Citrus Sinensis ID: 025901

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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
MDIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSLSHKLHTVSRPTLTAEGTRRSTLNLVE
Secondary Structure (PSIPRED)
ccHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccEEEcHHHHcccccccccccccHHHHHHHHHHHcccHHHHHHHHcccccccHHHHHHHHHHHHHHHHcccccccHHHHHHHcccccHHHHHHHHHHHHHHHcccEEEEcccccEEEEEEEEcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHccccEEEHHHHHccHHHHHHHccccHHHHHHHHHHHHccHHHHHHcccccccccHHHHHHHHHHHHHHHHHccccccHHHHHHHcccccHHHHHHHHHHHHHHHccEEEEccccccEEEEEEcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccc
Coil and Loop (DISEMBL)
MDIEQRQAELIDHFVKQASNQKGAALGSVIVEatsqpslfafseilavpniaefegtenskyLDMLRLFAHGtwsdyknnaghlpqlvpdqvLKLKQLTVLTLAetnkvlpydelmeELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFaagrdlrpgqlgSMIQTLSNWLTTSDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSLSHklhtvsrptltaegtrrstlnlve
Flexible Loop (DISEMBL)
MDIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLaetnkvlpydelMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFaagrdlrpgqLGSMIQTLSNWLTTSDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKkslshklhtvsrptltaegtrrstlnlve
Low Complexity Region (SEG)
MDIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKNNAGHLPQLVPDqvlklkqltvltlAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSLSHKLHTVSRPTLTAEGTRRSTLNLVE
Disordered region (IsUnstruct)
*************F*********AALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQEKIKWA***************************************************
Disordered Region (DISOPRED)
******Q***IDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQE********************************************************
Disordered Region (DISEMBL)
MDIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQEKIKWADSMN*************************HTVSRPTLTAEGTRRSTLNLVE
Disordered Region (DISPRO)
*DIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSLSHK***********************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQEKIKWADSMxxxxxxxxxxxxxxxxxxxxxxxxxxxxVSRPTLTAEGTRRSTLNLVE
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	246	2.2.26 [Sep-21-2011]
Q94JU3	260	COP9 signalosome complex	no	no	0.906	0.857	0.784	1e-101
Q55BD5	259	COP9 signalosome complex	yes	no	0.756	0.718	0.449	3e-43
Q9H9Q2	264	COP9 signalosome complex	yes	no	0.861	0.803	0.356	2e-36
Q8BV13	264	COP9 signalosome complex	yes	no	0.861	0.803	0.356	2e-36
Q2KI56	264	COP9 signalosome complex	yes	no	0.853	0.795	0.360	2e-36
Q9V4S8	278	COP9 signalosome complex	yes	no	0.817	0.723	0.368	1e-33
Q9CZ04	275	COP9 signalosome complex	no	no	0.845	0.756	0.349	4e-32
Q5R762	275	COP9 signalosome complex	no	no	0.845	0.756	0.344	1e-31
Q9UBW8	275	COP9 signalosome complex	no	no	0.845	0.756	0.344	1e-31
Q7SGS1	417	COP9 signalosome complex	N/A	no	0.821	0.484	0.309	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|Q8BV13|CSN7B_MOUSE COP9 signalosome complex subunit 7b OS=Mus musculus 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   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|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|Q9V4S8|CSN7_DROME COP9 signalosome complex subunit 7 OS=Drosophila melanogaster GN=CSN7 PE=1 SV=2

 Score =  143 bits (360), 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 = 73/236 (30%), Positives = 120/236 (50%), Gaps = 34/236 (14%)

Query: 3   IEQRQA-ELIDHFV---KQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGT- 57
           +EQ +A   ++ F+   K A++ + AA   ++   TS P+ F F+E+L  P I   E + 
Sbjct: 1   MEQTKALNALEPFIVLSKSATSPRAAA--DLVTRVTSAPNTFIFTELLQTPQIQSLEYSH 58

Query: 58  ENSKYLDMLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLA------------- 104
           E S YL +L++F+HGT++DY  NA  LP L  DQ LKL+QL++LTL              
Sbjct: 59  EFSSYLTLLQIFSHGTYADYIANASALPALNDDQKLKLRQLSLLTLVANDGSNVPLDYDA 118

Query: 105 ---ETNKVLP----YDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEV-QF 156
              E N+  P    Y  L   L++++ RELE+ +I+  +Y G++ G+LD      ++   
Sbjct: 119 MQRENNQAQPPNQSYASLTRRLELSSARELEELVIS-AIYAGLIEGQLDPANEMVQINSV 177

Query: 157 AAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQEKIKWADSMNEMDKKHRKDLEEK 212
           AA RD+    +  ++ +L  W       L  ++     A   N  D+  R+  EE+
Sbjct: 178 AALRDVPARGVNGLLSSLQGWAGRCQATLQELE-----ATMANLRDEADRRATEEQ 228

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	246
359489202	247	PREDICTED: COP9 signalosome complex subu	1.0	0.995	0.850	1e-113
329025154	247	COP9 complex subunit 7a [Solanum chacoen	1.0	0.995	0.801	1e-112
224067485	225	predicted protein [Populus trichocarpa]	0.910	0.995	0.834	1e-109
255541046	275	cop9 complex subunit 7a, putative [Ricin	0.922	0.825	0.823	1e-108
307136429	225	cop9 complex subunit 7a [Cucumis melo su	0.910	0.995	0.808	1e-105
449445513	259	PREDICTED: COP9 signalosome complex subu	0.906	0.861	0.816	1e-105
224136466	223	predicted protein [Populus trichocarpa]	0.906	1.0	0.820	1e-104
118485804	259	unknown [Populus trichocarpa]	0.906	0.861	0.820	1e-104
147788695	225	hypothetical protein VITISV_024935 [Viti	0.833	0.911	0.858	1e-101
225453392	259	PREDICTED: COP9 signalosome complex subu	0.833	0.791	0.858	1e-101

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

 Score =  414 bits (1064), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 210/247 (85%), Positives = 226/247 (91%), Gaps = 1/247 (0%)

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 SDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSLS-HKLHTVSRPTLTAEGTRR 239
           SDNLL+SIQEKIKWAD+M+E+DKKHRK++EE+VEE KKS S  KLHTVSRPTLT+EGTRR
Sbjct: 181 SDNLLLSIQEKIKWADTMSELDKKHRKEVEERVEEVKKSFSVKKLHTVSRPTLTSEGTRR 240

Query: 240 STLNLVE 246
           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 =  411 bits (1056), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 198/247 (80%), Positives = 224/247 (90%), Gaps = 1/247 (0%)

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 SDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSLS-HKLHTVSRPTLTAEGTRR 239
           SDNLL+SIQEKIKWAD+M+E D+KHRK++EE+V+E KKSLS  KL TVSRP LT+EG RR
Sbjct: 181 SDNLLVSIQEKIKWADTMSESDRKHRKEVEERVDEVKKSLSLKKLQTVSRPMLTSEGMRR 240

Query: 240 STLNLVE 246
           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 (1031), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 187/224 (83%), Positives = 209/224 (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 SDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSLSHKL 224
           SDNLL+SIQEKIKWADSM+E+DKKHRKD++++VEE KKSLS K+
Sbjct: 181 SDNLLVSIQEKIKWADSMSELDKKHRKDVDDRVEEVKKSLSLKV 224

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 =  397 bits (1020), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 187/227 (82%), Positives = 211/227 (92%)

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 SDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSLSHKLHTV 227
           S+NLL+SIQEKIKWAD+M+E+DK+HRKD+E+KVEE KK+LS K+  V
Sbjct: 181 SENLLVSIQEKIKWADTMSELDKRHRKDVEDKVEEVKKTLSLKMELV 227

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 (997), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 181/224 (80%), Positives = 207/224 (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 SDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSLSHKL 224
           SDNLL+SIQEKIKWAD+M+E+DKKHRKD++++VEE KKSLS K+
Sbjct: 181 SDNLLVSIQEKIKWADNMSELDKKHRKDVDDRVEEVKKSLSLKV 224

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 =  387 bits (995), 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 =  384 bits (987), 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 =  382 bits (982), 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 =  372 bits (956), 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	246
TAIR|locus:2205593	260	FUS5 "FUSCA 5" [Arabidopsis th	0.906	0.857	0.730	1.5e-83
DICTYBASE|DDB_G0271282	259	csn7 "proteasome component reg	0.837	0.795	0.400	3.7e-39
UNIPROTKB|Q2KI56	264	COPS7B "COP9 signalosome compl	0.878	0.818	0.325	1.3e-31
UNIPROTKB|E2R501	264	COPS7B "Uncharacterized protei	0.878	0.818	0.325	1.3e-31
UNIPROTKB|Q9H9Q2	264	COPS7B "COP9 signalosome compl	0.878	0.818	0.325	1.3e-31
MGI|MGI:1349388	264	Cops7b "COP9 (constitutive pho	0.878	0.818	0.325	1.6e-31
RGD|1306918	322	Cops7b "COP9 signalosome subun	0.878	0.670	0.321	3.3e-31
UNIPROTKB|E1C3R1	267	COPS7B "Uncharacterized protei	0.878	0.808	0.316	1.8e-30
FB|FBgn0028836	278	CSN7 "COP9 complex homolog sub	0.849	0.751	0.333	5.6e-29
UNIPROTKB|F1NGK0	275	COPS7A "Uncharacterized protei	0.943	0.843	0.306	1.2e-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 = 319 (117.4 bits), Expect = 1.2e-28, P = 1.2e-28
 Identities = 72/235 (30%), Positives = 122/235 (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 IKWADSMNEMDKKHRKDLEEKVEEAKKSLSHKLHTVSRPTLTAEGTRRSTLNLVE 246
             +  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	0.8617	0.8030	yes	no
Q94JU3	CSN7_ARATH	No assigned EC number	0.7847	0.9065	0.8576	no	no
Q9H9Q2	CSN7B_HUMAN	No assigned EC number	0.3568	0.8617	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

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	246
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	246
KOG3250	258	consensus COP9 signalosome, subunit CSN7 [Posttran	100.0
KOG2753	378	consensus Uncharacterized conserved protein, conta	99.98
KOG2908	380	consensus 26S proteasome regulatory complex, subun	99.97
smart00753	88	PAM PCI/PINT associated module.	99.5
smart00088	88	PINT motif in proteasome subunits, Int-6, Nip-1 an	99.5
PF01399	105	PCI: PCI domain; InterPro: IPR000717 A homology do	99.49
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	98.65
KOG2581	493	consensus 26S proteasome regulatory complex, subun	97.71
KOG1498	439	consensus 26S proteasome regulatory complex, subun	96.19
KOG2758	432	consensus Translation initiation factor 3, subunit	96.06
KOG1497	399	consensus COP9 signalosome, subunit CSN4 [Posttran	95.43
KOG0686	466	consensus COP9 signalosome, subunit CSN1 [Posttran	95.3
COG5071	439	RPN5 26S proteasome regulatory complex component [	94.94
KOG2688	394	consensus Transcription-associated recombination p	94.04
KOG2582	422	consensus COP9 signalosome, subunit CSN3 [Posttran	92.67
COG5600	413	Transcription-associated recombination protein [DN	92.02
KOG1463	411	consensus 26S proteasome regulatory complex, subun	90.94
PF09756	188	DDRGK: DDRGK domain; InterPro: IPR019153 This is a	90.13
KOG2072	988	consensus Translation initiation factor 3, subunit	89.24
PF10075	143	PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro	89.13
KOG0687	393	consensus 26S proteasome regulatory complex, subun	86.42
COG5159	421	RPN6 26S proteasome regulatory complex component [	85.95
COG3355	126	Predicted transcriptional regulator [Transcription	85.29
PRK04654	214	sec-independent translocase; Provisional	84.42
PF09012	69	FeoC: FeoC like transcriptional regulator; InterPr	81.98
KOG3054	299	consensus Uncharacterized conserved protein [Funct	81.98
PRK01919	169	tatB sec-independent translocase; Provisional	81.8
TIGR01410	80	tatB twin arginine-targeting protein translocase T	81.11
PF02082	83	Rrf2: Transcriptional regulator; InterPro: IPR0009	80.89

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

Probab=100.00  E-value=9.9e-63  Score=422.51  Aligned_cols=238  Identities=40%  Similarity=0.633  Sum_probs=232.7

Q ss_pred             CchhHHHHHHHHHHHHhcccccHHHHHHHHHHHhcCCCcccchhhhcCchhhhccCCCchHHHHHHHHHhcCChhhHhhh
Q 025901            1 MDIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKNN   80 (246)
Q Consensus         1 ~~~~~~~~~~l~~f~~lak~a~~~aa~~li~~AL~~p~vf~F~eLL~~p~v~~L~~~~~~~~~~LL~iFa~Gt~~dy~~~   80 (246)
                      |++||++++.++||+++||+.+|+|...+|.+||.+|+||+|||||.+|+|.+|..+.++.+++||++||||||.||.++
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 025901           81 AGHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGR  160 (246)
Q Consensus        81 ~~~l~~L~~~~~~KLr~LtllsLa~~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~~~~~R  160 (246)
                      +-.+|.|+++++.||++||++|||+..++|||..+.+.|.+.|+++|||+|| +|||+++++|||||.+|+++|.|+.+|
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             CCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhcch----------hccccCCC
Q 025901          161 DLRPGQLGSMIQTLSNWLTTSDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSLSH----------KLHTVSRP  230 (246)
Q Consensus       161 dl~~~q~~~l~~~L~~W~~~~~~vl~~Ie~~i~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~----------~~~~~~~~  230 (246)
                      |+++.++++|..+|++||+.|+++|-.|++++.|||++++...+++++.|.+|.++||++|.          +|.+++ |
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            99999999999999999999999999999999999999999999999999999999999988          577787 8


Q ss_pred             cccccccccc
Q 025901          231 TLTAEGTRRS  240 (246)
Q Consensus       231 ~~~~~~~~~~  240 (246)
                      +|++.+++|.
T Consensus       239 ~~~qrqp~kk  248 (258)
T KOG3250|consen  239 VMDQRQPGKK  248 (258)
T ss_pred             CccccCCCcC
Confidence            9999988764

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

Probab=99.98  E-value=2.1e-32  Score=247.98  Aligned_cols=150  Identities=28%  Similarity=0.527  Sum_probs=139.3

Q ss_pred             HHHHHHHHHHhcCCCcccchhhhcCchhhhccCCCchHHHHHHHHHhcCChhhHhhh----hCCCCC--c-chHHHHHHH
Q 025901           24 AALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKNN----AGHLPQ--L-VPDQVLKLK   96 (246)
Q Consensus        24 ~aa~~li~~AL~~p~vf~F~eLL~~p~v~~L~~~~~~~~~~LL~iFa~Gt~~dy~~~----~~~l~~--L-~~~~~~KLr   96 (246)
                      .+|.++|+.|+.+|++|.|+.|+.+|+|+.|+++.   +|+||.||..|.+++|.++    ++++..  | .++..+|||
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 EDAMRCVVEAVKDPKIFLFDHLLTLPPVKQLEGDL---IHQLLKIFVSGKLDAYVEFVAANSGFVQSQGLVHEQNMAKMR  281 (378)
T ss_pred             HHHHHHHHHHHcCCceeccchhccCchHHHhccch---HHHHHHHHHhcchHHHHHHHHhChHHHHHhcccHHHHHHHHH
Confidence            56999999999999999999999999999999875   8999999999999999874    344333  3 356789999


Q ss_pred             HHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcHHHHHHHHHH
Q 025901           97 QLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSN  176 (246)
Q Consensus        97 ~LtllsLa~~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~~~~~Rdl~~~q~~~l~~~L~~  176 (246)
                      +||+++||+.++.|||++|+++|+|. .+|||.||| +||.+|+|.|||||.+++|.|+++.+|.||..||..|.++|..
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 025901          177 WL  178 (246)
Q Consensus       177 W~  178 (246)
                      |.
T Consensus       360 w~  361 (378)
T KOG2753|consen  360 WG  361 (378)
T ss_pred             HH
Confidence            96

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

Probab=99.97  E-value=2.2e-31  Score=242.39  Aligned_cols=181  Identities=18%  Similarity=0.359  Sum_probs=163.5

Q ss_pred             HHHHHHhc------ccccHHHHHHHHHHHhcCCCcccchhhhcCchhhhccCCCchHHHHHHHHHhcCChhhHhhh---h
Q 025901           11 IDHFVKQA------SNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKNN---A   81 (246)
Q Consensus        11 l~~f~~la------k~a~~~aa~~li~~AL~~p~vf~F~eLL~~p~v~~L~~~~~~~~~~LL~iFa~Gt~~dy~~~---~   81 (246)
                      .-.|+...      .+.+...|.+|..+||.+.+||||||||.||+...|.||++.|++++|.+|+.||+..|...   .
T Consensus       180 ~L~YL~~~d~~~l~~se~~~lA~~L~~aALLGe~iyNfGELL~HPilesL~gT~~eWL~dll~Afn~Gdl~~f~~l~~~~  259 (380)
T KOG2908|consen  180 ALLYLGCSDIDDLSESEKQDLAFDLSLAALLGENIYNFGELLAHPILESLKGTNREWLKDLLIAFNSGDLKRFESLKGVW  259 (380)
T ss_pred             HHHHhccccccccCHHHHHHHHHHHHHHHHhccccccHHHHHhhHHHHHhcCCcHHHHHHHHHHhccCCHHHHHHHHHHh
Confidence            34566666      55566889999999999999999999999999999999999999999999999999999874   3


Q ss_pred             CCCCCcchHH---HHHHHHHHhhhccc----CCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEE
Q 025901           82 GHLPQLVPDQ---VLKLKQLTVLTLAE----TNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEV  154 (246)
Q Consensus        82 ~~l~~L~~~~---~~KLr~LtllsLa~----~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V  154 (246)
                      +..|.|....   .+|+++++++-++.    ..|.+||++|+++++|| .++||.+|| +|++.|||+|.|||++++|++
T Consensus       260 ~~~p~L~~~e~~L~qKI~LmaLiEi~F~rpa~~R~lsf~~Ia~~tkip-~~eVE~LVM-KAlslgLikG~Idqv~~~v~~  337 (380)
T KOG2908|consen  260 GKQPDLASNEDFLLQKIRLLALIEITFSRPANERTLSFKEIAEATKIP-NKEVELLVM-KALSLGLIKGSIDQVEGVVYM  337 (380)
T ss_pred             ccCchHHHHHHHHHHHHHHHHHHHHHhcCcchhccccHHHHHHHhCCC-HHHHHHHHH-HHHhccceeeeecccccEEEE
Confidence            4577776443   68999999998875    57999999999999998 999999998 999999999999999999999


Q ss_pred             EeecCCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025901          155 QFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQEKIK  193 (246)
Q Consensus       155 ~~~~~Rdl~~~q~~~l~~~L~~W~~~~~~vl~~Ie~~i~  193 (246)
                      +|++||.++.+|+..|.+++..|++.+.++...++.+-+
T Consensus       338 swvqPRvl~~~qI~~Mk~rl~~W~~~v~~me~~ve~~~~  376 (380)
T KOG2908|consen  338 SWVQPRVLDRSQIVKMKDRLDEWNKDVKSMEGLVEHRGH  376 (380)
T ss_pred             ecccccccCHHHHHhHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            999999999999999999999999999999999987643

>smart00753 PAM PCI/PINT associated module

Probab=99.50  E-value=5.4e-14  Score=105.45  Aligned_cols=86  Identities=22%  Similarity=0.335  Sum_probs=80.6

Q ss_pred             chHHHHHHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcH
Q 025901           88 VPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQL  167 (246)
Q Consensus        88 ~~~~~~KLr~LtllsLa~~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~~~~~Rdl~~~q~  167 (246)
                      .+....|++.+++..++..+++|+|+.|++.++++ .+++|.+|+ ++|..|.|.|+|||.++++.+.+..+|.  .++|
T Consensus         3 ~~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~-~~~vE~~i~-~~i~~~~l~~~ID~~~~~v~~~~~~~r~--~~~~   78 (88)
T smart00753        3 VERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLS-VPEVEKLVS-KAIRDGEISAKIDQVNGIVEFEEVDPRR--SEPL   78 (88)
T ss_pred             HHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcC-HHHHHHHHH-HHHHCCCeEEEEcCcCCEEEECCCchhh--hhHH
Confidence            35567899999999999999999999999999998 889999999 9999999999999999999999999997  7889


Q ss_pred             HHHHHHHHHH
Q 025901          168 GSMIQTLSNW  177 (246)
Q Consensus       168 ~~l~~~L~~W  177 (246)
                      ..+.++|..|
T Consensus        79 ~~~~~~l~~~   88 (88)
T smart00753       79 AQFAETLKKL   88 (88)
T ss_pred             HHHHHHhhcC
Confidence            9999999887

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

Probab=99.50  E-value=5.4e-14  Score=105.45  Aligned_cols=86  Identities=22%  Similarity=0.335  Sum_probs=80.6

Q ss_pred             chHHHHHHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcH
Q 025901           88 VPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQL  167 (246)
Q Consensus        88 ~~~~~~KLr~LtllsLa~~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~~~~~Rdl~~~q~  167 (246)
                      .+....|++.+++..++..+++|+|+.|++.++++ .+++|.+|+ ++|..|.|.|+|||.++++.+.+..+|.  .++|
T Consensus         3 ~~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~-~~~vE~~i~-~~i~~~~l~~~ID~~~~~v~~~~~~~r~--~~~~   78 (88)
T smart00088        3 VERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLS-VPEVEKLVS-KAIRDGEISAKIDQVNGIVEFEEVDPRR--SEPL   78 (88)
T ss_pred             HHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcC-HHHHHHHHH-HHHHCCCeEEEEcCcCCEEEECCCchhh--hhHH
Confidence            35567899999999999999999999999999998 889999999 9999999999999999999999999997  7889


Q ss_pred             HHHHHHHHHH
Q 025901          168 GSMIQTLSNW  177 (246)
Q Consensus       168 ~~l~~~L~~W  177 (246)
                      ..+.++|..|
T Consensus        79 ~~~~~~l~~~   88 (88)
T smart00088       79 AQFAETLKKL   88 (88)
T ss_pred             HHHHHHhhcC
Confidence            9999999887

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

>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=99.49  E-value=7.7e-14  Score=106.34  Aligned_cols=95  Identities=20%  Similarity=0.404  Sum_probs=80.7

Q ss_pred             hHHHHHHHHHhcCChhhHhhhhCC----------CCCcchHHHHHHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHH
Q 025901           60 SKYLDMLRLFAHGTWSDYKNNAGH----------LPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELED  129 (246)
Q Consensus        60 ~~~~~LL~iFa~Gt~~dy~~~~~~----------l~~L~~~~~~KLr~LtllsLa~~~k~isy~~I~~~L~i~~~~evE~  129 (246)
                      +|+.+|+++|..|++..|...-..          +..+.+....+++..++.+++...+.|+++.|++.|+++ .++||.
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            478999999999999999763221          122345568899999999999999999999999999998 899999


Q ss_pred             HHHHHhHhcCccEEEecCCCCEEEEEe
Q 025901          130 FLINECMYTGIVRGKLDQLRRCFEVQF  156 (246)
Q Consensus       130 llI~~aI~~gLI~GkIDQ~~~~v~V~~  156 (246)
                      +++ ++|..|.|.|+|||.+++|.++|
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.

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

Probab=98.65  E-value=7.9e-08  Score=87.30  Aligned_cols=125  Identities=14%  Similarity=0.360  Sum_probs=103.4

Q ss_pred             hHHHHHHHHHhcCChhhHhh----hhCCC------CCcchHHHHHHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHH
Q 025901           60 SKYLDMLRLFAHGTWSDYKN----NAGHL------PQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELED  129 (246)
Q Consensus        60 ~~~~~LL~iFa~Gt~~dy~~----~~~~l------~~L~~~~~~KLr~LtllsLa~~~k~isy~~I~~~L~i~~~~evE~  129 (246)
                      -.+.+|+..+...++..|+.    |.+.+      -+..++.++++|.-.++.|..+...|....|+++|+|+ ..+||.
T Consensus       305 lAMTnlv~aYQ~NdI~eFE~Il~~~~~~IM~DpFIReh~EdLl~niRTQVLlkLIkPYt~i~Ipfis~~Lnv~-~~dV~~  383 (440)
T KOG1464|consen  305 LAMTNLVAAYQNNDIIEFERILKSNRSNIMDDPFIREHIEDLLRNIRTQVLLKLIKPYTNIGIPFISKELNVP-EADVES  383 (440)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHhccccccCchhhHhhcCCC-HHHHHH
Confidence            44788999999999999986    33332      22446678999999999999999999999999999998 999999


Q ss_pred             HHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025901          130 FLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQEKI  192 (246)
Q Consensus       130 llI~~aI~~gLI~GkIDQ~~~~v~V~~~~~Rdl~~~q~~~l~~~L~~W~~~~~~vl~~Ie~~i  192 (246)
                      +++ +||-.+-|+|+|||+++.+.......      .-..+.+.|+.|.+.++++.+.|-.++
T Consensus       384 LLV-~~ILD~~i~g~Ide~n~~l~~~~~~~------s~~k~~~al~kW~~ql~Sl~~~i~sr~  439 (440)
T KOG1464|consen  384 LLV-SCILDDTIDGRIDEVNQYLELDKSKN------SGSKLYKALDKWNNQLKSLQSNIVSRV  439 (440)
T ss_pred             HHH-HHHhccccccchHHhhhHhccCccCC------cchHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            999 99999999999999999998764321      123478999999999998888776543

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

Probab=97.71  E-value=0.0002  Score=68.12  Aligned_cols=91  Identities=10%  Similarity=0.346  Sum_probs=69.7

Q ss_pred             hHHHHHHHHHhcCChhhHhhhhCCCCC-cch----HHHHHHHH------HHhhhcccCCcccChHHHHHHcCCCChHHHH
Q 025901           60 SKYLDMLRLFAHGTWSDYKNNAGHLPQ-LVP----DQVLKLKQ------LTVLTLAETNKVLPYDELMEELDVTNVRELE  128 (246)
Q Consensus        60 ~~~~~LL~iFa~Gt~~dy~~~~~~l~~-L~~----~~~~KLr~------LtllsLa~~~k~isy~~I~~~L~i~~~~evE  128 (246)
                      .+|+.|=+..-.||++-|....+.+.+ +-.    ..+..||+      +..+||  .++.|||.+|+..|+++|..++|
T Consensus       319 ~~Yf~Lt~AVr~gdlkkF~~~leq~k~~f~~D~ty~LivRLR~NVIkTgIR~ISl--sYSRISl~DIA~kL~l~Seed~E  396 (493)
T KOG2581|consen  319 RPYFKLTQAVRLGDLKKFNETLEQFKDKFQADGTYTLIVRLRHNVIKTGIRKISL--SYSRISLQDIAKKLGLNSEEDAE  396 (493)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhheee--eeeeccHHHHHHHhcCCCchhHH
Confidence            569999999999999999875433322 111    11334444      223333  58899999999999999999999


Q ss_pred             HHHHHHhHhcCccEEEecCCCCEEE
Q 025901          129 DFLINECMYTGIVRGKLDQLRRCFE  153 (246)
Q Consensus       129 ~llI~~aI~~gLI~GkIDQ~~~~v~  153 (246)
                      .+|- +||+.|+|+|+||..++.+.
T Consensus       397 yiVa-kAIRDGvIea~Id~~~g~m~  420 (493)
T KOG2581|consen  397 YIVA-KAIRDGVIEAKIDHEDGFMQ  420 (493)
T ss_pred             HHHH-HHHHhccceeeeccccCcee
Confidence            9998 99999999999999999554

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

Probab=96.19  E-value=0.054  Score=51.60  Aligned_cols=127  Identities=20%  Similarity=0.294  Sum_probs=92.3

Q ss_pred             chHHHHHHHHHhcCChhhHhhhh---------CCCCC---cchHHH--HHHHH--HHhhhcccCCcccChHHHHHHcCCC
Q 025901           59 NSKYLDMLRLFAHGTWSDYKNNA---------GHLPQ---LVPDQV--LKLKQ--LTVLTLAETNKVLPYDELMEELDVT  122 (246)
Q Consensus        59 ~~~~~~LL~iFa~Gt~~dy~~~~---------~~l~~---L~~~~~--~KLr~--LtllsLa~~~k~isy~~I~~~L~i~  122 (246)
                      .+.+-.+|.+|..|-+--|....         +.+..   ..+...  .+.|.  .-+--.|.=+.+||+..+++-|+.|
T Consensus       287 ~p~~k~lLklfv~~EL~rw~s~~~~yg~~l~~~~~~~~~~~gek~~~dL~~RIiEHNiRiiA~yYSrIt~~rl~eLLdl~  366 (439)
T KOG1498|consen  287 LPDYKELLKLFVTMELIRWVSLVESYGDELRTNDFFDGGEEGEKRWSDLKLRIIEHNIRIIAKYYSRITLKRLAELLDLP  366 (439)
T ss_pred             CccHHHHHHHHHhcceeeehhHhhhhHHHHhhcccccccchhhhHHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHhCCC
Confidence            45678899999988765554211         11111   111111  22222  3333445568899999999999998


Q ss_pred             ChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 025901          123 NVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQEKIKWADS  197 (246)
Q Consensus       123 ~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~~~~~Rdl~~~q~~~l~~~L~~W~~~~~~vl~~Ie~~i~~~~~  197 (246)
                       +++.|.++= +.+..|.+.+|||+..+.+.....          ..+.+-|..|..+++++++.++..-+-+.+
T Consensus       367 -~ee~E~~LS-~lv~t~ti~aKidrpsgII~F~k~----------K~~~~~LneW~~nve~L~~ll~K~~HLI~K  429 (439)
T KOG1498|consen  367 -VEEMEKFLS-DLVVTGTIYAKIDRPSGIINFQKV----------KDSNEILNEWASNVEKLLGLLEKVSHLIHK  429 (439)
T ss_pred             -HHHHHHHHH-HHHhccceEEEecCCCceEEEEec----------ccHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence             999999998 899999999999999999987654          347889999999999999998866555554

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

Probab=96.06  E-value=0.012  Score=54.95  Aligned_cols=95  Identities=17%  Similarity=0.240  Sum_probs=74.1

Q ss_pred             HHHHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcHHHHH
Q 025901           92 VLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMI  171 (246)
Q Consensus        92 ~~KLr~LtllsLa~~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~~~~~Rdl~~~q~~~l~  171 (246)
                      +..-|++-.=+.|.-+.+|+.+.+|+.|+++ .++.|.|++ +.|+...|++|||..-+.|.+.....     .--+.++
T Consensus       332 ~E~ARl~ifEtfCRIHqcIti~mLA~kLnm~-~eeaErwiv-nlIr~~rl~AkidSklg~Vvmg~~~~-----s~~qQ~i  404 (432)
T KOG2758|consen  332 LENARLLIFETFCRIHQCITIDMLADKLNMD-PEEAERWIV-NLIRTARLDAKIDSKLGHVVMGHPTV-----SPHQQLI  404 (432)
T ss_pred             HHHHHHHHHHHHHHHHHheeHHHHHHHhcCC-HHHHHHHHH-HHHHHhhhhhhhccccCceeecCCCC-----CHHHHHH
Confidence            3455666666777788999999999999997 999999999 89999999999999999988764332     2245567


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 025901          172 QTLSNWLTTSDNLLISIQEKIK  193 (246)
Q Consensus       172 ~~L~~W~~~~~~vl~~Ie~~i~  193 (246)
                      ++-....-+...+-..++..++
T Consensus       405 e~tksLS~rsq~la~~lek~~~  426 (432)
T KOG2758|consen  405 EKTKSLSFRSQNLAQQLEKKIQ  426 (432)
T ss_pred             HhccccchhHHHHHHHHHHHHH
Confidence            7766666666666666665543

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

Probab=95.43  E-value=0.03  Score=52.20  Aligned_cols=57  Identities=14%  Similarity=0.290  Sum_probs=50.8

Q ss_pred             HHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEE
Q 025901           97 QLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQ  155 (246)
Q Consensus        97 ~LtllsLa~~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~  155 (246)
                      -..|+++++-...|+|+++...|+|+ .+.+|...= +.|..|-+.|.|||.++.+++.
T Consensus       305 EhNlls~Skly~nisf~~Lg~ll~i~-~ekaekiaa-~MI~qeRmng~IDQ~egiihFe  361 (399)
T KOG1497|consen  305 EHNLLSASKLYNNISFEELGALLKID-AEKAEKIAA-QMITQERMNGSIDQIEGIIHFE  361 (399)
T ss_pred             HHhHHHHHHHHHhccHHHHHHHhCCC-HHHHHHHHH-HHHhHHHhccchHhhcceEeec
Confidence            34566666667889999999999998 999999998 8999999999999999999975

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

Probab=95.30  E-value=0.18  Score=48.43  Aligned_cols=99  Identities=16%  Similarity=0.253  Sum_probs=74.6

Q ss_pred             HHHHHHHHHhcCChhhHhh----hhCCCC---Ccch---HHHHHHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHH
Q 025901           61 KYLDMLRLFAHGTWSDYKN----NAGHLP---QLVP---DQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDF  130 (246)
Q Consensus        61 ~~~~LL~iFa~Gt~~dy~~----~~~~l~---~L~~---~~~~KLr~LtllsLa~~~k~isy~~I~~~L~i~~~~evE~l  130 (246)
                      .+.++|.-|..+.|.--..    .++.+-   -|.|   ....++|.=.++.--.+...++++.++.+.+.+ +..+|.=
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            3556666666666654332    122110   1222   235788888888888899999999999999997 9999999


Q ss_pred             HHHHhHhcCccEEEecCCCCEEEEEeecCCC
Q 025901          131 LINECMYTGIVRGKLDQLRRCFEVQFAAGRD  161 (246)
Q Consensus       131 lI~~aI~~gLI~GkIDQ~~~~v~V~~~~~Rd  161 (246)
                      +. +.|-.|.|.||||+.++++++.-+..|.
T Consensus       386 l~-~LI~~~~i~~rIDs~~ki~~~~~~~~en  415 (466)
T KOG0686|consen  386 LL-ELILEGKISGRIDSHNKILYARDADSEN  415 (466)
T ss_pred             HH-HHHHccchheeeccccceeeeccccccc
Confidence            99 9999999999999999999997665554

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

Probab=94.94  E-value=0.14  Score=47.68  Aligned_cols=75  Identities=16%  Similarity=0.256  Sum_probs=65.2

Q ss_pred             cCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcHHHHHHHHHHHHHHHHHH
Q 025901          105 ETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNL  184 (246)
Q Consensus       105 ~~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~~~~~Rdl~~~q~~~l~~~L~~W~~~~~~v  184 (246)
                      .=++.|+-..|..-++.+ ..+.|.+|- +.+..|.+.+||++..+.+.+...          ++..+.|..|..+++.+
T Consensus       349 ~yYSrI~~~rl~~lld~~-~s~te~~IS-dlVN~G~~yaKiNrpa~Ii~FEK~----------~n~~~~lneW~~NV~el  416 (439)
T COG5071         349 NYYSRIHCSRLGVLLDMS-PSETEQFIS-DLVNKGHFYAKINRPAQIISFEKS----------QNVQEQLNEWGSNVTEL  416 (439)
T ss_pred             HHhhhhhHHHHHHHHcCC-HHHHHHHHH-HHHhcCcEEEEecCccceEEeecc----------ccHHHHHHHhcccHHHH
Confidence            446789999999999998 999999998 899999999999999999987643          24678899999999999


Q ss_pred             HHHHHHH
Q 025901          185 LISIQEK  191 (246)
Q Consensus       185 l~~Ie~~  191 (246)
                      +..++.-
T Consensus       417 lgklek~  423 (439)
T COG5071         417 LGKLEKV  423 (439)
T ss_pred             HHHHHHH
Confidence            9988753

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

Probab=94.04  E-value=0.13  Score=49.17  Aligned_cols=98  Identities=14%  Similarity=0.181  Sum_probs=70.5

Q ss_pred             chHHHHHHHHHhcCChhhHhhh----hCCCCCcchH-HHHHHHHHHhhhcc-------cCCcccChHHHHHHcCCCC---
Q 025901           59 NSKYLDMLRLFAHGTWSDYKNN----AGHLPQLVPD-QVLKLKQLTVLTLA-------ETNKVLPYDELMEELDVTN---  123 (246)
Q Consensus        59 ~~~~~~LL~iFa~Gt~~dy~~~----~~~l~~L~~~-~~~KLr~LtllsLa-------~~~k~isy~~I~~~L~i~~---  123 (246)
                      -..+-.|++....||+..|...    ...+....-- .+.|++.++.=.|.       .+...+|++.+..++....   
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            3467788999999999999752    2211111100 12234444333332       2678999999999998875   


Q ss_pred             --hHHHHHHHHHHhHhcCccEEEecCCCCEEEEEee
Q 025901          124 --VRELEDFLINECMYTGIVRGKLDQLRRCFEVQFA  157 (246)
Q Consensus       124 --~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~~~  157 (246)
                        .+|||-.+. .+|+.|.|+|.|+...+++.+...
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              799999999 899999999999999999998754

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

Probab=92.67  E-value=0.87  Score=43.32  Aligned_cols=106  Identities=11%  Similarity=0.249  Sum_probs=77.5

Q ss_pred             hHHHHHHHHHhcCChhhHhh----hhCCCC-----CcchHHHHHHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHH
Q 025901           60 SKYLDMLRLFAHGTWSDYKN----NAGHLP-----QLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDF  130 (246)
Q Consensus        60 ~~~~~LL~iFa~Gt~~dy~~----~~~~l~-----~L~~~~~~KLr~LtllsLa~~~k~isy~~I~~~L~i~~~~evE~l  130 (246)
                      .+|.++++++..+.-.....    +++.+-     .|....+.-+..-+|..|-..-.+++.++|++..++.+..|||..
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            36999999999988776553    232221     133333445555667777777788999999997777778999999


Q ss_pred             HHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcHHH
Q 025901          131 LINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGS  169 (246)
Q Consensus       131 lI~~aI~~gLI~GkIDQ~~~~v~V~~~~~Rdl~~~q~~~  169 (246)
                      |+ ..|..|=|...||   |-|..+.-..-+..|+...+
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   77777666666666665544

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

Probab=92.02  E-value=0.48  Score=45.07  Aligned_cols=99  Identities=20%  Similarity=0.310  Sum_probs=65.3

Q ss_pred             chHHHHHHHHHhcCChhhHhhhh----CCCCC------cc---hH-HHHHHHHHHhhhcccCCcccChHHHHHHcCCCC-
Q 025901           59 NSKYLDMLRLFAHGTWSDYKNNA----GHLPQ------LV---PD-QVLKLKQLTVLTLAETNKVLPYDELMEELDVTN-  123 (246)
Q Consensus        59 ~~~~~~LL~iFa~Gt~~dy~~~~----~~l~~------L~---~~-~~~KLr~LtllsLa~~~k~isy~~I~~~L~i~~-  123 (246)
                      .+.+--|.++.-+|++++|....    ..+.+      |.   |. ..+.|.. -+..++-+...+|++.+...++++. 
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            45667788999999999997521    11110      00   11 1122211 2233333455577777666666642 


Q ss_pred             -----hHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecC
Q 025901          124 -----VRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAG  159 (246)
Q Consensus       124 -----~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~~~~~  159 (246)
                           .++||-.++ .+|..|+++|.|....+++.+....|
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                 578999999 89999999999999999999986543

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

Probab=90.94  E-value=0.65  Score=43.86  Aligned_cols=113  Identities=15%  Similarity=0.243  Sum_probs=79.6

Q ss_pred             hhhcCchhhhccCCCchHHHHHHHHHhcCChhhHhhhhCCCC-Ccc-----hHHHH----HHHHHHhhhcccCCcccChH
Q 025901           44 EILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKNNAGHLP-QLV-----PDQVL----KLKQLTVLTLAETNKVLPYD  113 (246)
Q Consensus        44 eLL~~p~v~~L~~~~~~~~~~LL~iFa~Gt~~dy~~~~~~l~-~L~-----~~~~~----KLr~LtllsLa~~~k~isy~  113 (246)
                      .|+.-.......+..-..+...=+.|..-++.||..--..++ +|-     ...+.    .|=---|+.+.++..++..+
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            344333333344444455777778888889999986322222 232     22222    22223577778899999999


Q ss_pred             HHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeec
Q 025901          114 ELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAA  158 (246)
Q Consensus       114 ~I~~~L~i~~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~~~~  158 (246)
                      -|++-+|++ +..||.=+= ..|-...+.|.|||-++++.|.--.
T Consensus       350 hIA~~IGl~-~~~VEkKLs-qMILDKkf~G~LDQg~g~Liv~~e~  392 (411)
T KOG1463|consen  350 HIAEVIGLD-VPQVEKKLS-QMILDKKFYGTLDQGEGCLIVFEEP  392 (411)
T ss_pred             HHHHHHCCC-cHHHHHHHH-HHHHHHHhhcccccCCCeEEEeCCC
Confidence            999999998 999999887 8888899999999999999997443

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

Probab=90.13  E-value=0.43  Score=41.24  Aligned_cols=57  Identities=14%  Similarity=0.268  Sum_probs=40.8

Q ss_pred             HHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEE
Q 025901           97 QLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQ  155 (246)
Q Consensus        97 ~LtllsLa~~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~  155 (246)
                      +-.++.....+++++.++|+.++++. ..++-+-|- +....|.|.|-||...+-|+|+
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            34566677789999999999999998 888888887 8999999999999999999987

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

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

Probab=89.24  E-value=8.5  Score=40.21  Aligned_cols=49  Identities=16%  Similarity=0.212  Sum_probs=43.2

Q ss_pred             CCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEE
Q 025901          106 TNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQ  155 (246)
Q Consensus       106 ~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~  155 (246)
                      .+..|+|+.|.+-.-.=|.-++|.+++ +|...+.+..+||...++|.+.
T Consensus       444 iY~sIs~~~l~~La~F~~~~~lEk~~v-~a~k~~~v~iriDH~~~~v~Fg  492 (988)
T KOG2072|consen  444 IYESISFERLYKLAPFFSAFELEKLLV-EAAKHNDVSIRIDHESNSVSFG  492 (988)
T ss_pred             HHHHHhHHHHHHHHhhcCHHHHHHHHH-HHHhccceeEEeccccceeeec
Confidence            467888988887655556899999999 9999999999999999999987

>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=89.13  E-value=3.7  Score=33.20  Aligned_cols=107  Identities=15%  Similarity=0.189  Sum_probs=72.2

Q ss_pred             HHHHHHHHHhcCCCcccchhhhcCchhhhccC-CCchHHHHHHHHHhcCChhhHhhhhCCC---CC---cchHHHHHHHH
Q 025901           25 ALGSVIVEATSQPSLFAFSEILAVPNIAEFEG-TENSKYLDMLRLFAHGTWSDYKNNAGHL---PQ---LVPDQVLKLKQ   97 (246)
Q Consensus        25 aa~~li~~AL~~p~vf~F~eLL~~p~v~~L~~-~~~~~~~~LL~iFa~Gt~~dy~~~~~~l---~~---L~~~~~~KLr~   97 (246)
                      ....+...+|..-.+-+|.-++..-+-...+. .+-..++.|.+.+-.|+|..|.+.....   +.   +.+.-..++|.
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            33445555566666788888877444443343 4457788999999999999987732221   11   23444677888


Q ss_pred             HHhhhcccCCcccChHHHHHHcCCCChHHHHHHHH
Q 025901           98 LTVLTLAETNKVLPYDELMEELDVTNVRELEDFLI  132 (246)
Q Consensus        98 LtllsLa~~~k~isy~~I~~~L~i~~~~evE~llI  132 (246)
                      =++-.+...+..|+.+.+++-||++ ..+++.++.
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            7777777789999999999999998 999999887

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.

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

Probab=86.42  E-value=2.9  Score=39.38  Aligned_cols=64  Identities=17%  Similarity=0.267  Sum_probs=56.2

Q ss_pred             HHHHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEee
Q 025901           92 VLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFA  157 (246)
Q Consensus        92 ~~KLr~LtllsLa~~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~~~  157 (246)
                      .+-||...--.|-+..|.++.+-.|+..|++ ++-++.=+= +-|-+|-+++|||-++++|++++-
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            5778887777888899999999999999997 888877776 778899999999999999999854

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

Probab=85.95  E-value=5.9  Score=37.03  Aligned_cols=100  Identities=16%  Similarity=0.242  Sum_probs=72.9

Q ss_pred             chHHHHHHHHHhcCChhhHhhhhCC-CCCcc-----hHHH----HHHHHHHhhhcccCCcccChHHHHHHcCCCChHHHH
Q 025901           59 NSKYLDMLRLFAHGTWSDYKNNAGH-LPQLV-----PDQV----LKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELE  128 (246)
Q Consensus        59 ~~~~~~LL~iFa~Gt~~dy~~~~~~-l~~L~-----~~~~----~KLr~LtllsLa~~~k~isy~~I~~~L~i~~~~evE  128 (246)
                      -..+...-+.|..-++.||...-.. -|+|-     ...+    .-|---.|+.+.++..++..+-|++-+|++ +.+||
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            3456667778888889999763222 22232     2221    122223566777899999999999999997 99999


Q ss_pred             HHHHHHhHhcCccEEEecCCCCEEEEEeecCC
Q 025901          129 DFLINECMYTGIVRGKLDQLRRCFEVQFAAGR  160 (246)
Q Consensus       129 ~llI~~aI~~gLI~GkIDQ~~~~v~V~~~~~R  160 (246)
                      .=+- ..|-..++-|.+||.++++.|.-....
T Consensus       362 gKLs-qMILDKifyG~LDqg~gcLivy~ep~q  392 (421)
T COG5159         362 GKLS-QMILDKIFYGTLDQGDGCLIVYGEPAQ  392 (421)
T ss_pred             HHHH-HHHHHHHHHhhhccCCceEEEeCCccc
Confidence            8887 788888999999999999999754433

>COG3355 Predicted transcriptional regulator [Transcription]

Probab=85.29  E-value=8.4  Score=31.27  Aligned_cols=80  Identities=20%  Similarity=0.345  Sum_probs=58.2

Q ss_pred             cCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccE-EEec-CCCCEEEEEeecCCCCCCCcHHH-HHHHHHHHHHHH
Q 025901          105 ETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVR-GKLD-QLRRCFEVQFAAGRDLRPGQLGS-MIQTLSNWLTTS  181 (246)
Q Consensus       105 ~~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~-GkID-Q~~~~v~V~~~~~Rdl~~~q~~~-l~~~L~~W~~~~  181 (246)
                      +.++.++-++|++.|+++ -..|..-|= +.+..|+|. =|.. ...+..++...    ++++++.. +...|..|++++
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-NLLEAGLVEREKVNLKGGGYYYLYKP----IDPEEIKKKILKDLDEWYDKM  111 (126)
T ss_pred             hhcCCcCHHHHHHHHCcc-HHHHHHHHH-HHHHcCCeeeeeeccCCCceeEEEec----CCHHHHHHHHHHHHHHHHHHH
Confidence            367889999999999997 778888876 899999987 3333 23333333323    34566654 688999999999


Q ss_pred             HHHHHHHHH
Q 025901          182 DNLLISIQE  190 (246)
Q Consensus       182 ~~vl~~Ie~  190 (246)
                      ...+...+.
T Consensus       112 ~~~i~~~~~  120 (126)
T COG3355         112 KQLIEEFEK  120 (126)
T ss_pred             HHHHHHHhc
Confidence            888877653

>PRK04654 sec-independent translocase; Provisional

Probab=84.42  E-value=5.6  Score=35.01  Aligned_cols=61  Identities=18%  Similarity=0.309  Sum_probs=42.3

Q ss_pred             CCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhcch
Q 025901          161 DLRPGQLGSMIQTLSNWLTTSDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSLSH  222 (246)
Q Consensus       161 dl~~~q~~~l~~~L~~W~~~~~~vl~~Ie~~i~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~  222 (246)
                      .|+|+.|..+...+..|..++++....+.+.+.+--...+- ++.-+++...+.+++..+|.
T Consensus        19 V~GPerLPe~aRtlGk~irk~R~~~~~vk~El~~El~~~EL-rk~l~~~~~~i~~~~~~lk~   79 (214)
T PRK04654         19 VLGPERLPKAARFAGLWVRRARMQWDSVKQELERELEAEEL-KRSLQDVQASLREAEDQLRN   79 (214)
T ss_pred             hcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHH-HHHHHHHHHHHHHHHHHHHH
Confidence            57999999999999999999998888888777654443322 22233444555555555555

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

Probab=81.98  E-value=1.3  Score=31.57  Aligned_cols=42  Identities=17%  Similarity=0.294  Sum_probs=32.7

Q ss_pred             hhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEE
Q 025901          100 VLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRG  143 (246)
Q Consensus       100 llsLa~~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~G  143 (246)
                      |..+...++.+|+++|+.+++++ ...||.++= .-+..|-|+-
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            44445578899999999999997 999999886 8898998873

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

>KOG3054 consensus Uncharacterized conserved protein [Function unknown]

Probab=81.98  E-value=2.4  Score=38.23  Aligned_cols=54  Identities=19%  Similarity=0.401  Sum_probs=43.3

Q ss_pred             hhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEE
Q 025901          100 VLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQ  155 (246)
Q Consensus       100 llsLa~~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~  155 (246)
                      ++....++++++.++|+.+.++. ..+.=+-+= +.+..|++.|-||...+-++|+
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            44555689999999999999998 444444444 5666899999999999999997

>PRK01919 tatB sec-independent translocase; Provisional

Probab=81.80  E-value=8.8  Score=32.66  Aligned_cols=61  Identities=10%  Similarity=0.256  Sum_probs=42.8

Q ss_pred             CCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhcch
Q 025901          161 DLRPGQLGSMIQTLSNWLTTSDNLLISIQEKIKWADSMNEMDKKHRKDLEEKVEEAKKSLSH  222 (246)
Q Consensus       161 dl~~~q~~~l~~~L~~W~~~~~~vl~~Ie~~i~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~  222 (246)
                      .|+|+.++.+...+..|..++....+.+.+.+..--.. ++-++.+++++....+++.++..
T Consensus        19 V~GPekLP~~aRtlGk~i~k~Rr~~~d~K~ev~~E~e~-dElrk~~~~~e~~~~~v~~si~~   79 (169)
T PRK01919         19 VIGPERLPRVARTAGALFGRAQRYINDVKAEVSREIEL-DELRKMKTDFESAARDVENTIHD   79 (169)
T ss_pred             eeCchHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH-HHHHHHHHHHHHHHHHHHHHHHH
Confidence            47899999999999999999999999988887765432 22333445555555555555433

>TIGR01410 tatB twin arginine-targeting protein translocase TatB

Probab=81.11  E-value=6.3  Score=29.34  Aligned_cols=37  Identities=11%  Similarity=0.212  Sum_probs=31.5

Q ss_pred             CCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 025901          161 DLRPGQLGSMIQTLSNWLTTSDNLLISIQEKIKWADS  197 (246)
Q Consensus       161 dl~~~q~~~l~~~L~~W~~~~~~vl~~Ie~~i~~~~~  197 (246)
                      .|+|+.++.+...+..|........+.+.+++...-.
T Consensus        18 v~GP~kLP~~~r~~G~~i~~~r~~~~~~~~~~~~e~~   54 (80)
T TIGR01410        18 VLGPERLPVAIRAVGKFVRRLRGMASDVKNELDEELK   54 (80)
T ss_pred             eECchHHHHHHHHHHHHHHHHHHhhHhHHHHHHHHhc
Confidence            4789999999999999999999999888887765444

This model represents the TatB protein of a Sec-independent system for transporting folded proteins, often with a bound redox cofactor, across the bacterial inner membrane. TatC is the multiple membrane spanning component. TatB, like the related TatA/E proteins, appears to span the membrane one time. The tat system recognizes proteins with an elongated signal sequence containing a conserved R-R in a motif approximated by RRxFLK N-terminal to the transmembrane helix. TIGRFAMs model TIGR01409 describes this twin-Arg signal sequence. A similar system, termed Delta-pH-dependent transport, operates on chloroplast-encoded proteins.

>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=80.89  E-value=4.9  Score=29.43  Aligned_cols=58  Identities=17%  Similarity=0.230  Sum_probs=39.2

Q ss_pred             HHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEE
Q 025901           95 LKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQ  155 (246)
Q Consensus        95 Lr~LtllsLa~~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~  155 (246)
                      ++.|..+......+.++-.+|++.++++ ...|+.++= ....+|+|+.+= ..++.+...
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 999999876 888999987552 344444443

(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	246
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	246
3chm_A	169	COP9 signalosome complex subunit 7; heat/ARM repea	1e-60
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-04

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

 Score =  187 bits (477), Expect = 1e-60
 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 = 40.6 bits (94), Expect = 3e-04
 Identities = 35/239 (14%), Positives = 68/239 (28%), Gaps = 82/239 (34%)

Query: 8   AELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYL---D 64
           A+  + F           L   I+  T    +  F   L+           +S  L   +
Sbjct: 256 AKAWNAF----------NLSCKILLTTRFKQVTDF---LSAATTTHISLDHHSMTLTPDE 302

Query: 65  MLRLFAHGTWSDYKNNAGHLPQLVPDQVLKLKQLTVLTLAETNKVLP----------YDE 114
           +  L                PQ +P +VL      +  +AE+ +              D+
Sbjct: 303 VKSLLL--------KYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDK 354

Query: 115 LMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTL 174
           L   ++ + +  LE                  + R+ F+        L      S+    
Sbjct: 355 LTTIIESS-LNVLEP----------------AEYRKMFD-------RL------SVFP-- 382

Query: 175 SNWLTTSDNLLISIQE-KIKWADS-----MNEMDKKHRKDLEEKVEEAKKSLSHKLHTV 227
                   +  I      + W D      M  ++K H+  L   VE+  K  +  + ++
Sbjct: 383 -------PSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL---VEKQPKESTISIPSI 431

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	246
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	99.36
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	98.95
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	98.71
3t5x_A	203	PCI domain-containing protein 2; PCI, mRNA nuclear	98.55
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.43
1ufm_A	84	COP9 complex subunit 4; helix-turn-helix, structur	98.29
4b4t_S	523	RPN3, 26S proteasome regulatory subunit RPN3; hydr	97.96
3t5v_B	455	Nuclear mRNA export protein THP1; PCI, mRNA nuclea	97.54
4b0z_A	229	RPN12, 26S proteasome regulatory subunit RPN12; pr	93.34
1wi9_A	72	Protein C20ORF116 homolog; helix-turn-helix motif,	92.71
2hzt_A	107	Putative HTH-type transcriptional regulator YTCD;	84.65
3df8_A	111	Possible HXLR family transcriptional factor; APC89	84.36
1i1g_A	141	Transcriptional regulator LRPA; helix-turn-helix,	83.1
1qbj_A	81	Protein (double-stranded RNA specific adenosine D	83.0
3r0a_A	123	Putative transcriptional regulator; structural gen	80.66

>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=1.4e-51  Score=346.63  Aligned_cols=168  Identities=79%  Similarity=1.223  Sum_probs=158.7

Q ss_pred             chhHHHHHHHHHHHHhcccccHHHHHHHHHHHhcCCCcccchhhhcCchhhhccCCCchHHHHHHHHHhcCChhhHhhhh
Q 025901            2 DIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKNNA   81 (246)
Q Consensus         2 ~~~~~~~~~l~~f~~lak~a~~~aa~~li~~AL~~p~vf~F~eLL~~p~v~~L~~~~~~~~~~LL~iFa~Gt~~dy~~~~   81 (246)
                      ++|+++.++||||+.+||++++++|+++|.+||.+|++|+|||||.+|+|++|++++++|+++||++|++|||.+|.++.
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            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCcchHHHHHHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCC
Q 025901           82 GHLPQLVPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRD  161 (246)
Q Consensus        82 ~~l~~L~~~~~~KLr~LtllsLa~~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~~~~~Rd  161 (246)
                      +.+|.|++.+.+|||+|||++||..+++|||++|+++|+|+|+++||+||||+||+.|||+|||||++++|+|+|++||+
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 025901          162 LRPGQLGS  169 (246)
Q Consensus       162 l~~~q~~~  169 (246)
                      |+++||++
T Consensus       162 l~~~qi~~  169 (169)
T 3chm_A          162 LRPGQLGN  169 (169)
T ss_dssp             CCC-----
T ss_pred             cCHHhccC
Confidence            99999964

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

Probab=100.00  E-value=2.2e-35  Score=276.28  Aligned_cols=170  Identities=14%  Similarity=0.327  Sum_probs=118.7

Q ss_pred             cHHHHHHHHHHHhcCCCcccchhhhcCchhhhccC-CCchHHHHHHHHHhcCChhhHhh----hhCCCCCcchHH---HH
Q 025901           22 KGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEG-TENSKYLDMLRLFAHGTWSDYKN----NAGHLPQLVPDQ---VL   93 (246)
Q Consensus        22 ~~~aa~~li~~AL~~p~vf~F~eLL~~p~v~~L~~-~~~~~~~~LL~iFa~Gt~~dy~~----~~~~l~~L~~~~---~~   93 (246)
                      +...++.++..||.+|++|+||+|+.+|.+++|++ +++.|+++||++|++||+.+|.+    +.+.+|.|.+.+   .+
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 56999999999999999999976    345667776543   68


Q ss_pred             HHHHHHhhhccc--CCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcHHHHH
Q 025901           94 KLKQLTVLTLAE--TNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMI  171 (246)
Q Consensus        94 KLr~LtllsLa~--~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~~~~~Rdl~~~q~~~l~  171 (246)
                      |+|.++++.|+.  +++.|||++|+++|+|+ +++||+||| +||+.|+|+|+|||++++|+|+|++||+|+++||..|.
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            999999999885  57899999999999997 999999999 99999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 025901          172 QTLSNWLTTSDNLLISIQEKIK  193 (246)
Q Consensus       172 ~~L~~W~~~~~~vl~~Ie~~i~  193 (246)
                      ++|..|+++|++++..|+++..
T Consensus       368 ~~L~~W~~~v~~l~~~ve~~~~  389 (393)
T 4b4t_O          368 DRLVEWNDQVEKLGKKMEARGQ  389 (393)
T ss_dssp             ----------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHhcC
Confidence            9999999999999999998754

>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=99.36  E-value=3e-12  Score=119.92  Aligned_cols=159  Identities=11%  Similarity=0.109  Sum_probs=109.9

Q ss_pred             HHHHHHHHHHhcCCCcccchhhhcCchhhhccCCCchHHHHHHHHHhcCChhhHhhh----hCCCCC---cc---hHHHH
Q 025901           24 AALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKNN----AGHLPQ---LV---PDQVL   93 (246)
Q Consensus        24 ~aa~~li~~AL~~p~vf~F~eLL~~p~v~~L~~~~~~~~~~LL~iFa~Gt~~dy~~~----~~~l~~---L~---~~~~~   93 (246)
                      ..+.=++..+|..-+.+.+++++..|......+++..|+.+|+..|.+|++..|...    .+.+..   +.   ....+
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            345667788888888999999999887665655557899999999999999999763    222221   11   22357


Q ss_pred             HHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcHHHHHHH
Q 025901           94 KLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQT  173 (246)
Q Consensus        94 KLr~LtllsLa~~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~~~~~Rdl~~~q~~~l~~~  173 (246)
                      +++...++.+..+.+.|+++.|++.++++ ++++|.+|+ ++|..|.|.|+|||++++|++....+|+   ...+...+.
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            88889999999999999999999999996 999999999 9999999999999999999998766665   445567789


Q ss_pred             HHHHHHHHHHHHHH
Q 025901          174 LSNWLTTSDNLLIS  187 (246)
Q Consensus       174 L~~W~~~~~~vl~~  187 (246)
                      +.+|...++.++..
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=98.95  E-value=1.4e-09  Score=102.75  Aligned_cols=161  Identities=14%  Similarity=0.152  Sum_probs=97.7

Q ss_pred             HHHHHHHHHHhcCCCcccchhhhcCchhhhccCCCchHHHHHHHHHhcCChhhHhhh----hCCC---CCc-----c---
Q 025901           24 AALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSKYLDMLRLFAHGTWSDYKNN----AGHL---PQL-----V---   88 (246)
Q Consensus        24 ~aa~~li~~AL~~p~vf~F~eLL~~p~v~~L~~~~~~~~~~LL~iFa~Gt~~dy~~~----~~~l---~~L-----~---   88 (246)
                      .+..-+|...+.+|..-.++.++.-+.... ...+...+..|+.+|..+.+..|...    ...+   |..     .   
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 11235678999999999998877642    2211   111     1   


Q ss_pred             -hHHHHHHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcH
Q 025901           89 -PDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQL  167 (246)
Q Consensus        89 -~~~~~KLr~LtllsLa~~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~~~~~Rdl~~~q~  167 (246)
                       ....+.++...|..++..++.|+++.|++.|+++ ++++|.++. ++|..|.|.|+|||++|+|++....+        
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             2234667778888999999999999999999997 999999999 99999999999999999887654322        


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 025901          168 GSMIQTLSNWLTTSDNLLISIQEKIKWADS  197 (246)
Q Consensus       168 ~~l~~~L~~W~~~~~~vl~~Ie~~i~~~~~  197 (246)
                        -.+.|..|.+++++++..|+.-.+-+++
T Consensus       408 --~~~~l~~W~~~i~~l~~~v~k~~~lI~k  435 (445)
T 4b4t_P          408 --SSQLLNEWSHNVDELLEHIETIGHLITK  435 (445)
T ss_dssp             ------------------------------
T ss_pred             --hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence              1357899999999999999765555555

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

Probab=98.71  E-value=6.8e-08  Score=90.55  Aligned_cols=134  Identities=14%  Similarity=0.126  Sum_probs=96.0

Q ss_pred             HHHHHHHHhcCCCcccc-hhhhcCchhhhc-cCCC-chHHHHHHHHHhcCChhhHhhh-----hCCC---CCcc---hHH
Q 025901           26 LGSVIVEATSQPSLFAF-SEILAVPNIAEF-EGTE-NSKYLDMLRLFAHGTWSDYKNN-----AGHL---PQLV---PDQ   91 (246)
Q Consensus        26 a~~li~~AL~~p~vf~F-~eLL~~p~v~~L-~~~~-~~~~~~LL~iFa~Gt~~dy~~~-----~~~l---~~L~---~~~   91 (246)
                      +.-.+..++..++--.+ ..++.-|.+... ...| ..++.+++..|-.+.+..|...     ...+   |-+.   ..-
T Consensus       250 ~~y~~l~al~~~~r~~l~~~v~~~~~~~~~l~~~p~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~d~~l~~h~~~l  329 (429)
T 4b4t_R          250 ATYASVTGLFTLERTDLKSKVIDSPELLSLISTTAALQSISSLTISLYASDYASYFPYLLETYANVLIPCKYLNRHADFF  329 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHSSSSSHHHHHGGGSHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHSTTTTTCTTSTTTHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHhcCHHHHhhccCChhHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhccCHHHHHHHHHH
Confidence            44445555555444332 235666666544 3333 3567788888888888886431     1111   1122   345


Q ss_pred             HHHHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCC
Q 025901           92 VLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRD  161 (246)
Q Consensus        92 ~~KLr~LtllsLa~~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~~~~~Rd  161 (246)
                      .+.+|...++.++.++++|+++.+++.++++ +.++|.++. +.|..|-|.|||||++|+|++....+|.
T Consensus       330 ~~~ir~~~l~q~~~~Ys~I~l~~mA~~l~~s-~~~~E~~L~-~lI~~g~l~akID~~~giv~~~~~d~~~  397 (429)
T 4b4t_R          330 VREMRRKVYAQLLESYKTLSLKSMASAFGVS-VAFLDNDLG-KFIPNKQLNCVIDRVNGIVETNRPDNKN  397 (429)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEHHHHHHHHTSC-HHHHHHHHH-HHHHHTSSCEEEETTTTEEEECC-----
T ss_pred             HHHHHHHHHHHHhHHhceeeHHHHHHHhCcC-HHHHHHHHH-HHHHcCCeEEEEcCCCCEEEECCCCchh
Confidence            7899999999999999999999999999997 999999999 9999999999999999999988777664

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

Probab=98.55  E-value=3.5e-08  Score=84.35  Aligned_cols=97  Identities=18%  Similarity=0.258  Sum_probs=76.1

Q ss_pred             hHHHHHHHHHhcCChhhHhhhhCCCCC-cc----hHHHHHHHHHHhhhccc------CCcccChHHHHHHcCCC-----C
Q 025901           60 SKYLDMLRLFAHGTWSDYKNNAGHLPQ-LV----PDQVLKLKQLTVLTLAE------TNKVLPYDELMEELDVT-----N  123 (246)
Q Consensus        60 ~~~~~LL~iFa~Gt~~dy~~~~~~l~~-L~----~~~~~KLr~LtllsLa~------~~k~isy~~I~~~L~i~-----~  123 (246)
                      ..+.+|...+..||+..|.+.-..... +.    --.+.|+|.+.+..|..      +...||++.|+.+|++.     +
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            358899999999999999863211111 11    11357888887777754      67899999999999653     5


Q ss_pred             hHHHHHHHHHHhHhcCccEEEecCCCCEEEEEee
Q 025901          124 VRELEDFLINECMYTGIVRGKLDQLRRCFEVQFA  157 (246)
Q Consensus       124 ~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~~~  157 (246)
                      .+|||.++. ++|+.|.|+|+||+.++++.++..
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 999999999999999999988754

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

Probab=98.43  E-value=2.2e-07  Score=83.19  Aligned_cols=123  Identities=12%  Similarity=0.112  Sum_probs=78.6

Q ss_pred             chHHHHHHHHHhcCChhhHhhhhCCC----CC---c---chHHHHHHHHHHhhhcccCCcccChHHHHHHcCCCChHHHH
Q 025901           59 NSKYLDMLRLFAHGTWSDYKNNAGHL----PQ---L---VPDQVLKLKQLTVLTLAETNKVLPYDELMEELDVTNVRELE  128 (246)
Q Consensus        59 ~~~~~~LL~iFa~Gt~~dy~~~~~~l----~~---L---~~~~~~KLr~LtllsLa~~~k~isy~~I~~~L~i~~~~evE  128 (246)
                      ..++..++..|..+++..|......+    ..   +   .......++...+..++...+.|+++.|++.|+++ ++++|
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            56788999999999999987632211    11   1   12234677778888999999999999999999997 99999


Q ss_pred             HHHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025901          129 DFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTTSDNLLISIQEKIK  193 (246)
Q Consensus       129 ~llI~~aI~~gLI~GkIDQ~~~~v~V~~~~~Rdl~~~q~~~l~~~L~~W~~~~~~vl~~Ie~~i~  193 (246)
                      .++. ++|..|.|.|+|||.+++|.+.....++          .....|.+.++++...|+....
T Consensus       375 ~~l~-~lI~~~~i~a~id~~~g~v~~~~~~~~~----------~~~~~~l~~~~~l~~~vd~L~~  428 (434)
T 4b4t_Q          375 GKLS-QMILDKIFYGVLDQGNGWLYVYETPNQD----------ATYDSALELVGQLNKVVDQLFE  428 (434)
T ss_dssp             HHHH-HHHHHTSSCCEEETTTTEEECC--------------------------------------
T ss_pred             HHHH-HHHhCCCcceecccccCeEeeCCCcchh----------HHHHHHHHHHHHHHHHHHHHHH
Confidence            9999 9999999999999999999986554443          2345566666666555554433

>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=98.29  E-value=1.9e-06  Score=63.87  Aligned_cols=62  Identities=15%  Similarity=0.261  Sum_probs=53.8

Q ss_pred             HHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEee
Q 025901           94 KLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFA  157 (246)
Q Consensus        94 KLr~LtllsLa~~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~~~  157 (246)
                      ++..-.|..++..+..|+++.|++.++++ .+++|.++. +.|..|-|.|+|||++++|.+...
T Consensus        15 ~v~E~nl~~is~~Y~~Isl~~La~ll~ls-~~~vE~~ls-~mI~~~~l~akIDq~~g~V~f~~~   76 (84)
T 1ufm_A           15 AVIEHNLLSASKLYNNITFEELGALLEIP-AAKAEKIAS-QMITEGRMNGFIDQIDGIVHFETR   76 (84)
T ss_dssp             HHHHHHHHHHHHSCSEEEHHHHHHHTTSC-HHHHHHHHH-HHHHTTSSCEEEETTTTEEEECCS
T ss_pred             HHHHHHHHHHHHhcCeeeHHHHHHHHCcC-HHHHHHHHH-HHHhCCcEEEEEeCCCCEEEeCCc
Confidence            34444555677899999999999999998 999999999 999999999999999999986543

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

Probab=97.96  E-value=3.6e-06  Score=81.22  Aligned_cols=93  Identities=12%  Similarity=0.241  Sum_probs=70.3

Q ss_pred             hHHHHHHHHHhcCChhhHhhh----hCCC-CCcchHHHHHHHHH----HhhhcccCCcccChHHHHHHcCCCChHHHHHH
Q 025901           60 SKYLDMLRLFAHGTWSDYKNN----AGHL-PQLVPDQVLKLKQL----TVLTLAETNKVLPYDELMEELDVTNVRELEDF  130 (246)
Q Consensus        60 ~~~~~LL~iFa~Gt~~dy~~~----~~~l-~~L~~~~~~KLr~L----tllsLa~~~k~isy~~I~~~L~i~~~~evE~l  130 (246)
                      .+|+.|..+|..|++..|.+.    ...+ ..=+-..+.++|+.    -|..+......||+++|+..|++++.+++|.+
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            569999999999999999862    1111 11011123344442    34455567889999999999999878899999


Q ss_pred             HHHHhHhcCccEEEecCCCCEEE
Q 025901          131 LINECMYTGIVRGKLDQLRRCFE  153 (246)
Q Consensus       131 lI~~aI~~gLI~GkIDQ~~~~v~  153 (246)
                      |- ++|+.|.|+|+|||.++.|.
T Consensus       423 VA-kmI~dG~I~A~Idh~~g~v~  444 (523)
T 4b4t_S          423 VS-RAIRDGVIEAKINHEDGFIE  444 (523)
T ss_dssp             HH-HHHHHTSSCCEECTTTCCEE
T ss_pred             HH-HHHHcCCceEEEecCCCEEE
Confidence            99 99999999999999999765

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

Probab=97.54  E-value=7e-05  Score=71.22  Aligned_cols=95  Identities=17%  Similarity=0.176  Sum_probs=71.3

Q ss_pred             HHHHHHHHhcCChhhHhhhh----CCC-CCcc-hHHHHHHHHHHhhhcc----------cCCcccChHHHHHHcCC----
Q 025901           62 YLDMLRLFAHGTWSDYKNNA----GHL-PQLV-PDQVLKLKQLTVLTLA----------ETNKVLPYDELMEELDV----  121 (246)
Q Consensus        62 ~~~LL~iFa~Gt~~dy~~~~----~~l-~~L~-~~~~~KLr~LtllsLa----------~~~k~isy~~I~~~L~i----  121 (246)
                      +..|...+..||+..|...-    ..+ ..=. --.+.|+|++.+-.|.          .+...||++.|+.+|++    
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            78899999999999998732    111 1111 2235667776443322          23479999999999984    


Q ss_pred             ----------------CChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEee
Q 025901          122 ----------------TNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFA  157 (246)
Q Consensus       122 ----------------~~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~~~  157 (246)
                                      .+.+|||.++. .+|+.|+|+|+||+.++++.++..
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 999999999999999999998765

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

Probab=93.34  E-value=0.13  Score=44.13  Aligned_cols=100  Identities=14%  Similarity=0.138  Sum_probs=69.5

Q ss_pred             hcCCCcccchhhhc-CchhhhccCCC-chHHHHHHHHHhcCChhhHhhhhCCCCCc-----chHHHHHHHHHHhhhcccC
Q 025901           34 TSQPSLFAFSEILA-VPNIAEFEGTE-NSKYLDMLRLFAHGTWSDYKNNAGHLPQL-----VPDQVLKLKQLTVLTLAET  106 (246)
Q Consensus        34 L~~p~vf~F~eLL~-~p~v~~L~~~~-~~~~~~LL~iFa~Gt~~dy~~~~~~l~~L-----~~~~~~KLr~LtllsLa~~  106 (246)
                      |.-.++-.|.-.+. +|.-..+++++ -...+++-+.+..|+|..|-......|..     ..--+.++|.-.+-+++..
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            33344555543332 33222233333 24568899999999999987754444532     2334678888777788878


Q ss_pred             CcccChHHHHHHcCCCChHHHHHHHHHH
Q 025901          107 NKVLPYDELMEELDVTNVRELEDFLINE  134 (246)
Q Consensus       107 ~k~isy~~I~~~L~i~~~~evE~llI~~  134 (246)
                      ...||.+++++.|+++|.++++.++- +
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            89999999999999999999999987 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=0.15  Score=36.43  Aligned_cols=54  Identities=11%  Similarity=0.280  Sum_probs=46.4

Q ss_pred             hhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEE
Q 025901          100 VLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQ  155 (246)
Q Consensus       100 llsLa~~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~  155 (246)
                      ++.....+|+++.++||.++++. ..++-+-|- +....|.|.|-||...+-++|+
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            34555678999999999999998 777777776 8888999999999999999886

>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=84.65  E-value=9.5  Score=27.84  Aligned_cols=69  Identities=14%  Similarity=0.092  Sum_probs=48.9

Q ss_pred             CcccChHHHHHHc-CCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcHHHHHHHHHHHHHH
Q 025901          107 NKVLPYDELMEEL-DVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWLTT  180 (246)
Q Consensus       107 ~k~isy~~I~~~L-~i~~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~~~~~Rdl~~~q~~~l~~~L~~W~~~  180 (246)
                      ....++.+|++.+ +++ ...+=..|= .....|+|..+-+..++....-+.++.  + .++-.....+..|...
T Consensus        25 ~~~~~~~eLa~~l~~is-~~tls~~L~-~Le~~GlI~r~~~~~d~r~~~y~LT~~--G-~~l~~~~~~l~~w~~~   94 (107)
T 2hzt_A           25 HGKKRTSELKRLMPNIT-QKMLTQQLR-ELEADGVINRIVYNQVPPKVEYELSEY--G-RSLEGILDMLXAWGAN   94 (107)
T ss_dssp             TCCBCHHHHHHHCTTSC-HHHHHHHHH-HHHHTTSEEEEEECSSSCEEEEEECTT--G-GGGHHHHHHHHHHHHH
T ss_pred             hCCCCHHHHHHHhcCCC-HHHHHHHHH-HHHHCCCEEEeecCCCCCeEEEEECcc--H-HHHHHHHHHHHHHHHH
Confidence            3568999999999 997 777777665 788899999998876655443333332  1 2344556777888754

>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=84.36  E-value=6  Score=29.36  Aligned_cols=80  Identities=11%  Similarity=0.211  Sum_probs=51.7

Q ss_pred             HHHHHHhhhcccCCcccChHHHHHHc-CCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcHHHHHH
Q 025901           94 KLKQLTVLTLAETNKVLPYDELMEEL-DVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQ  172 (246)
Q Consensus        94 KLr~LtllsLa~~~k~isy~~I~~~L-~i~~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~~~~~Rdl~~~q~~~l~~  172 (246)
                      |-|.+-|..|......++|.+|++.+ +|+ ...+=.-+= ..-..|+|.-+-+  .++.+--.-.||     ++.....
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--QITTYALTEKGM-----NVRNSLM   97 (111)
T ss_dssp             TTHHHHHHHHTSSSSCBCHHHHHHTSTTCC-HHHHHHHHH-HHHHTTSEEEEES--SSEEEEECHHHH-----HHHHHHH
T ss_pred             ccHHHHHHHHhcCCCCCCHHHHHHHccCCC-HHHHHHHHH-HHHHCCCEEEeec--CcEEEEECccHH-----HHHHHHH
Confidence            34444444555444456799999999 997 777776665 7788999999888  222221122333     2455677


Q ss_pred             HHHHHHHHHH
Q 025901          173 TLSNWLTTSD  182 (246)
Q Consensus       173 ~L~~W~~~~~  182 (246)
                      .+..|....+
T Consensus        98 ~l~~w~~~~~  107 (111)
T 3df8_A           98 PLLQYISVLD  107 (111)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhc
Confidence            8888887543

>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=83.10  E-value=1  Score=34.48  Aligned_cols=71  Identities=15%  Similarity=0.320  Sum_probs=44.0

Q ss_pred             CCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEE---ecCCCCEEEEEeecCCCCCCCcHHHHHHHHHHHH
Q 025901          106 TNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGK---LDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWL  178 (246)
Q Consensus       106 ~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~Gk---IDQ~~~~v~V~~~~~Rdl~~~q~~~l~~~L~~W~  178 (246)
                      .+..+|+.+|++.++++ ...+=..+= .....|+|.+.   +|...--..++....=.+.+.....+.+.|..|-
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 777776665 77788999764   3332211111110000123456777778877774

>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=83.00  E-value=3.4  Score=29.57  Aligned_cols=58  Identities=14%  Similarity=0.175  Sum_probs=41.3

Q ss_pred             HHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEE
Q 025901           95 LKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQ  155 (246)
Q Consensus        95 Lr~LtllsLa~~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~  155 (246)
                      .+.|.++.-..+++.+++.+|++.|+++ ...|...|- +....|+|.-. +...+.-.|.
T Consensus        13 ~~IL~~L~~~~pg~~~t~~eLA~~Lgvs-r~tV~~~L~-~Le~~G~I~~~-g~~~~~W~i~   70 (81)
T 1qbj_A           13 QRILKFLEELGEGKATTAHDLSGKLGTP-KKEINRVLY-SLAKKGKLQKE-AGTPPLWKIA   70 (81)
T ss_dssp             HHHHHHHHHHCTTCCBCHHHHHHHHTCC-HHHHHHHHH-HHHHTTSEEEE-SSSSCEEEEC
T ss_pred             HHHHHHHHHcCCCCCcCHHHHHHHHCcC-HHHHHHHHH-HHHHCCCEEec-CCCCCeeEEe
Confidence            3345555533356799999999999997 899999987 88889998643 3444444443

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

Probab=80.66  E-value=3.2  Score=31.46  Aligned_cols=81  Identities=11%  Similarity=0.114  Sum_probs=55.9

Q ss_pred             hcccCCcc-cChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCC--CCEEEEEeecCCCCCCCc-HHHHHHHHHHH
Q 025901          102 TLAETNKV-LPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQL--RRCFEVQFAAGRDLRPGQ-LGSMIQTLSNW  177 (246)
Q Consensus       102 sLa~~~k~-isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~GkIDQ~--~~~v~V~~~~~Rdl~~~q-~~~l~~~L~~W  177 (246)
                      .|...... ++-.+|++.++++ ...|-..|= .....|+|...-+..  .+..++..+.+    +.+ .+.+...+..|
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            34444555 9999999999997 888887776 788899998765443  23334333332    233 45678889999


Q ss_pred             HHHHHHHHHHH
Q 025901          178 LTTSDNLLISI  188 (246)
Q Consensus       178 ~~~~~~vl~~I  188 (246)
                      .+.+...++.+
T Consensus       108 ~~~~~~~l~~~  118 (123)
T 3r0a_A          108 ADRLGQELKEW  118 (123)
T ss_dssp             HHHHHHTTTTT
T ss_pred             HHHHHHHHHHH
Confidence            99887766544

---

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	246
d1ufma_	84	COP9 signalosome complex subunit 4, GSN4 {Mouse (M	98.37
d1wi9a_	72	Hypothetical protein C20orf116 homolog {Mouse (Mus	90.36
d2cfxa1	63	Transcriptional regulator LrpC {Bacillus subtilis	89.46
d2cg4a1	63	Regulatory protein AsnC {Escherichia coli [TaxId:	88.62
d2cyya1	60	Putative transcriptional regulator PH1519 {Archaeo	87.93
d1i1ga1	60	LprA {Archaeon Pyrococcus furiosus [TaxId: 2261]}	87.69
d1ub9a_	100	Hypothetical protein PH1061 {Archaeon Pyrococcus h	86.13

>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=98.37  E-value=4.3e-07  Score=65.62  Aligned_cols=62  Identities=15%  Similarity=0.261  Sum_probs=55.4

Q ss_pred             HHHHHHhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEee
Q 025901           94 KLKQLTVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFA  157 (246)
Q Consensus        94 KLr~LtllsLa~~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~~~  157 (246)
                      .++...|..++..+..|+++.|++.|+++ .+++|.+|. ++|..|-|.|+|||.+++|+++.-
T Consensus        15 ~i~Ehni~~is~~Y~~Isl~~la~~l~l~-~~evE~~l~-~mI~~~~i~akIDq~~g~V~F~~~   76 (84)
T d1ufma_          15 AVIEHNLLSASKLYNNITFEELGALLEIP-AAKAEKIAS-QMITEGRMNGFIDQIDGIVHFETR   76 (84)
T ss_dssp             HHHHHHHHHHHHSCSEEEHHHHHHHTTSC-HHHHHHHHH-HHHHTTSSCEEEETTTTEEEECCS
T ss_pred             HHHHHHHHHHHHhhceeeHHHHHHHHCCC-HHHHHHHHH-HHHhcCeEEEEEeCCCCEEEECCC
Confidence            45556666788889999999999999997 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=90.36  E-value=0.17  Score=34.33  Aligned_cols=57  Identities=11%  Similarity=0.243  Sum_probs=46.3

Q ss_pred             hhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecC
Q 025901          101 LTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAG  159 (246)
Q Consensus       101 lsLa~~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~~~~~  159 (246)
                      +......|+++.++|+.+.++. ..++=+-|- +....|.|.|-||...+-++|+-+-|
T Consensus        13 I~~Ik~~Kvv~LedLAa~F~lk-tqd~i~RIq-~Le~~g~ltGViDDRGKfIyIS~s~~   69 (72)
T d1wi9a_          13 INYIKKSKVVLLEDLAFQMGLR-TQDAINRIQ-DLLTEGTLTGVIDDRGKFIYITPSGP   69 (72)
T ss_dssp             HHHHHHCSEECHHHHHHHHCSC-HHHHHHHHH-HHHHHSSSCEEECTTCCEEECCCSSC
T ss_pred             HHHHHHCCEeeHHHHHHHcCCc-HHHHHHHHH-HHHHCCCeeeEEcCCCCEEEEcCCCC
Confidence            3444578999999999999998 656555565 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=89.46  E-value=0.17  Score=33.03  Aligned_cols=42  Identities=12%  Similarity=0.218  Sum_probs=34.8

Q ss_pred             hhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEE
Q 025901          100 VLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRG  143 (246)
Q Consensus       100 llsLa~~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~G  143 (246)
                      |+..-..+..+||.+|++.++++ ...|-.-+= +....|+|.|
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            34434567788999999999997 899998876 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=88.62  E-value=0.19  Score=32.70  Aligned_cols=43  Identities=21%  Similarity=0.299  Sum_probs=35.6

Q ss_pred             hhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEE
Q 025901          100 VLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGK  144 (246)
Q Consensus       100 llsLa~~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~Gk  144 (246)
                      |+.+-..+..+||.+|++.++++ ...|-.=+= +....|+|.|.
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            44444567889999999999997 999988876 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=87.93  E-value=0.19  Score=32.35  Aligned_cols=42  Identities=7%  Similarity=0.256  Sum_probs=33.9

Q ss_pred             hhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEE
Q 025901          100 VLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRG  143 (246)
Q Consensus       100 llsLa~~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~G  143 (246)
                      |+.+-+.+..+||.+|++.|+++ ...|-.-+= +....|+|.|
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            44444567889999999999997 888887775 7778899875

>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=87.69  E-value=0.2  Score=32.37  Aligned_cols=42  Identities=19%  Similarity=0.414  Sum_probs=34.2

Q ss_pred             hhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEE
Q 025901          100 VLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRG  143 (246)
Q Consensus       100 llsLa~~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~G  143 (246)
                      |+.+-+.+..+||.+|++.++++ ...|-.-+= +....|+|.+
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 889988876 8888899864

>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=86.13  E-value=1  Score=31.03  Aligned_cols=79  Identities=13%  Similarity=0.169  Sum_probs=50.3

Q ss_pred             HhhhcccCCcccChHHHHHHcCCCChHHHHHHHHHHhHhcCccEEEecCCCCEEEEEeecCCCCCCCcHHHHHHHHHHHH
Q 025901           99 TVLTLAETNKVLPYDELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQTLSNWL  178 (246)
Q Consensus        99 tllsLa~~~k~isy~~I~~~L~i~~~~evE~llI~~aI~~gLI~GkIDQ~~~~v~V~~~~~Rdl~~~q~~~l~~~L~~W~  178 (246)
                      .|+.+-......++.+|++.++++ ...+=..+= .....|+|..+-+..++...+-...+.         =.+.+..|.
T Consensus        20 ~IL~~L~~~~~~~~~eLa~~l~is-~~~vs~~l~-~L~~~glV~~~~~~~d~r~~~~~LT~~---------G~~~~~~~~   88 (100)
T d1ub9a_          20 GIMIFLLPRRKAPFSQIQKVLDLT-PGNLDSHIR-VLERNGLVKTYKVIADRPRTVVEITDF---------GMEEAKRFL   88 (100)
T ss_dssp             HHHHHHHHHSEEEHHHHHHHTTCC-HHHHHHHHH-HHHHTTSEEEEEECSSSCEEEEEECHH---------HHHHHHHHH
T ss_pred             HHHHHhccCCCeeHHHHHHHHhhc-cccccHHHH-HHhhhceeEEEEcCcCCccccccCCHH---------HHHHHHHHH
Confidence            333333334568999999999997 666665543 777899999988877665444333221         123455566


Q ss_pred             HHHHHHHHHH
Q 025901          179 TTSDNLLISI  188 (246)
Q Consensus       179 ~~~~~vl~~I  188 (246)
                      ..+..+++.+
T Consensus        89 ~~~~~~~~~l   98 (100)
T d1ub9a_          89 SSLKAVIDGL   98 (100)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhh
Confidence            6666666554