RIq-~Le~~g~ltGViDDRGKfIyIS~s~~   69 (72)
T d1wi9a_          12 FINYIKKSKVVLLEDLAFQMGLR-TQDAINRIQ-DLLTEGTLTGVIDDRGKFIYITPSGP   69 (72)
T ss_dssp             HHHHHHHCSEECHHHHHHHHCSC-HHHHHHHHH-HHHHHSSSCEEECTTCCEEECCCSSC
T ss_pred             HHHHHHHCCEeeHHHHHHHcCCc-HHHHHHHHH-HHHHCCCeeeEEcCCCCEEEEcCCCC
Confidence            34445678999999999999998 666656666 78889999999999999999875543

>d2cfxa1 a.4.5.32 (A:1-63) Transcriptional regulator LrpC {Bacillus subtilis [TaxId: 1423]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Lrp/AsnC-like transcriptional regulator N-terminal domain
domain: Transcriptional regulator LrpC
species: Bacillus subtilis [TaxId: 1423]

Probab=89.59  E-value=0.15  Score=33.32  Aligned_cols=42  Identities=12%  Similarity=0.218  Sum_probs=34.8

Q ss_pred             hhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEE
Q 025819          100 VLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRG  143 (247)
Q Consensus       100 llsLa~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~G  143 (247)
                      |+..-..+..+||.+|++.++++ ...|-.-+= +....|+|.|
T Consensus        10 IL~~L~~n~r~s~~~iA~~lgis-~~tv~~Ri~-~L~~~giI~~   51 (63)
T d2cfxa1          10 IIEELKKDSRLSMRELGRKIKLS-PPSVTERVR-QLESFGIIKQ   51 (63)
T ss_dssp             HHHHHHHCSCCCHHHHHHHHTCC-HHHHHHHHH-HHHHTTSEEE
T ss_pred             HHHHHHHcCCCCHHHHHHHHCcC-HHHHHHHHH-HHHHCCCeee
Confidence            34444456788999999999998 899998877 8899999987

>d2cg4a1 a.4.5.32 (A:4-66) Regulatory protein AsnC {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Lrp/AsnC-like transcriptional regulator N-terminal domain
domain: Regulatory protein AsnC
species: Escherichia coli [TaxId: 562]

Probab=88.99  E-value=0.16  Score=33.11  Aligned_cols=43  Identities=21%  Similarity=0.299  Sum_probs=35.7

Q ss_pred             hhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEE
Q 025819          100 VLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGK  144 (247)
Q Consensus       100 llsLa~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~Gk  144 (247)
                      |+.+-..+..+||.+|++.++++ ...|-.-+= +....|+|.|.
T Consensus        10 IL~~L~~~~r~s~~eiA~~l~ls-~~~v~~Ri~-rL~~~GiI~~~   52 (63)
T d2cg4a1          10 ILEALMGNARTAYAELAKQFGVS-PETIHVRVE-KMKQAGIITGA   52 (63)
T ss_dssp             HHHHHHHCTTSCHHHHHHHHTSC-HHHHHHHHH-HHHHHTSEEEE
T ss_pred             HHHHHHHcCCCCHHHHHHHHCcC-HHHHHHHHH-HHHHCCCeEeE
Confidence            44444566889999999999997 899988877 88899999864

>d2cyya1 a.4.5.32 (A:5-64) Putative transcriptional regulator PH1519 {Archaeon Pyrococcus horikoshii [TaxId: 53953]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Lrp/AsnC-like transcriptional regulator N-terminal domain
domain: Putative transcriptional regulator PH1519
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

Probab=88.14  E-value=0.17  Score=32.66  Aligned_cols=42  Identities=7%  Similarity=0.256  Sum_probs=33.9

Q ss_pred             hhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEE
Q 025819          100 VLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRG  143 (247)
Q Consensus       100 llsLa~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~G  143 (247)
                      |+.+-+.+..+||.+|++.|+++ ...|-.-+= +....|+|.|
T Consensus         8 Il~~L~~n~r~s~~eiA~~l~ls-~~~v~~Ri~-~L~~~giI~~   49 (60)
T d2cyya1           8 IIKILQNDGKAPLREISKITGLA-ESTIHERIR-KLRESGVIKK   49 (60)
T ss_dssp             HHHHHHHCTTCCHHHHHHHHCSC-HHHHHHHHH-HHHHHTSSCC
T ss_pred             HHHHHHHcCCCCHHHHHHHHCcC-HHHHHHHHH-HHHHCCCeEe
Confidence            44444567888999999999997 888887766 7778898875

>d1ub9a_ a.4.5.28 (A:) Hypothetical protein PH1061 {Archaeon Pyrococcus horikoshii [TaxId: 53953]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Hypothetical protein PH1061
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

Probab=88.09  E-value=0.63  Score=32.25  Aligned_cols=78  Identities=13%  Similarity=0.176  Sum_probs=50.1

Q ss_pred             hhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcHHHHHHHHHHHHH
Q 025819          100 VLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLT  179 (247)
Q Consensus       100 llsLa~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~GkIDQ~~~~v~V~~~~~Rdl~~~q~~~l~~~L~~W~~  179 (247)
                      |+.+......+++.+|++.++++ ..-|=..+= .....|+|..+-+..++...+-...+.         =.+.+..|..
T Consensus        21 IL~~L~~~~~~~~~eLa~~l~is-~~~vs~~l~-~L~~~glV~~~~~~~d~r~~~~~LT~~---------G~~~~~~~~~   89 (100)
T d1ub9a_          21 IMIFLLPRRKAPFSQIQKVLDLT-PGNLDSHIR-VLERNGLVKTYKVIADRPRTVVEITDF---------GMEEAKRFLS   89 (100)
T ss_dssp             HHHHHHHHSEEEHHHHHHHTTCC-HHHHHHHHH-HHHHTTSEEEEEECSSSCEEEEEECHH---------HHHHHHHHHH
T ss_pred             HHHHhccCCCeeHHHHHHHHhhc-cccccHHHH-HHhhhceeEEEEcCcCCccccccCCHH---------HHHHHHHHHH
Confidence            33333334569999999999997 666655544 777899999988877665444333221         1234556666


Q ss_pred             HHHHHHHHH
Q 025819          180 TSDNLLISI  188 (247)
Q Consensus       180 ~~~~vl~~I  188 (247)
                      .+..++..+
T Consensus        90 ~~~~~~~~l   98 (100)
T d1ub9a_          90 SLKAVIDGL   98 (100)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhh
Confidence            666666554

>d1i1ga1 a.4.5.32 (A:2-61) LprA {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Lrp/AsnC-like transcriptional regulator N-terminal domain
domain: LprA
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=88.08  E-value=0.14  Score=33.10  Aligned_cols=42  Identities=19%  Similarity=0.414  Sum_probs=34.1

Q ss_pred             hhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEE
Q 025819          100 VLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRG  143 (247)
Q Consensus       100 llsLa~~~k~Isy~~I~~~L~I~~~~evE~llI~~aI~~glI~G  143 (247)
                      |+.+-+.+..+||.+|++.++++ ...|-.-+= +....|+|.+
T Consensus         8 Il~~L~~n~r~s~~~lA~~~gls-~~~v~~Ri~-~L~~~giI~~   49 (60)
T d1i1ga1           8 ILEILEKDARTPFTEIAKKLGIS-ETAVRKRVK-ALEEKGIIEG   49 (60)
T ss_dssp             HHHHHHHCTTCCHHHHHHHHTSC-HHHHHHHHH-HHHHHTSSCC
T ss_pred             HHHHHHHcCCCCHHHHHHHHCcC-HHHHHHHHH-HHHHCCCeEe
Confidence            44444567889999999999997 888888777 7888898864