Citrus Sinensis ID: 030100

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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---
Protein Sequence
MGKERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLVKERNKCKGECLFLAKLTSASNYKHVWKIENFSKKIKLYPKGQGVGRGSHISVYLALADLSTITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLRISKAL
Secondary Structure (PSIPRED)
cccEEEEccccccccccEEEEcHHHccccccEEEccEEEEcEEEEEEEccccccEEEEEEEEEccccccccEEEcccEEEEEEEEcccccccccEEEEEEEEccccccccccEEEEEEEEEEEccccccccEEEEEEEEcccccccccccEEEccccccccccEEEccEEEEEEEEEEEEEcc
Secondary Structure Prediction (SSPRO)
cccEEEEccccccccccccccHHHcccccccEEEccEEEEEEEEEEcccccEEEEEEEccccccccccccEEEEccEEEEEEEEEcccccccccEEEEEEEEccccccccccEEEEEEEEEEEEcccccEEEEEEEEEcccccccccccccEEHHHHccccccEEEccEEEEEEEEEEEEEcc
Coil and Loop (DISEMBL)
mgkerrfhVLKLewgfdqfipleefndasngylvgdtcVFGAEVLVKERNKCKGECLFLAKltsasnykHVWKIENFSkkiklypkgqgvgrgsHISVYLALADlstitrdskiYVHFTLRIRDQVLSKHNEKKASTWlstssedwgwSTFVELSYFnkaengflmndVCIVEAEVLRISKAL
Flexible Loop (DISEMBL)
mgkerrfhvlkleWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLVKERNKCKGECLFLakltsasnykhVWKIENFSKKIKLYPKGQGVGRGSHISVYLALADLSTITRDSKIYVHFTLRIRDQVLSKHNEKKAstwlstssedwgWSTFVELSYFNKAENGFLMNDVCIVEAEVLRISKAL
Low Complexity Region (SEG)
MGKERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLVKERNKCKGECLFLAKLTSASNYKHVWKIENFSKKIKLYPKGQGVGRGSHISVYLALADLSTITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLRISKAL
Disordered region (IsUnstruct)
******FHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLVKERNKCKGECLFLAKLTSASNYKHVWKIENFSKKIKLYPKGQGVGRGSHISVYLALADLSTITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLRI****
Disordered Region (DISOPRED)
****RRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLVKERNKCKGECLFLAKLTSASNYKHVWKIENFSKKIKLYPKGQGVGRGSHISVYLALADLSTITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLRISKAL
Disordered Region (DISEMBL)
MGKERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLVKERNKCKGECLFLAKLTSASNYKHVWKIENFSKKIKLYPKGQGVGRGSHISVYLALADLSTITRDSKIYVHFTLRIRDQVLS**************SEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLRISKAL
Disordered Region (DISPRO)
*GKERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLVKERNKCKGECLFLAKLTSASNYKHVWKIENFSKKIKLYPKGQGVGRGSHISVYLALADLSTITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLRISKA*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGKERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLVKERNKCKGECLFLAKLTSASNYKHVWKIENFSKKIKLYPKGQGVGRGSHISVYLALADLSTITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLRISKAL
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	183	2.2.26 [Sep-21-2011]
Q84WU2	1115	Ubiquitin carboxyl-termin	no	no	0.628	0.103	0.294	5e-11
Q9FPT1	1116	Ubiquitin carboxyl-termin	no	no	0.628	0.103	0.277	2e-10
Q8RY18	1055	MATH domain-containing pr	no	no	0.551	0.095	0.271	0.0004

>sp|Q84WU2|UBP13_ARATH Ubiquitin carboxyl-terminal hydrolase 13 OS=Arabidopsis thaliana GN=UBP13 PE=1 SV=1

 Score = 67.4 bits (163), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 35/119 (29%), Positives = 68/119 (57%), Gaps = 4/119 (3%)

Query: 59  LAKLTSASNYKHVWKIENFSKKIKLYPKGQGVGRGSHISVYLALADLSTITRDSKIYVHF 118
             +L +  +Y  V+ +  +  +I ++PKG  V    H+S+YL +AD + +      Y  F
Sbjct: 63  FTRLNTRKHYSDVFVVGGYKWRILIFPKGNNV---DHLSMYLDVADAANLPYGWSRYSQF 119

Query: 119 TLRIRDQVLSKHNEKKASTWLSTSSE-DWGWSTFVELSYFNKAENGFLMNDVCIVEAEV 176
           +L + +QV ++++ +K +     + E DWG+++F+ LS   +   G+L+ND  ++EAEV
Sbjct: 120 SLAVVNQVNNRYSIRKETQHQFNARESDWGFTSFMPLSELYEPTRGYLVNDTVLIEAEV 178

Recognizes and hydrolyzes the peptide bond at the C-terminal Gly of ubiquitin. Involved in the processing of poly-ubiquitin precursors as well as that of ubiquitinated proteins.
Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 4EC: .EC: 1EC: 9EC: .EC: 1EC: 2

>sp|Q9FPT1|UBP12_ARATH Ubiquitin carboxyl-terminal hydrolase 12 OS=Arabidopsis thaliana GN=UBP12 PE=1 SV=2

 Score = 65.5 bits (158), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 33/119 (27%), Positives = 67/119 (56%), Gaps = 4/119 (3%)

Query: 59  LAKLTSASNYKHVWKIENFSKKIKLYPKGQGVGRGSHISVYLALADLSTITRDSKIYVHF 118
            ++  +  +Y  V+ +  +  +I ++PKG  V    H+S+YL ++D +++      Y  F
Sbjct: 64  FSRQNTRKHYSDVFVVGGYKWRILIFPKGNNV---DHLSMYLDVSDAASLPYGWSRYAQF 120

Query: 119 TLRIRDQVLSKHNEKKASTWLSTSSE-DWGWSTFVELSYFNKAENGFLMNDVCIVEAEV 176
           +L + +Q+ +++  +K +     + E DWG+++F+ LS       G+L+ND  +VEAEV
Sbjct: 121 SLAVVNQIHTRYTVRKETQHQFNARESDWGFTSFMPLSELYDPSRGYLVNDTVLVEAEV 179

Recognizes and hydrolyzes the peptide bond at the C-terminal Gly of ubiquitin. Involved in the processing of poly-ubiquitin precursors as well as that of ubiquitinated proteins.

Arabidopsis thaliana (taxid: 3702)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|Q8RY18|Y5436_ARATH MATH domain-containing protein At5g43560 OS=Arabidopsis thaliana GN=At5g43560 PE=1 SV=1

 Score = 44.7 bits (104), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 35/129 (27%), Positives = 58/129 (44%), Gaps = 28/129 (21%)

Query: 69  KHVWKIENFSK------------------KIKLYPKGQGVGRGSHISVYLALADLSTITR 110
           K+ W IE FS                    I +YP+G  V   +H+S++L +A    +  
Sbjct: 70  KNTWTIEKFSDINKRELRGDVFEVGGYKWYILIYPQGCDVC--NHLSLFLCVAHHEKLLP 127

Query: 111 DSKIYVHFTLRI--RDQVLSKHNEKKASTWLSTSSEDWGWSTFVELSYFNKAENGFLMND 168
               +  FT+ +  +D   SKH++     W      DWGW  F+EL    K + GF+ + 
Sbjct: 128 GWSHFAQFTIAVSNKDPKKSKHSDTLHRFW--KKEHDWGWKKFIELP---KLKEGFIDDS 182

Query: 169 VCI-VEAEV 176
            C+ ++A+V
Sbjct: 183 GCLTIKAQV 191

Arabidopsis thaliana (taxid: 3702)

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	183
297830352	309	hypothetical protein ARALYDRAFT_479214 [	0.945	0.559	0.484	3e-46
18401489	309	TRAF-like family protein [Arabidopsis th	0.945	0.559	0.489	7e-46
11994555	304	unnamed protein product [Arabidopsis tha	0.945	0.569	0.489	8e-46
21537273	309	unknown [Arabidopsis thaliana]	0.945	0.559	0.484	1e-45
255556544	455	nucleic acid binding protein, putative [	0.945	0.380	0.5	1e-42
356519881	310	PREDICTED: uncharacterized protein LOC10	0.939	0.554	0.492	1e-41
449441502	316	PREDICTED: BTB/POZ and MATH domain-conta	0.972	0.563	0.48	1e-41
449522688	316	PREDICTED: BTB/POZ and MATH domain-conta	0.972	0.563	0.48	2e-41
357479139	311	Ubiquitin carboxyl-terminal hydrolase [M	0.939	0.553	0.466	3e-38
224100507	249	predicted protein [Populus trichocarpa]	0.939	0.690	0.456	5e-36

>gi|297830352|ref|XP_002883058.1| hypothetical protein ARALYDRAFT_479214 [Arabidopsis lyrata subsp. lyrata] gi|297328898|gb|EFH59317.1| hypothetical protein ARALYDRAFT_479214 [Arabidopsis lyrata subsp. lyrata]

 Score =  189 bits (481), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 94/194 (48%), Positives = 124/194 (63%), Gaps = 21/194 (10%)

Query: 2   GKERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLV-KERNKCKGECLFLA 60
           G ERRFH +K EWGFD+FIP   F+DASNGYL+ DTC+FGA+V V KER   +GECL + 
Sbjct: 109 GNERRFHAVKREWGFDKFIPTGTFSDASNGYLMEDTCMFGADVFVSKERRSGRGECLSMI 168

Query: 61  KLTSASNYKHVWKIENFSK------------------KIKLYPKGQGVGRGSHISVYLAL 102
           K   A++ KHVWKIENFSK                  K++ YP G   G G+H+S+YL L
Sbjct: 169 K--DATSSKHVWKIENFSKLDKESYDSNAFFAGDRKWKVRFYPTGTKQGTGTHLSIYLTL 226

Query: 103 ADLSTITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSSEDWGWSTFVELSYFNKAEN 162
            D  TI+  +KI+V FT+RI DQ+  +H   K + W S SS + GW  +V + YF +  +
Sbjct: 227 VDPETISDGTKIFVEFTIRIFDQLQGRHIAGKVTKWFSRSSSEHGWVKYVSMVYFTQPNS 286

Query: 163 GFLMNDVCIVEAEV 176
           G L+ DVC+VEA+V
Sbjct: 287 GLLLKDVCLVEADV 300

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18401489|ref|NP_566576.1| TRAF-like family protein [Arabidopsis thaliana] gi|332642426|gb|AEE75947.1| TRAF-like family protein [Arabidopsis thaliana]

 Score =  188 bits (478), Expect = 7e-46,   Method: Compositional matrix adjust.
 Identities = 95/194 (48%), Positives = 124/194 (63%), Gaps = 21/194 (10%)

Query: 2   GKERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLV-KERNKCKGECLFLA 60
           G ERRFH +K EWGFD+FIP   F+DASNGYL+ DTC+FGA+V V KER   +GECL + 
Sbjct: 109 GNERRFHSVKREWGFDKFIPTGTFSDASNGYLMEDTCMFGADVFVSKERRSGRGECLSMI 168

Query: 61  KLTSASNYKHVWKIENFSK------------------KIKLYPKGQGVGRGSHISVYLAL 102
           K   A++ KHVWKIENFSK                  KI+ YP G   G G+H+S+YL L
Sbjct: 169 K--DATSSKHVWKIENFSKLDKESYDSNAFFAGDRKWKIEFYPTGTKQGTGTHLSIYLTL 226

Query: 103 ADLSTITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSSEDWGWSTFVELSYFNKAEN 162
            D  TI+  +KI+V FT+RI DQ+  +H   K + W S SS + GW  +V + YF +  +
Sbjct: 227 VDPETISDGTKIFVEFTIRIFDQLQGRHIAGKVTKWFSRSSSEHGWVKYVSMVYFTQPNS 286

Query: 163 GFLMNDVCIVEAEV 176
           G L+ DVC+VEA+V
Sbjct: 287 GLLLKDVCLVEADV 300

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|11994555|dbj|BAB02742.1| unnamed protein product [Arabidopsis thaliana]

 Score =  188 bits (478), Expect = 8e-46,   Method: Compositional matrix adjust.
 Identities = 95/194 (48%), Positives = 124/194 (63%), Gaps = 21/194 (10%)

Query: 2   GKERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLV-KERNKCKGECLFLA 60
           G ERRFH +K EWGFD+FIP   F+DASNGYL+ DTC+FGA+V V KER   +GECL + 
Sbjct: 104 GNERRFHSVKREWGFDKFIPTGTFSDASNGYLMEDTCMFGADVFVSKERRSGRGECLSMI 163

Query: 61  KLTSASNYKHVWKIENFSK------------------KIKLYPKGQGVGRGSHISVYLAL 102
           K   A++ KHVWKIENFSK                  KI+ YP G   G G+H+S+YL L
Sbjct: 164 K--DATSSKHVWKIENFSKLDKESYDSNAFFAGDRKWKIEFYPTGTKQGTGTHLSIYLTL 221

Query: 103 ADLSTITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSSEDWGWSTFVELSYFNKAEN 162
            D  TI+  +KI+V FT+RI DQ+  +H   K + W S SS + GW  +V + YF +  +
Sbjct: 222 VDPETISDGTKIFVEFTIRIFDQLQGRHIAGKVTKWFSRSSSEHGWVKYVSMVYFTQPNS 281

Query: 163 GFLMNDVCIVEAEV 176
           G L+ DVC+VEA+V
Sbjct: 282 GLLLKDVCLVEADV 295

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|21537273|gb|AAM61614.1| unknown [Arabidopsis thaliana]

 Score =  187 bits (476), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 94/194 (48%), Positives = 124/194 (63%), Gaps = 21/194 (10%)

Query: 2   GKERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLV-KERNKCKGECLFLA 60
           G ERRFH +K EWGFD+FIP   F+D+SNGYL+ DTC+FGA+V V KER   +GECL + 
Sbjct: 109 GNERRFHSVKREWGFDKFIPTGTFSDSSNGYLMEDTCMFGADVFVSKERRSGRGECLSMI 168

Query: 61  KLTSASNYKHVWKIENFSK------------------KIKLYPKGQGVGRGSHISVYLAL 102
           K   A++ KHVWKIENFSK                  KI+ YP G   G G+H+S+YL L
Sbjct: 169 K--DATSSKHVWKIENFSKLDKESYDSNAFFAGDRKWKIEFYPTGTKQGTGTHLSIYLTL 226

Query: 103 ADLSTITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSSEDWGWSTFVELSYFNKAEN 162
            D  TI+  +KI+V FT+RI DQ+  +H   K + W S SS + GW  +V + YF +  +
Sbjct: 227 VDPETISDGTKIFVEFTIRIFDQLQGRHIAGKVTKWFSRSSSEHGWVKYVSMVYFTQPNS 286

Query: 163 GFLMNDVCIVEAEV 176
           G L+ DVC+VEA+V
Sbjct: 287 GLLLKDVCLVEADV 300

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255556544|ref|XP_002519306.1| nucleic acid binding protein, putative [Ricinus communis] gi|223541621|gb|EEF43170.1| nucleic acid binding protein, putative [Ricinus communis]

 Score =  177 bits (450), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 97/194 (50%), Positives = 116/194 (59%), Gaps = 21/194 (10%)

Query: 2   GKERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLV-KERNKCKGECLFLA 60
           GKE RFH  +LEWGFDQ IPL    D  NGYLV DTCVFGAEV V KE    KGECL + 
Sbjct: 255 GKECRFHGFRLEWGFDQLIPLATLKDTKNGYLVEDTCVFGAEVFVRKESCTGKGECLSMI 314

Query: 61  KLTSASNYKHVWKIENFSK------------------KIKLYPKGQGVGRGSHISVYLAL 102
           K  S+S  K++W+ ENFSK                  KI+LYPKG+G+G G+H+S++LAL
Sbjct: 315 K--SSSTSKNLWRFENFSKLDAECNDSKTFVAGDQRWKIQLYPKGKGLGSGTHLSLFLAL 372

Query: 103 ADLSTITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSSEDWGWSTFVELSYFNKAEN 162
           ADL+ IT   KI   FTLRI DQ    H   KA+ W S SS   GWS F  L     + N
Sbjct: 373 ADLTAITPGFKILADFTLRILDQSRGSHLFGKANFWFSASSSVCGWSRFYPLDQLYASSN 432

Query: 163 GFLMNDVCIVEAEV 176
            +L  D C+ EAE+
Sbjct: 433 AYLFKDTCLGEAEI 446

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356519881|ref|XP_003528597.1| PREDICTED: uncharacterized protein LOC100779090 [Glycine max]

 Score =  174 bits (442), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 95/193 (49%), Positives = 122/193 (63%), Gaps = 21/193 (10%)

Query: 4   ERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLV-KERNKCKGECLFLAKL 62
           ERRFH +K EWG DQFIPL +FN AS GYLV DTC FGAEV V KER+  KGECL + K 
Sbjct: 111 ERRFHKMKAEWGIDQFIPLRDFNLASKGYLVDDTCAFGAEVFVCKERSTGKGECLVMMK- 169

Query: 63  TSASNYKHVWKIENFSK------------------KIKLYPKGQGVGRGSHISVYLALAD 104
             A  YKH+++ +N SK                  KIKLYPKG+G   G+++S+YLALAD
Sbjct: 170 -EAILYKHLYEFDNLSKLDLECYDSKPFNAGNFKWKIKLYPKGKGAELGNYLSLYLALAD 228

Query: 105 LSTITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSSEDWGWSTFVELSYFNKAENGF 164
            S ++  SKIY   TLRI DQ  +KH+  KA+ W S SS + G + F+ ++ F     G+
Sbjct: 229 PSALSPCSKIYAQITLRILDQKQAKHHFGKANYWFSASSHENGAAIFMPINNFTNQNFGY 288

Query: 165 LMNDVCIVEAEVL 177
           ++ D C VEAEV+
Sbjct: 289 VVKDSCFVEAEVI 301

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449441502|ref|XP_004138521.1| PREDICTED: BTB/POZ and MATH domain-containing protein 3-like [Cucumis sativus]

 Score =  174 bits (441), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 96/200 (48%), Positives = 121/200 (60%), Gaps = 22/200 (11%)

Query: 3   KERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLVKERN--KCKGECLFLA 60
           K RRF  +K +WGFD++I L+EF ++SNGYLV D CVFGAEV V + N    KGECL + 
Sbjct: 115 KPRRFRGMKKQWGFDKYISLKEFKESSNGYLVDDVCVFGAEVFVCKENFKGGKGECLSMI 174

Query: 61  KLTSASNYKHVWKIENFSK------------------KIKLYPKGQGVGRGSHISVYLAL 102
           K  S   YKHVWKI+NFSK                  KI++YPKG G G GSH+S YL L
Sbjct: 175 K--SPVTYKHVWKIDNFSKLDAESYESKIFNAGDKKWKIRVYPKGHGSGEGSHLSPYLEL 232

Query: 103 ADLSTITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSSEDWGWSTFVELSYFNKAEN 162
           AD + +   +KIY   TLR++DQ+ SKH+  K S W S S+ + G   F+ L  F +   
Sbjct: 233 ADPAALHPATKIYAEVTLRLQDQIYSKHHSGKVSYWFSASNPEVGGPRFILLDNFKQPNI 292

Query: 163 GFLMNDVCIVEAEVLRISKA 182
           GFL+ D  IVEAEV  I  A
Sbjct: 293 GFLVKDAFIVEAEVSIIGVA 312

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449522688|ref|XP_004168358.1| PREDICTED: BTB/POZ and MATH domain-containing protein 3-like [Cucumis sativus]

 Score =  174 bits (441), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 96/200 (48%), Positives = 121/200 (60%), Gaps = 22/200 (11%)

Query: 3   KERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLVKERN--KCKGECLFLA 60
           K RRF  +K +WGFD++I L+EF ++SNGYLV D CVFGAEV V + N    KGECL + 
Sbjct: 115 KPRRFRGMKKQWGFDKYISLKEFKESSNGYLVDDVCVFGAEVFVCKENFKGGKGECLSMI 174

Query: 61  KLTSASNYKHVWKIENFSK------------------KIKLYPKGQGVGRGSHISVYLAL 102
           K  S   YKHVWKI+NFSK                  KI++YPKG G G GSH+S YL L
Sbjct: 175 K--SPVTYKHVWKIDNFSKLDAESYESKIFNAGDKKWKIRVYPKGHGSGEGSHLSPYLEL 232

Query: 103 ADLSTITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSSEDWGWSTFVELSYFNKAEN 162
           AD + +   +KIY   TLR++DQ+ SKH+  K S W S S+ + G   F+ L  F +   
Sbjct: 233 ADPAALHPATKIYAEVTLRLQDQIYSKHHSGKVSYWFSASNPEVGGPRFILLDNFKQPNI 292

Query: 163 GFLMNDVCIVEAEVLRISKA 182
           GFL+ D  IVEAEV  I  A
Sbjct: 293 GFLVKDAFIVEAEVNVIGVA 312

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357479139|ref|XP_003609855.1| Ubiquitin carboxyl-terminal hydrolase [Medicago truncatula] gi|355510910|gb|AES92052.1| Ubiquitin carboxyl-terminal hydrolase [Medicago truncatula]

 Score =  163 bits (412), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 90/193 (46%), Positives = 116/193 (60%), Gaps = 21/193 (10%)

Query: 3   KERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLV-KERNKCKGECLFLAK 61
           KE+RFH +K+EWGFDQFIPL++FN  S GYL+ D C FGAEV V +E    KGE L + K
Sbjct: 111 KEKRFHRMKVEWGFDQFIPLKDFNIGSKGYLLDDICAFGAEVFVCRENYTGKGESLIMMK 170

Query: 62  LTSASNYKHVWKIENFSK------------------KIKLYPKGQGVGRGSHISVYLALA 103
              A  YKHVW+I++FSK                  +IKLYPKG+    G ++++YL LA
Sbjct: 171 --DALPYKHVWEIKDFSKLDSECCDSKPFNVGNYKWQIKLYPKGKATDLGRYLALYLTLA 228

Query: 104 DLSTITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSSEDWGWSTFVELSYFNKAENG 163
           + +TI   SKIY    LRI DQ  SKH   KA+ W S SS + G S F+  S F     G
Sbjct: 229 NPTTIPPGSKIYAQTILRILDQKQSKHQFWKANYWFSASSHEHGTSRFILCSNFTSQYLG 288

Query: 164 FLMNDVCIVEAEV 176
           +L+ D+C V+ EV
Sbjct: 289 YLVKDICFVDVEV 301

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224100507|ref|XP_002311903.1| predicted protein [Populus trichocarpa] gi|222851723|gb|EEE89270.1| predicted protein [Populus trichocarpa]

 Score =  155 bits (393), Expect = 5e-36,   Method: Compositional matrix adjust.
 Identities = 90/197 (45%), Positives = 122/197 (61%), Gaps = 25/197 (12%)

Query: 2   GKERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLV-KERNKCKGECLFLA 60
           GKERRFH LKLE GFDQFI L  FNDA  G+++ DTCV GAEV V  ER++ KGE L + 
Sbjct: 49  GKERRFHGLKLECGFDQFIKLSTFNDARYGFVLEDTCVLGAEVFVCGERSRGKGEVLSMK 108

Query: 61  KLTSASNYKHVWKIENFSK------------------KIKLYPKGQGVGRGSHISVYLAL 102
           K  +AS  K+ WKI +FSK                  KI LYPKG+G G G+H+S+YLAL
Sbjct: 109 KDPTAS--KYTWKIVDFSKLDEKRQESQIFSTGDHQWKIVLYPKGKGPGMGTHLSLYLAL 166

Query: 103 ADLSTITRDSKIYVHFTLRIRDQVLSKHNEK--KASTWLSTSSEDWGWSTFVELSYFNKA 160
            DL+T+    ++Y  +TLR+ DQ+  +  +   KA +W   SS + GWS +  LS + ++
Sbjct: 167 -DLATLPAGCRVYAEYTLRLVDQLYDRKFDMYGKAKSWFGASSSENGWSRYGLLSLY-QS 224

Query: 161 ENGFLMNDVCIVEAEVL 177
            N     D+C++EAEV+
Sbjct: 225 NNYLFAKDICMIEAEVI 241

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	183
TAIR|locus:2089045	309	AT3G17380 "AT3G17380" [Arabido	0.415	0.245	0.645	7.8e-23
TAIR|locus:2016590	396	ZW9 "AT1G58270" [Arabidopsis t	0.939	0.434	0.310	4.7e-19
TAIR|locus:2092329	363	AT3G20360 "AT3G20360" [Arabido	0.562	0.283	0.305	8.9e-19
TAIR|locus:2092344	379	AT3G20370 "AT3G20370" [Arabido	0.945	0.456	0.316	5.3e-17
TAIR|locus:2098318	370	AT3G28220 "AT3G28220" [Arabido	0.912	0.451	0.310	3.9e-15
TAIR|locus:2055998	420	AT2G04170 "AT2G04170" [Arabido	0.961	0.419	0.292	4.5e-15
TAIR|locus:2026745	231	AT1G69660 "AT1G69660" [Arabido	0.841	0.666	0.302	5.4e-15
TAIR|locus:2179744	351	AT5G26260 "AT5G26260" [Arabido	0.961	0.501	0.282	2e-14
TAIR|locus:2179699	350	AT5G26280 "AT5G26280" [Arabido	0.961	0.502	0.282	5.5e-14
TAIR|locus:2056008	411	AT2G04190 "AT2G04190" [Arabido	0.961	0.428	0.287	2.4e-13

TAIR|locus:2089045 AT3G17380 "AT3G17380" [Arabidopsis thaliana (taxid:3702)]

 Score = 264 (98.0 bits), Expect = 7.8e-23, P = 7.8e-23
 Identities = 51/79 (64%), Positives = 61/79 (77%)

Query:     2 GKERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLV-KERNKCKGECLFLA 60
             G ERRFH +K EWGFD+FIP   F+DASNGYL+ DTC+FGA+V V KER   +GECL + 
Sbjct:   109 GNERRFHSVKREWGFDKFIPTGTFSDASNGYLMEDTCMFGADVFVSKERRSGRGECLSMI 168

Query:    61 KLTSASNYKHVWKIENFSK 79
             K   A++ KHVWKIENFSK
Sbjct:   169 K--DATSSKHVWKIENFSK 185

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2016590 ZW9 "AT1G58270" [Arabidopsis thaliana (taxid:3702)]

 Score = 232 (86.7 bits), Expect = 4.7e-19, P = 4.7e-19
 Identities = 60/193 (31%), Positives = 100/193 (51%)

Query:     5 RRFHVLKLEWGFDQFIPLEEFNDASNGYLV-GDTCVFGAEV-LVKERNKCK--------G 54
             +RFH+ K +WG  QF+P+  F + + GY   G++ VFG ++ +VK     +         
Sbjct:   191 QRFHLFKQQWGLLQFLPIYYFENPAYGYFFEGESVVFGVDINIVKPFENWEVFSNEQNIR 250

Query:    55 ECLFLAKLTSASN-YKHVWKIENFSK-----KIKLYPKGQGVGRGSHISVYLALADLSTI 108
             + +F  +LT  S  +   +  ++FS       +K+YP G G   G+ +S+YL L+D S  
Sbjct:   251 DPIFEWRLTKFSTRFLDSYTSDSFSSGGRNWALKVYPNGVGNATGNSLSLYL-LSDQS-- 307

Query:   109 TRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSSEDWGWSTFVELSYFNKAENGFLMND 168
               + K YV   LR+ DQ+ S + EKK + W + +   WG+  F+  +       GFL+ND
Sbjct:   308 --NDKGYVEAKLRVIDQIQSNNFEKKVAAWPNATENGWGFDRFLSFADIKNTSKGFLVND 365

Query:   169 VCIVEAEVLRISK 181
                +E ++L  SK
Sbjct:   366 TLKLEVQILSFSK 378

GO:0003674 "molecular_function" evidence=ND

GO:0005737 "cytoplasm" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0009506 "plasmodesma" evidence=IDA

TAIR|locus:2092329 AT3G20360 "AT3G20360" [Arabidopsis thaliana (taxid:3702)]

 Score = 141 (54.7 bits), Expect = 8.9e-19, Sum P(2) = 8.9e-19
 Identities = 33/108 (30%), Positives = 56/108 (51%)

Query:    78 SKKIKLYPKGQGVGRGSHISVYLALA--DLSTITRDSKIYVHFTLRIRDQVLSKHN---E 132
             S  ++++  G G   G ++S+YL L   +L       K+YV   LR+ +Q  S+ N   E
Sbjct:   249 SWNLRIFKNGFGAFEGKNLSLYLNLGPQELLKAKPYDKVYVRAKLRVPNQFGSQSNLVLE 308

Query:   133 KKASTWLSTSSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLRIS 180
             +    W S  +  WG++ F+ LS    +  GFL+ND+ +V+  +  IS
Sbjct:   309 RPLDNWFSPQTIGWGYADFMPLSDLRNSSKGFLVNDMLVVQVAMEEIS 356

GO:0003674 "molecular_function" evidence=ND

GO:0005576 "extracellular region" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2092344 AT3G20370 "AT3G20370" [Arabidopsis thaliana (taxid:3702)]

 Score = 213 (80.0 bits), Expect = 5.3e-17, P = 5.3e-17
 Identities = 62/196 (31%), Positives = 92/196 (46%)

Query:     6 RFHVLKLEWGFDQFIPLEEFNDASNGYLV-GDTCVFGAEVLVKERNKCKGECL-----FL 59
             +F V K  WGF Q +P++ F D + GYL  GD C FG +V +    + K E       FL
Sbjct:   179 KFSVFKTMWGFSQVLPIDTFKDPTKGYLYDGDHCEFGVDVTMPSLYE-KSELFSVTENFL 237

Query:    60 -----------AKLTSASNYKHVWKIENFSKKIKLYPKGQGVGRGSHISVYLALADLSTI 108
                        + L   S    V+ I   S  I++ P G G G G  +S+YL L +++ I
Sbjct:   238 NPRFTWTIRGFSTLLKNSYLSEVFSIGGRSWNIQINPSGLGTGEGKALSMYLGL-NVNEI 296

Query:   109 TRD-SKIYVHFTLRIRDQVLSKHNEKKASTWLST---SSEDWGWSTFVELSYFNKAENGF 164
              R   KIYV   LR  +Q+   + E++   W +        WG+  F+   Y   +  GF
Sbjct:   297 FRPYEKIYVRAKLRALNQLNLSNIERELDIWYNGPGYGEYSWGFPEFIYFPYLTDSSKGF 356

Query:   165 LMNDVCIVEAEVLRIS 180
             + NDV +V+ E+  IS
Sbjct:   357 VKNDVLMVQVEMEAIS 372

GO:0003674 "molecular_function" evidence=ND

GO:0005576 "extracellular region" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0016020 "membrane" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

TAIR|locus:2098318 AT3G28220 "AT3G28220" [Arabidopsis thaliana (taxid:3702)]

 Score = 196 (74.1 bits), Expect = 3.9e-15, P = 3.9e-15
 Identities = 58/187 (31%), Positives = 90/187 (48%)

Query:     5 RRFHVLKLEWGFDQFIPLEEFNDASNGYLV-GDTCVFGAEVLVKER-NKCK--------G 54
             +RF + K  WG+    P  +  + + G+L  GD  +FG +V V E  NK +         
Sbjct:   176 KRFFLFKPYWGYGNVRPYTDVANPNAGWLFDGDNVLFGVDVFVTEVFNKWEVFSFTKSLH 235

Query:    55 ECLFLAKLTSASNY-KHVWKIENF-----SKKIKLYPKGQGVGRGSHISVYLALADLSTI 108
             + L+   L + S+  K  +  + F     S  +K+YP G G G+G+ +S+Y+   D+   
Sbjct:   236 DRLYKWTLPNFSSLEKQYYVSDKFVIGGRSWALKVYPSGDGEGQGNSLSLYVVAVDVKPY 295

Query:   109 TRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSSEDWGWSTFVELSYFNKAENGFLMND 168
                 KIY+   LRI +Q  SKH EKK  +W S  +  WG+  FV  +       G L+ND
Sbjct:   296 ---DKIYLKAKLRIINQRDSKHMEKKVESW-SDQANSWGFQKFVPFADLKDTSKGLLVND 351

Query:   169 VCIVEAE 175
                +E E
Sbjct:   352 TLKMEIE 358

GO:0003674 "molecular_function" evidence=ND

GO:0005737 "cytoplasm" evidence=ISM

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0005773 "vacuole" evidence=IDA

GO:0031540 "regulation of anthocyanin biosynthetic process" evidence=RCA

TAIR|locus:2055998 AT2G04170 "AT2G04170" [Arabidopsis thaliana (taxid:3702)]

 Score = 197 (74.4 bits), Expect = 4.5e-15, P = 4.5e-15
 Identities = 58/198 (29%), Positives = 93/198 (46%)

Query:     2 GKERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLVKERNKCKGECLFLAK 61
             G  +R++  K EWG+ + IPL  F D + GYL  D   FGAE+      + + +  F++ 
Sbjct:   219 GIVKRYNDAKKEWGYGKLIPLTTFLDTNEGYLEQDIASFGAEIFSGTAVQVQEKVTFIS- 277

Query:    62 LTSASNYKHVWKIENFSK-KIKLY-----------------PKGQGVGRGSHISVYLALA 103
               +  N    WKI +FS  + K Y                 PKG G GR   I ++L   
Sbjct:   278 --NPPNNVFTWKILHFSNLEDKFYYSDDFLVEDRYWRLGFNPKGTGDGRSQAIPIFLYAQ 335

Query:   104 DLSTITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSSE-DWGWSTFVELSYFNKAEN 162
                     +  +    LR+++Q  S H +  ++ W  T S+   G +T + L+ FN A  
Sbjct:   336 GHKPNAVATNTWGAVNLRLKNQRSSNHAQIYSAAWYPTRSDYGVGVNTIISLAEFNDASK 395

Query:   163 GFLMNDVCIVEAEVLRIS 180
             G+ +ND  I EAE++++S
Sbjct:   396 GYSVNDSIIFEAEMVKVS 413

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2026745 AT1G69660 "AT1G69660" [Arabidopsis thaliana (taxid:3702)]

 Score = 190 (71.9 bits), Expect = 5.4e-15, P = 5.4e-15
 Identities = 52/172 (30%), Positives = 84/172 (48%)

Query:     5 RRFHVLKLEWGFDQFIPLEEFNDASNGYLV-GDTCVFGAEVLVKERNKCKGECL-FLAKL 62
             +RF+ L++ WG  + +  + F +  NG++  G  C FG +VLV        E L F  KL
Sbjct:    34 KRFNALRMVWGLLKVLSYDTFTNPENGFIFEGGECEFGVDVLVAPP-LTNWEILSFDEKL 92

Query:    63 TSAS---NYKHVWKIEN---FSKK---------IKLYPKGQGVGRGSHISVYLALADLST 107
             +      N K+  +++     S K         +KLYPKG     G ++S+Y+ LAD  T
Sbjct:    93 SPPKFSWNLKNFSELKEDVYTSNKYPMGGKEWVLKLYPKGNSRADGKYLSLYVHLADSET 152

Query:   108 ITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSSEDWGWSTFVELSYFNK 159
             +  D K +    +R+ + + S H E ++S W   SS  WGW  F+ ++   K
Sbjct:   153 LKSDEKNFKQGHVRVLNPLGSNHVEVQSSCWYKESSRGWGWDHFLSIANLRK 204

GO:0003674 "molecular_function" evidence=ND

GO:0005737 "cytoplasm" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2179744 AT5G26260 "AT5G26260" [Arabidopsis thaliana (taxid:3702)]

 Score = 189 (71.6 bits), Expect = 2.0e-14, P = 2.0e-14
 Identities = 56/198 (28%), Positives = 91/198 (45%)

Query:     2 GKERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLVKERNKCKGECLFLAK 61
             G  +R++  K EWGF Q I L  F +A+ GYLV DT  FGAE+ +    + + +  F++ 
Sbjct:   150 GTVKRYNDAKKEWGFTQLISLPTFYNANEGYLVQDTASFGAEIFIVNPTEKQEKVTFISN 209

Query:    62 LTSASNYKHVWKIENFSK-KIKLY-----------------PKGQGVGRGSHISVYLALA 103
                  N    WKI  FS  + K Y                 PKG G GR   + ++L   
Sbjct:   210 --PPDNV-FTWKILRFSTLEDKFYYSDDFLVGDRYWRLGFNPKGSGGGRPHALPIFLYAQ 266

Query:   104 DLSTITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSSE-DWGWSTFVELSYFNKAEN 162
                     +  +    LR+++Q  S H +  ++ W    S+   G +  + +S    A  
Sbjct:   267 GHKANAVVTNTWGAVNLRLKNQRSSNHKQLYSAAWYPIRSDYGVGVNNIILMSELKDASK 326

Query:   163 GFLMNDVCIVEAEVLRIS 180
             G+++ND  I EAE++++S
Sbjct:   327 GYMVNDAIIFEAEMVKVS 344

GO:0003674 "molecular_function" evidence=ND

GO:0005576 "extracellular region" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

TAIR|locus:2179699 AT5G26280 "AT5G26280" [Arabidopsis thaliana (taxid:3702)]

 Score = 185 (70.2 bits), Expect = 5.5e-14, P = 5.5e-14
 Identities = 56/198 (28%), Positives = 92/198 (46%)

Query:     2 GKERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLVKERNKCKGECLFLAK 61
             G  +R++  K EWGF Q IP   F +A+ GYL  DT  FGAE+ + +  + + +  F++ 
Sbjct:   149 GLVKRYNNAKKEWGFGQLIPRSTFYNANEGYLDQDTGSFGAEIFIVKPAQQQEKVTFIS- 207

Query:    62 LTSASNYKHVWKIENFSK-KIKLY-----------------PKGQGVGRGSHISVYLALA 103
               +  N    WKI  FS  + K Y                 PKG G GR   + ++L   
Sbjct:   208 --NPPNNVFTWKILRFSTLEDKFYYSDDFLVEDRYWRLGFNPKGDGGGRPHALPIFLFAQ 265

Query:   104 DLSTITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSSE-DWGWSTFVELSYFNKAEN 162
                     +  +    LR+++Q  + H +  ++ W    S    G +  + L+  N A  
Sbjct:   266 GHKANAVATNTWGAVNLRLKNQRSTNHRQIYSAAWYPIGSGYGVGVNNIILLADLNDASK 325

Query:   163 GFLMNDVCIVEAEVLRIS 180
             G+L+ND  I EAE++++S
Sbjct:   326 GYLVNDAIIFEAEMVKVS 343

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

GO:0016020 "membrane" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

GO:0000041 "transition metal ion transport" evidence=RCA

TAIR|locus:2056008 AT2G04190 "AT2G04190" [Arabidopsis thaliana (taxid:3702)]

 Score = 181 (68.8 bits), Expect = 2.4e-13, P = 2.4e-13
 Identities = 57/198 (28%), Positives = 93/198 (46%)

Query:     2 GKERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLVKERNKCKGECLFLAK 61
             G ++R++    EWG+ + IPL  F D S GYL  DT  FGAE+ +    + + +  F++ 
Sbjct:   210 GIQKRYNYKNKEWGYGKLIPLSTFLDTSQGYLEQDTASFGAEIFLCPPIQVQEKVTFIS- 268

Query:    62 LTSASNYKHVWKIENFS--KKIKLY----------------PKGQGVGRGSHISVYLALA 103
               +  N    WKI +FS  + I  Y                PKG G GR   I ++L   
Sbjct:   269 --NPPNNVFTWKILHFSTLEDIVYYSDDFLVEDRYWRLGVNPKGTGDGRSQAIKIFLYAQ 326

Query:   104 DLSTITRDSKIYVHFTLRIRDQVLSKHNE-KKASTWLSTSSEDWGWSTFVELSYFNKAEN 162
                     S  +    LR+++Q  S H++   A+ +   +    G +T + L+  N A  
Sbjct:   327 GHKPNAVVSSTWGAVNLRVKNQRSSNHSQIYSAALYPIRNDYGVGVNTVLSLAELNDAVK 386

Query:   163 GFLMNDVCIVEAEVLRIS 180
              +L+ND  I EAE++++S
Sbjct:   387 EYLVNDSIIFEAEMVKVS 404

GO:0003674 "molecular_function" evidence=ND

GO:0005737 "cytoplasm" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0005739 "mitochondrion" evidence=IDA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

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	183
cd00121	126	cd00121, MATH, MATH (meprin and TRAF-C homology) d	4e-19
pfam00917	116	pfam00917, MATH, MATH domain	7e-04
cd03773	132	cd03773, MATH_TRIM37, Tripartite motif containing	0.001

>gnl|CDD|238068 cd00121, MATH, MATH (meprin and TRAF-C homology) domain; an independent folding unit with an eight-stranded beta-sandwich structure found in meprins, TRAFs and other proteins

 Score = 78.6 bits (194), Expect = 4e-19
 Identities = 32/127 (25%), Positives = 53/127 (41%), Gaps = 22/127 (17%)

Query: 69  KHVWKIENFSK------------------KIKLYPKGQGVGRGSHISVYLALADLSTITR 110
           KH WKI NFS+                  +I++YP G G   G ++S+YL L    +   
Sbjct: 2   KHTWKIVNFSELEGESIYSPPFEVGGYKWRIRIYPNGDGE-SGDYLSLYLELDKGESDLE 60

Query: 111 DSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSSE-DWGWSTFVELSYFNKAENGFLMNDV 169
              +   FTL++ +Q   K   K  +    +     WG+  F+         + +L++D 
Sbjct: 61  KWSVRAEFTLKLVNQNGGKSLSKSFTHVFFSEKGSGWGFPKFISWDDLED--SYYLVDDS 118

Query: 170 CIVEAEV 176
             +E EV
Sbjct: 119 LTIEVEV 125

Meprins comprise a class of extracellular metalloproteases which are anchored to the membrane and are capable of cleaving growth factors, extracellular matrix proteins, and biologically active peptides. TRAF molecules serve as adapter proteins that link cell surface receptors of the Tumor Necrosis Factor and 1nterleukin-1/Toll-like families to downstream kinase cascades, which results in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses in the immune and inflammatory systems. Other members include the ubiquitin ligases, TRIM37 and SPOP, and the ubiquitin-specific proteases, HAUSP and Ubp21p. A large number of uncharacterized members mostly from lineage-specific expansions in C. elegans and rice contain MATH and BTB domains, similar to SPOP. The MATH domain has been shown to bind peptide/protein substrates in TRAFs and HAUSP. It is possible that the MATH domain in other members of this superfamily also interacts with various protein substrates. The TRAF domain may also be involved in the trimerization of TRAFs. Based on homology, it is postulated that the MATH domain in meprins may be involved in its tetramer assembly and that the MATH domain, in general, may take part in diverse modular arrangements defined by adjacent multimerization domains. Length = 126

>gnl|CDD|216189 pfam00917, MATH, MATH domain

 Score = 37.3 bits (87), Expect = 7e-04
 Identities = 25/124 (20%), Positives = 46/124 (37%), Gaps = 20/124 (16%)

Query: 54  GECLFLAKLTSASNYKHVWKIENFSKKIKLYPKGQGVGRGSHISVYL-ALADLSTITRDS 112
           GE  + +           W++       ++Y  G        + +YL             
Sbjct: 10  GENYYTSPYEERFGIP--WRL-------RIYRNG------GFLGLYLHCEKGEKDELLGW 54

Query: 113 KIYVHFTLRIRDQVLSKHNEKKASTWLSTSSEDWGWSTFVELSYFNKAENGFLMNDVCIV 172
            I   FTL++      K   K+  + + T    +GW  F+     +  EN ++++D  I+
Sbjct: 55  SIETEFTLKLVSD-NGKSLTKRNKSHVFTKPTGYGWGKFISW---DDLENDYVVDDTIII 110

Query: 173 EAEV 176
           EAEV
Sbjct: 111 EAEV 114

This motif has been called the Meprin And TRAF-Homology (MATH) domain. This domain is hugely expanded in the nematode C. elegans. Length = 116

>gnl|CDD|239742 cd03773, MATH_TRIM37, Tripartite motif containing protein 37 (TRIM37) family, MATH domain; TRIM37 is a peroxisomal protein and is a member of the tripartite motif (TRIM) protein subfamily, also known as the RING-B-box-coiled-coil (RBCC) subfamily of zinc-finger proteins

 Score = 37.0 bits (86), Expect = 0.001
 Identities = 23/89 (25%), Positives = 36/89 (40%), Gaps = 6/89 (6%)

Query: 77  FSKKIKLYPKGQGVGRGSHISVYLALADLSTITRDSKIYVHFTLRIRDQVLSKHNEKKAS 136
              ++K+YP G G  RG+ +SV+L L         SK    + + +  Q     N K+  
Sbjct: 34  LCWRLKVYPDGNGEVRGNFLSVFLELCSGLGE--ASKYE--YRVEMVHQANPTKNIKREF 89

Query: 137 TWLSTSSEDWGWSTFVELSYFNKAENGFL 165
                  E WG++ F  L        G+L
Sbjct: 90  ASDFEVGECWGYNRFFRLDLL--INEGYL 116

Mutations in the human TRIM37 gene (also known as MUL) cause Mulibrey (muscle-liver-brain-eye) nanism, a rare growth disorder of prenatal onset characterized by dysmorphic features, pericardial constriction and hepatomegaly. TRIM37, similar to other TRIMs, contains a cysteine-rich, zinc-binding RING-finger domain followed by another cysteine-rich zinc-binding domain, the B-box, and a coiled-coil domain. TRIM37 is autoubiquitinated in a RING domain-dependent manner, indicating that it functions as an ubiquitin E3 ligase. In addition to the tripartite motif, TRIM37 also contains a MATH domain C-terminal to the coiled-coil domain. The MATH domain of TRIM37 has been shown to interact with the TRAF domain of six known TRAFs in vitro, however, it is unclear whether this is physiologically relevant. Eleven TRIM37 mutations have been associated with Mulibrey nanism so far. One mutation, Gly322Val, is located in the MATH domain and is the only mutation that does not affect the length of the protein. It results in the incorrect subcellular localization of TRIM37. Length = 132

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	183
cd03772	137	MATH_HAUSP Herpesvirus-associated ubiquitin-specif	99.92
cd03775	134	MATH_Ubp21p Ubiquitin-specific protease 21 (Ubp21p	99.91
cd03774	139	MATH_SPOP Speckle-type POZ protein (SPOP) family,	99.9
cd03778	164	MATH_TRAF2 Tumor Necrosis Factor Receptor (TNFR) A	99.89
cd03779	147	MATH_TRAF1 Tumor Necrosis Factor Receptor (TNFR) A	99.89
cd03773	132	MATH_TRIM37 Tripartite motif containing protein 37	99.87
cd00270	149	MATH_TRAF_C Tumor Necrosis Factor Receptor (TNFR)-	99.87
cd03780	148	MATH_TRAF5 Tumor Necrosis Factor Receptor (TNFR)-A	99.86
cd03776	147	MATH_TRAF6 Tumor Necrosis Factor Receptor (TNFR)-A	99.85
cd03781	154	MATH_TRAF4 Tumor Necrosis Factor Receptor (TNFR)-A	99.84
cd03777	186	MATH_TRAF3 Tumor Necrosis Factor Receptor (TNFR)-A	99.84
cd00121	126	MATH MATH (meprin and TRAF-C homology) domain; an	99.83
cd03771	167	MATH_Meprin Meprin family, MATH domain; Meprins ar	99.82
PF00917	119	MATH: MATH domain; InterPro: IPR002083 Although ap	99.77
cd03783	167	MATH_Meprin_Alpha Meprin family, Alpha subunit, MA	99.68
cd03782	167	MATH_Meprin_Beta Meprin family, Beta subunit, MATH	99.67
smart00061	95	MATH meprin and TRAF homology.	99.48
COG5077	1089	Ubiquitin carboxyl-terminal hydrolase [Posttransla	99.11
cd03772	137	MATH_HAUSP Herpesvirus-associated ubiquitin-specif	98.65
cd03775	134	MATH_Ubp21p Ubiquitin-specific protease 21 (Ubp21p	98.51
KOG1987	297	consensus Speckle-type POZ protein SPOP and relate	98.43
cd03774	139	MATH_SPOP Speckle-type POZ protein (SPOP) family,	98.13
KOG1987	297	consensus Speckle-type POZ protein SPOP and relate	97.92
PF00917	119	MATH: MATH domain; InterPro: IPR002083 Although ap	97.91
KOG1863	1093	consensus Ubiquitin carboxyl-terminal hydrolase [P	97.81
cd03773	132	MATH_TRIM37 Tripartite motif containing protein 37	97.52
cd00121	126	MATH MATH (meprin and TRAF-C homology) domain; an	97.1
KOG0297	391	consensus TNF receptor-associated factor [Signal t	96.34
COG5077	1089	Ubiquitin carboxyl-terminal hydrolase [Posttransla	94.78
KOG1863	1093	consensus Ubiquitin carboxyl-terminal hydrolase [P	92.69

>cd03772 MATH_HAUSP Herpesvirus-associated ubiquitin-specific protease (HAUSP, also known as USP7) family, N-terminal MATH (TRAF-like) domain; composed of proteins similar to human HAUSP, an enzyme that specifically catalyzes the deubiquitylation of p53 and MDM2, hence playing an important role in the p53-MDM2 pathway

Probab=99.92  E-value=1.7e-24  Score=160.08  Aligned_cols=112  Identities=21%  Similarity=0.324  Sum_probs=92.3

Q ss_pred             CcEEEEEEcCccc-----------------eeeEeeCCCCC--CCCCeEEEEEEecCCCCCCCCCeEEEEEEEEEEcCCC
Q 030100           67 NYKHVWKIENFSK-----------------KIKLYPKGQGV--GRGSHISVYLALADLSTITRDSKIYVHFTLRIRDQVL  127 (183)
Q Consensus        67 ~~~~~W~I~nfS~-----------------~l~~yP~G~~~--~~~~~lSlyL~l~~~~~~~~~w~i~~~f~l~ll~q~~  127 (183)
                      .++|+|+|+|||.                 +|++||+|...  +..++||+||+|.+... ..+|++.|+|+|+|+||.+
T Consensus         2 ~~~~~~~I~~~S~l~e~~~S~~f~vgG~~W~i~~~P~g~~~~~~~~~~lsvyL~~~~~~~-~~~w~i~a~~~~~l~~~~~   80 (137)
T cd03772           2 EATFSFTVERFSRLSESVLSPPCFVRNLPWKIMVMPRNYPDRNPHQKSVGFFLQCNAESD-STSWSCHAQAVLRIINYKD   80 (137)
T ss_pred             CcEEEEEECCcccCCCcEECCCEEECCcceEEEEEeCCCCCCCCCCCeEEEEEeeCCcCC-CCCCeEEEEEEEEEEcCCC
Confidence            4678888888887                 99999999654  33589999999976433 3489999999999999985


Q ss_pred             C-cccccccceeeccCCCCccccceeeccccccCCCCeeeCCEEEEEEEEEEE
Q 030100          128 S-KHNEKKASTWLSTSSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLRI  179 (183)
Q Consensus       128 ~-~~~~~~~~~~F~~~~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~i~  179 (183)
                      . .+......++|......|||++||+|++|.++++|||+||+|+|||+|+|-
T Consensus        81 ~~~~~~~~~~~~f~~~~~~~G~~~fi~~~~L~~~~sgyl~~D~l~Ie~~V~~~  133 (137)
T cd03772          81 DEPSFSRRISHLFFSKENDWGFSNFMTWSEVTDPEKGFIEDDTITLEVYVQAD  133 (137)
T ss_pred             CcccEEEeeeeEEcCCCCCccchheeEHHHhcCCCCCcEECCEEEEEEEEEee
Confidence            3 333444557887666899999999999998777999999999999999874

It contains an N-terminal TRAF-like domain and a C-terminal catalytic protease (C19 family) domain. The tumor suppressor p53 protein is a transcription factor that responds to many cellular stress signals and is regulated primarily through ubiquitylation and subsequent degradation. MDM2 is a RING-finger E3 ubiquitin ligase that promotes p53 ubiquitinylation. p53 and MDM2 bind to the same site in the N-terminal TRAF-like domain of HAUSP in a mutually exclusive manner. HAUSP also interacts with the Epstein-Barr nuclear antigen 1 (EBNA1) protein of the Epstein-Barr virus (EBV), which efficiently immortalizes infected cells predisposing the host to a variety of cancers. EBNA1

>cd03775 MATH_Ubp21p Ubiquitin-specific protease 21 (Ubp21p) family, MATH domain; composed of fungal proteins with similarity to Ubp21p of fission yeast

Probab=99.91  E-value=8.4e-24  Score=155.86  Aligned_cols=107  Identities=24%  Similarity=0.464  Sum_probs=89.9

Q ss_pred             EEEEEEcCccc-----------------eeeEeeCCCCCCCCCeEEEEEEecCCCC----CCCCCeEEEEEEEEEEcCCC
Q 030100           69 KHVWKIENFSK-----------------KIKLYPKGQGVGRGSHISVYLALADLST----ITRDSKIYVHFTLRIRDQVL  127 (183)
Q Consensus        69 ~~~W~I~nfS~-----------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~----~~~~w~i~~~f~l~ll~q~~  127 (183)
                      +|+|+|+|||.                 +|++||+|+..  .+|+|+||++.+.+.    .+++|.+.|+|+|+|+||.+
T Consensus         2 ~f~w~I~~fS~~~~~~~S~~F~vGG~~W~l~~yP~G~~~--~~~iSlyL~l~~~~~~~~~~~~~~~v~a~f~~~l~n~~~   79 (134)
T cd03775           2 SFTWRIKNWSELEKKVHSPKFKCGGFEWRILLFPQGNSQ--TGGVSIYLEPHPEEEEKAPLDEDWSVCAQFALVISNPGD   79 (134)
T ss_pred             cEEEEECCcccCCcceeCCCEEECCeeEEEEEeCCCCCC--CCeEEEEEEecCcccccccCCCCCeEEEEEEEEEEcCCC
Confidence            58999999987                 99999999876  689999999976544    25789999999999999975


Q ss_pred             Cc-ccccccceeeccCCCCccccceeeccccccC----CCCeeeCCEEEEEEEEE
Q 030100          128 SK-HNEKKASTWLSTSSEDWGWSTFVELSYFNKA----ENGFLMNDVCIVEAEVL  177 (183)
Q Consensus       128 ~~-~~~~~~~~~F~~~~~~wG~~~Fi~~~~L~~~----~~gyl~nD~l~Ie~~V~  177 (183)
                      +. +......++|+....+|||.+||++++|+++    .+|||+||+|+|+|.|.
T Consensus        80 ~~~~~~~~~~~~F~~~~~~wG~~~fi~~~~L~~~~~~~~~g~l~nD~l~I~~~~~  134 (134)
T cd03775          80 PSIQLSNVAHHRFNAEDKDWGFTRFIELRKLAHRTPDKPSPFLENGELNITVYVR  134 (134)
T ss_pred             CccceEccceeEeCCCCCCCChhHcccHHHHcccccCCCCceeECCEEEEEEEEC
Confidence            43 3344557899876789999999999999954    57999999999999873

Ubp21p is a deubiquitinating enzyme that may be involved in the regulation of the protein kinase Prp4p, which controls the formation of active spliceosomes. Members of this family are similar to human HAUSP (Herpesvirus-associated ubiquitin-specific protease) in that they contain an N-terminal MATH domain and a C-terminal catalytic protease (C19 family) domain. HAUSP is also an ubiquitin-specific protease that specifically catalyzes the deubiquitylation of p53 and MDM2. The MATH domain of HAUSP contains the binding site for p53 and MDM2. Similarly, the MATH domain of members in this family may be involved in substrate binding.

>cd03774 MATH_SPOP Speckle-type POZ protein (SPOP) family, MATH domain; composed of proteins with similarity to human SPOP

Probab=99.90  E-value=2.4e-23  Score=154.16  Aligned_cols=96  Identities=22%  Similarity=0.410  Sum_probs=79.3

Q ss_pred             eeeEeeCCCCCCCCCeEEEEEEecCCCCCCCCCeEEEEEEEEEEcCCCCccc--ccccceeeccCCCCccccceeecccc
Q 030100           80 KIKLYPKGQGVGRGSHISVYLALADLSTITRDSKIYVHFTLRIRDQVLSKHN--EKKASTWLSTSSEDWGWSTFVELSYF  157 (183)
Q Consensus        80 ~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~~~w~i~~~f~l~ll~q~~~~~~--~~~~~~~F~~~~~~wG~~~Fi~~~~L  157 (183)
                      +|++||+|...+..+|+||||++++.+    .+++.|+|+|+|+||.+....  .....+.|.. ..+|||.+||++++|
T Consensus        41 ~l~~yP~G~~~~~~~~iSlyL~l~~~~----~~~v~a~f~~~l~n~~~~~~~~~~~~~~~~f~~-~~~wG~~~fi~~~~L  115 (139)
T cd03774          41 CLRVNPKGLDEESKDYLSLYLLLVSCP----KSEVRAKFKFSILNAKGEETKAMESQRAYRFVQ-GKDWGFKKFIRRDFL  115 (139)
T ss_pred             EEEEeCCCCCCCCCCeEEEEEEEccCC----CCcEEEEEEEEEEecCCCeeeeecccCcEeCCC-CCccCHHHeeeHHHh
Confidence            799999998766679999999997532    367999999999999875532  2223466763 578999999999999


Q ss_pred             ccCCCCeeeCCEEEEEEEEEEEe
Q 030100          158 NKAENGFLMNDVCIVEAEVLRIS  180 (183)
Q Consensus       158 ~~~~~gyl~nD~l~Ie~~V~i~~  180 (183)
                      .++.+|||+||+|+|+|+|+|++
T Consensus       116 ~~~~~g~l~dD~l~I~c~I~V~~  138 (139)
T cd03774         116 LDEANGLLPDDKLTLFCEVSVVQ  138 (139)
T ss_pred             hhhhcccccCCEEEEEEEEEEEc
Confidence            87778999999999999999985

SPOP was isolated as a novel antigen recognized by serum from a scleroderma patient, whose overexpression in COS cells results in a discrete speckled pattern in the nuclei. It contains an N-terminal MATH domain and a C-terminal BTB (also called POZ) domain. Together with Cul3, SPOP constitutes an ubiquitin E3 ligase which is able to ubiquitinate the PcG protein BMI1, the variant histone macroH2A1 and the death domain-associated protein Daxx. Therefore, SPOP may be involved in the regulation of these proteins and may play a role in transcriptional regulation, apoptosis and X-chromosome inactivation. Cul3 binds to the BTB domain of SPOP whereas Daxx and the macroH2A1 nonhistone region have been shown to bind to the MATH domain. Both MATH and BTB domains are necessary for the nuclear speckled accumulation of SPOP. There are many proteins, mostly uncharacterized, conta

>cd03778 MATH_TRAF2 Tumor Necrosis Factor Receptor (TNFR) Associated Factor (TRAF) family, TRAF2 subfamily, TRAF domain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses

Probab=99.89  E-value=8.1e-23  Score=154.48  Aligned_cols=112  Identities=22%  Similarity=0.375  Sum_probs=95.0

Q ss_pred             CCCCcEEEEEEcCccc---------------------------eeeEeeCCCCCCCCCeEEEEEEecCCCCCC-CCCeEE
Q 030100           64 SASNYKHVWKIENFSK---------------------------KIKLYPKGQGVGRGSHISVYLALADLSTIT-RDSKIY  115 (183)
Q Consensus        64 ~~~~~~~~W~I~nfS~---------------------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~-~~w~i~  115 (183)
                      ...+++|+|+|+|||.                           +|++||+|++.+++.||||||++.+++.++ .+|++.
T Consensus        15 ~~~~g~fiWkI~~fs~~~~~a~~~~~~~i~Sp~Fyt~~~GYk~~l~~ylnG~g~~~g~~LSly~~l~~Ge~D~~L~WPf~   94 (164)
T cd03778          15 STYDGVFIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGTGRGTHLSLFFVVMKGPNDALLRWPFN   94 (164)
T ss_pred             cccCCEEEEEECcHHHHHHHHhcCCCceEECCCcccCCCCeEEEEEEEeCCCCCCCCCEEEEEEEEecCCcCcccCCcee
Confidence            4568999999999997                           899999999998899999999999998877 899999


Q ss_pred             EEEEEEEEcCCCCcccccccc-----eeec----cCCCCccccceeeccccccCCCCeeeCCEEEEEEEE
Q 030100          116 VHFTLRIRDQVLSKHNEKKAS-----TWLS----TSSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEV  176 (183)
Q Consensus       116 ~~f~l~ll~q~~~~~~~~~~~-----~~F~----~~~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V  176 (183)
                      .+++|+|+||.+++|......     ..|.    ..+.+||++.|+++++|+.+ .|||+||+|.|+|.|
T Consensus        95 ~~itl~llDQ~~r~hi~~~~~pd~~~~~f~RP~~~~n~~~G~~~Fv~l~~l~~~-~~Yv~dDtlfIk~~V  163 (164)
T cd03778          95 QKVTLMLLDQNNREHVIDAFRPDVTSSSFQRPVNDMNIASGCPLFCPVSKXEAK-NSYVRDDAIFIKAIV  163 (164)
T ss_pred             eEEEEEEECCCCCCcceeEEEcCcchHhcCCCCcccccCcCcceEEEhhHcccc-CCcccCCeEEEEEEE
Confidence            999999999987666533221     1342    23458999999999999864 699999999999987

TRAF2 associates with the receptors TNFR-1, TNFR-2, RANK (which mediates differentiation and maturation of osteoclasts) and CD40 (which is important for the proliferation and activation of B cells), among others. It regulates distinct pathways that lead to the activation of nuclear factor-kappaB and Jun NH2-terminal kinases. TRAF2 also indirectly associates with death receptors through its interaction with TRADD (TNFR-associated death domain protein). It is involved in regulating oxidative stress or ROS-induced cell death and in the preconditioning of cells by sublethal stress for protection from subsequent injury. TRAF2 contains a RING finger domain, five z

>cd03779 MATH_TRAF1 Tumor Necrosis Factor Receptor (TNFR) Associated Factor (TRAF) family, TRAF1 subfamily, TRAF domain, C-terminal MATH subdomain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses

Probab=99.89  E-value=2.4e-22  Score=150.01  Aligned_cols=110  Identities=21%  Similarity=0.321  Sum_probs=86.8

Q ss_pred             cEEEEEEcCccc---------------------------eeeEeeCCCCCCCCCeEEEEEEecCCCCC-CCCCeEEEEEE
Q 030100           68 YKHVWKIENFSK---------------------------KIKLYPKGQGVGRGSHISVYLALADLSTI-TRDSKIYVHFT  119 (183)
Q Consensus        68 ~~~~W~I~nfS~---------------------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~~-~~~w~i~~~f~  119 (183)
                      |.|.|+|.||+.                           +|++||||.+.+.++|+|+||++++++.. -..|++.++++
T Consensus         1 g~~~W~i~~f~~~~~~a~~~~~~~~~S~~Fyt~~~Gy~w~i~~ypnG~~~~~~~~iSv~l~l~~g~~D~~l~wpv~~~~t   80 (147)
T cd03779           1 GTFLWKITDVSQKQRESSHGRDVSLCSPAFYTAKYGYKVCLRLYLNGDGAGKGTHISLFFVIMKGEYDALLPWPFRHKVT   80 (147)
T ss_pred             CeEEEEECcHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEcCCCCCCCCCEEEEEEEEecCCcccccCcceEEEEE
Confidence            467888888886                           99999999998778999999999876432 24799999999


Q ss_pred             EEEEcCCCCcccc--ccc---ceeec----cCCCCccccceeeccccccCCCCeeeCCEEEEEEEEE
Q 030100          120 LRIRDQVLSKHNE--KKA---STWLS----TSSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVL  177 (183)
Q Consensus       120 l~ll~q~~~~~~~--~~~---~~~F~----~~~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~  177 (183)
                      |+|+||.+..+..  ...   .+.|.    ..+.+||+++||++++|+....+||.||+++|+|+|.
T Consensus        81 fsLlDq~~~~~~~~~~~~~~~~~~F~rP~~~~n~~~G~~~Fi~~~~Le~s~~~ylkDD~~~Irc~V~  147 (147)
T cd03779          81 FMLLDQNNREHVIDAFRPDLSSASFQRPVSDMNVASGCPLFFPLKKLQSPKHAYCKDDTIYIKCVVD  147 (147)
T ss_pred             EEEECCCCCCCCcEeecCCcccccccCcccCCCCCcchhheeEHHHhcccCCCcEeCCEEEEEEEEC
Confidence            9999997644321  111   25686    2345799999999999985334899999999999983

TRAF1 expression is the most restricted among the TRAFs. It is found exclusively in activated lymphocytes, dendritic cells and certain epithelia. TRAF1 associates, directly or indirectly through heterodimerization with TRAF2, with the TNFR family receptors TNFR-2, CD30, RANK, CD40 and LMP1, among others. It also binds the intracellular proteins TRADD, TANK, TRIP, RIP1, RIP2 and FLIP. TRAF1 is unique among the TRAFs in that it lacks a RING domain, which is critical for the activation of nuclear factor-kappaB and Jun NH2-terminal kinase. Studies on TRAF1-deficient mice suggest that TRAF1 has a negative regulatory role in TNFR-mediat

>cd03773 MATH_TRIM37 Tripartite motif containing protein 37 (TRIM37) family, MATH domain; TRIM37 is a peroxisomal protein and is a member of the tripartite motif (TRIM) protein subfamily, also known as the RING-B-box-coiled-coil (RBCC) subfamily of zinc-finger proteins

Probab=99.87  E-value=8.8e-22  Score=144.31  Aligned_cols=106  Identities=25%  Similarity=0.494  Sum_probs=86.5

Q ss_pred             CCCcEEEEEEcCccc--------------------eeeEeeCCCCCCCCCeEEEEEEecCCCCCCCCCeEEEEEEEEEEc
Q 030100           65 ASNYKHVWKIENFSK--------------------KIKLYPKGQGVGRGSHISVYLALADLSTITRDSKIYVHFTLRIRD  124 (183)
Q Consensus        65 ~~~~~~~W~I~nfS~--------------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~~~w~i~~~f~l~ll~  124 (183)
                      ++.++++|+|+|||.                    +|++||+|...+.++|||+||++.++    ..|.+.++|+|+|+|
T Consensus         2 ~~~~~~~~~I~~fS~~~~~~~~~~S~~F~vgG~~W~i~~yP~G~~~~~~~~lSl~L~l~~~----~~~~~~~~~~l~lln   77 (132)
T cd03773           2 PPYDSATFTLENFSTLRQSADPVYSDPLNVDGLCWRLKVYPDGNGEVRGNFLSVFLELCSG----LGEASKYEYRVEMVH   77 (132)
T ss_pred             CCCcccEEEECChhhhhcCCcceeCCCeEeCCccEEEEEECCCCCCCCCCEEEEEEEeecC----CCCceeEEEEEEEEc
Confidence            456778899988885                    99999999887678999999998763    236788999999999


Q ss_pred             CC-CCcccccccceeeccCCCCccccceeeccccccCCCCeeeC--CEEEEEEEEE
Q 030100          125 QV-LSKHNEKKASTWLSTSSEDWGWSTFVELSYFNKAENGFLMN--DVCIVEAEVL  177 (183)
Q Consensus       125 q~-~~~~~~~~~~~~F~~~~~~wG~~~Fi~~~~L~~~~~gyl~n--D~l~Ie~~V~  177 (183)
                      |. ..++......++|.. ..+|||.+||++++|++  +|||+|  |+|+|+|.|.
T Consensus        78 q~~~~~~~~~~~~~~f~~-~~~wG~~~Fi~~~~L~~--~gfl~~~~D~l~i~~~v~  130 (132)
T cd03773          78 QANPTKNIKREFASDFEV-GECWGYNRFFRLDLLIN--EGYLLPENDTLILRFSVR  130 (132)
T ss_pred             CCCCccceEEeccccccC-CCCcCHHHhccHHHHhh--CCCcCCCCCEEEEEEEEe
Confidence            94 333444455677864 56899999999999974  799999  9999999985

Mutations in the human TRIM37 gene (also known as MUL) cause Mulibrey (muscle-liver-brain-eye) nanism, a rare growth disorder of prenatal onset characterized by dysmorphic features, pericardial constriction and hepatomegaly. TRIM37, similar to other TRIMs, contains a cysteine-rich, zinc-binding RING-finger domain followed by another cysteine-rich zinc-binding domain, the B-box, and a coiled-coil domain. TRIM37 is autoubiquitinated in a RING domain-dependent manner, indicating that it functions as an ubiquitin E3 ligase. In addition to the tripartite motif, TRIM37 also contains a MATH domain C-terminal to the coiled-coil domain. The MATH domain of TRIM37 has been shown to interact with the TRAF domain of six known TRAFs i

>cd00270 MATH_TRAF_C Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF domain, C-terminal MATH subdomain; TRAF molecules serve as adapter proteins that link cell surface TNFRs and receptors of the interleukin-1/Toll-like family to downstream kinase signaling cascades which results in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses in the immune and inflammatory systems

Probab=99.87  E-value=2e-21  Score=145.28  Aligned_cols=96  Identities=24%  Similarity=0.425  Sum_probs=76.0

Q ss_pred             eeeEeeCCCCCCCCCeEEEEEEecCCCCC-CCCCeEEEEEEEEEEcCCCC---cccccc-----cceeec-----cCCCC
Q 030100           80 KIKLYPKGQGVGRGSHISVYLALADLSTI-TRDSKIYVHFTLRIRDQVLS---KHNEKK-----ASTWLS-----TSSED  145 (183)
Q Consensus        80 ~l~~yP~G~~~~~~~~lSlyL~l~~~~~~-~~~w~i~~~f~l~ll~q~~~---~~~~~~-----~~~~F~-----~~~~~  145 (183)
                      +|++||+|...+.++||||||++.+++.. ..+|++.++|+|+|+||.++   ++....     ..+.|.     .+..+
T Consensus        40 ~i~~yP~G~~~~~~~~lsl~L~l~~~~~d~~~~w~~~~~~~~~l~d~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~  119 (149)
T cd00270          40 CLRLYLNGDGTGKGTHLSLFVHVMKGEYDALLEWPFRGKITLTLLDQSDDSKRKHITETFMPDPNSSAFQRPPTGENNIG  119 (149)
T ss_pred             EEEEEeCCCCCCCCCEEEEEEEEeccCCCccccCCccceEEEEEECCCCccccCceEEEEEcCCchHhhcCCCcccCCCC
Confidence            89999999977667899999999876543 36799999999999999873   222111     123454     13478


Q ss_pred             ccccceeeccccccCCCCeeeCCEEEEEEEEE
Q 030100          146 WGWSTFVELSYFNKAENGFLMNDVCIVEAEVL  177 (183)
Q Consensus       146 wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~  177 (183)
                      |||.+||++++|++  .|||+||+|+|+|+|.
T Consensus       120 ~G~~~fi~~~~L~~--~gfl~dD~l~I~~~v~  149 (149)
T cd00270         120 FGYPEFVPLEKLES--RGYVKDDTLFIKVEVD  149 (149)
T ss_pred             cCcceEeEHHHhcc--CCCEeCCEEEEEEEEC
Confidence            99999999999985  5899999999999984

There are at least six mammalian and three Drosophila proteins containing TRAF domains. The mammalian TRAFs display varying expression profiles, indicating independent and cell type-specific regulation. They display distinct, as well as overlapping functions and interactions with receptors. Most TRAFs, except TRAF1, share N-terminal homology and contain a RING domain, multiple zinc finger domains, and a TRAF domain. TRAFs form homo- and heterotrimers through its TRAF domain. The TRAF domain can be divided into a more divergent N-ter

>cd03780 MATH_TRAF5 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF5 subfamily, TRAF domain, C-terminal MATH subdomain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses

Probab=99.86  E-value=4.3e-21  Score=143.60  Aligned_cols=97  Identities=24%  Similarity=0.326  Sum_probs=78.2

Q ss_pred             eeeEeeCCCCCCCCCeEEEEEEecCCCCCC-CCCeEEEEEEEEEEcCCCCc-cc--cc---ccceeeccC----CCCccc
Q 030100           80 KIKLYPKGQGVGRGSHISVYLALADLSTIT-RDSKIYVHFTLRIRDQVLSK-HN--EK---KASTWLSTS----SEDWGW  148 (183)
Q Consensus        80 ~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~-~~w~i~~~f~l~ll~q~~~~-~~--~~---~~~~~F~~~----~~~wG~  148 (183)
                      +|++||||...+.++|||+||++++++.++ ..|++.++++|+|+||.+.. +.  ..   ...+.|...    +.+||+
T Consensus        40 ~i~~ypnG~~~~~~~~iSv~l~l~~g~~D~~l~wp~~~~~tfsLlDq~~~~~~~~~~~~~~~~~~~F~rp~~~~n~~~G~  119 (148)
T cd03780          40 CARAYLNGDGSGKGTHLSLYFVVMRGEFDSLLQWPFRQRVTLMLLDQSGKKNHIMETFKADPNSSSFKRPDGEMNIASGC  119 (148)
T ss_pred             EEEEEcCCCCCCCCCEEEEEEEEecCccccccCcceEEEEEEEEECCCCCCCCcceeeecCCccccccCCCCCCCCCcCh
Confidence            999999999887889999999999865543 57999999999999997533 21  11   113557643    457999


Q ss_pred             cceeeccccccCCCCeeeCCEEEEEEEE
Q 030100          149 STFVELSYFNKAENGFLMNDVCIVEAEV  176 (183)
Q Consensus       149 ~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V  176 (183)
                      ++||++++|+.++.+||.||+++|+|.|
T Consensus       120 ~~Fi~~~~Le~s~~~ylkdD~~~Ik~~v  147 (148)
T cd03780         120 PRFVAHSVLENAKNTYIKDDTLFLKVAV  147 (148)
T ss_pred             hheeEHHHhhcccCCcCcCCEEEEEEEE
Confidence            9999999998644689999999999987

TRAF5 was identified as an activator of nuclear factor-kappaB and a regulator of lymphotoxin-beta receptor and CD40 signaling. Its interaction with CD40 is indirect, involving hetero-oligomerization with TRAF3. In addition, TRAF5 has been shown to associate with other TNFRs including CD27, CD30, OX40 and GITR (glucocorticoid-induced TNFR). It plays a role in modulating Th2 immune responses (driven by OX40 costimulation) and T-cell activation (triggered by GITR). It is also involved in osteoclastogenesis. TRAF5 contains a RING finger domain, five zinc finger domains, and a TRAF domain. The TRAF domain can be divided into a more dive

>cd03776 MATH_TRAF6 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF6 subfamily, TRAF domain, C-terminal MATH subdomain; composed of proteins with similarity to human TRAF6, including the Drosophila protein DTRAF2

Probab=99.85  E-value=4.1e-21  Score=143.63  Aligned_cols=101  Identities=18%  Similarity=0.176  Sum_probs=79.9

Q ss_pred             cEEEEEEcCccceeeEeeCCCCCCCCCeEEEEEEecCCCC-CCCCCeEEEEEEEEEEcCCCCc-ccc-----cccceeec
Q 030100           68 YKHVWKIENFSKKIKLYPKGQGVGRGSHISVYLALADLST-ITRDSKIYVHFTLRIRDQVLSK-HNE-----KKASTWLS  140 (183)
Q Consensus        68 ~~~~W~I~nfS~~l~~yP~G~~~~~~~~lSlyL~l~~~~~-~~~~w~i~~~f~l~ll~q~~~~-~~~-----~~~~~~F~  140 (183)
                      +.|.|       +|++||+|...+..+|||+||++.+.+. ...+|++.++++|+|+||.+.. +..     ......|.
T Consensus        35 gGy~W-------~i~~yP~G~~~~~~~~lS~~L~l~~~~~d~~l~wpv~a~~~~~lldq~~~~~~~~~~~~~~~~~~~F~  107 (147)
T cd03776          35 PGYKL-------CARLNLSLPEARCPNYISLFVHLMQGENDSHLDWPFQGTITLTLLDQSEPRQNIHETMMSKPELLAFQ  107 (147)
T ss_pred             CCceE-------EEEEEeCCCCCCCCCEEEEEEEEeccCCCcccCCcccceeEEEEECCCcccCccEEEEEcCCChHhhc
Confidence            46777       9999999998777899999999987654 2357999999999999998632 211     12234565


Q ss_pred             c-----CCCCccccceeeccccccCCCCeeeCCEEEEEEEEE
Q 030100          141 T-----SSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVL  177 (183)
Q Consensus       141 ~-----~~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~  177 (183)
                      .     +..+|||.+||++++|+.  .+||+||+|+|+|+|.
T Consensus       108 ~p~~~~~~~~~G~~~fi~~~~Le~--~~yl~dD~l~I~c~V~  147 (147)
T cd03776         108 RPTTDRNPKGFGYVEFAHIEDLLQ--RGFVKNDTLLIKIEVN  147 (147)
T ss_pred             CCCcCCCCCCeeEceeeEHHHhhh--CCCccCCEEEEEEEEC
Confidence            3     346899999999999985  5899999999999984

TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF6 is the most divergent in its TRAF domain among the mammalian TRAFs. In addition to mediating TNFR family signaling, it is also an essential signaling molecule of the interleukin-1/Toll-like receptor superfamily. Whereas other TRAF molecules display similar and overlapping TNFR-binding specificities, TRAF6 binds completely different sites on receptors such as CD40 and RANK. TRAF6 serves as a molecular bridge between innate and adaptive immunity and plays a central role in osteoimmunology. DTRAF2, as an activator of nuclear factor-kapp

>cd03781 MATH_TRAF4 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF4 subfamily, TRAF domain, C-terminal MATH subdomain; composed of proteins with similarity to human TRAF4, including the Drosophila protein DTRAF1

Probab=99.84  E-value=3.6e-20  Score=139.63  Aligned_cols=100  Identities=20%  Similarity=0.318  Sum_probs=79.2

Q ss_pred             EEEEEEcCccceeeEeeCCCCCCCCCeEEEEEEecCCCCCC-CCCeEEEEEEEEEEcCCCC--c---cccc-----ccce
Q 030100           69 KHVWKIENFSKKIKLYPKGQGVGRGSHISVYLALADLSTIT-RDSKIYVHFTLRIRDQVLS--K---HNEK-----KAST  137 (183)
Q Consensus        69 ~~~W~I~nfS~~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~-~~w~i~~~f~l~ll~q~~~--~---~~~~-----~~~~  137 (183)
                      .|.|       +|++||+|...+.++|+|+||++++++..+ ..|++.++++|+|+||.++  .   +...     ....
T Consensus        36 Gy~w-------~i~~yPnG~~~~~~~~vs~~l~l~~ge~d~~l~wp~~a~~~~~llDq~~~~~~~~~~~~~~~~~~~~~~  108 (154)
T cd03781          36 GYKL-------QVSAFLNGNGSGEGSHLSVYIRVLPGEYDNLLEWPFSHRITFTLLDQSDPSLSKPQHITETFTPDPTWK  108 (154)
T ss_pred             CEEE-------EEEEECCCCCCCCCCEEEEEEEEecCCcccccCCceeeEEEEEEECCCCCccccCcceEEEEEcCCchh
Confidence            7788       999999999887789999999999865543 4899999999999999764  1   1111     1123


Q ss_pred             eecc--------CCCCccccceeeccccccCCCCeeeCCEEEEEEEEE
Q 030100          138 WLST--------SSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVL  177 (183)
Q Consensus       138 ~F~~--------~~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~  177 (183)
                      .|..        ++.+||+.+||++++|+.  +|||+||+++|||+|.
T Consensus       109 ~F~rp~~~~~~~~~~~~G~~~fi~~~~Le~--~~yl~dD~l~Irc~v~  154 (154)
T cd03781         109 NFQKPSASRLDESTLGFGYPKFISHEDLKK--RNYIKDDAIFLRASVE  154 (154)
T ss_pred             hhcCCcccccCCCCCccchhHeeEHHHHhh--CCcccCCEEEEEEEeC
Confidence            4542        345799999999999984  7899999999999983

TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF4 is highly expressed during embryogenesis, especially in the central and peripheral nervous system. Studies using TRAF4-deficient mice show that TRAF4 is required for neurogenesis, as well as the development of the trachea and the axial skeleton. In addition, TRAF4 augments nuclear factor-kappaB activation triggered by GITR (glucocorticoid-induced TNFR), a receptor expressed in T-cells, B-cells and macrophages. It also participates in counteracting the signaling mediated by Toll-like receptors through its association with TRAF6 and TR

>cd03777 MATH_TRAF3 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF3 subfamily, TRAF domain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses

Probab=99.84  E-value=5.2e-20  Score=142.46  Aligned_cols=112  Identities=21%  Similarity=0.359  Sum_probs=88.7

Q ss_pred             CCCcEEEEEEcCccc---------------------------eeeEeeCCCCCCCCCeEEEEEEecCCCCCC-CCCeEEE
Q 030100           65 ASNYKHVWKIENFSK---------------------------KIKLYPKGQGVGRGSHISVYLALADLSTIT-RDSKIYV  116 (183)
Q Consensus        65 ~~~~~~~W~I~nfS~---------------------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~-~~w~i~~  116 (183)
                      ..+|.|.|+|.+||.                           +|++||||.+.+.++|||+||++++++..+ ..|++.+
T Consensus        36 ~~~G~hvwkI~~yS~~~~~~~~g~~~~i~S~~Fyvg~~GY~w~i~~ypnG~g~~~~~~iSvyl~L~~ge~D~~L~WP~~~  115 (186)
T cd03777          36 SYNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDGMGKGTHLSLFFVIMRGEYDALLPWPFKQ  115 (186)
T ss_pred             ccceEEEEEECChhHHHHhhccCCCcEEECCCeEeCCCCeeEEEEEEcCCCCCCCCCEEEEEEEEecCCcccccCCceeE
Confidence            457888888888886                           899999999987889999999999865432 4799999


Q ss_pred             EEEEEEEcCCCC-cccc-----cccceeec-cC---CCCccccceeeccccccCCCCeeeCCEEEEEEEEEE
Q 030100          117 HFTLRIRDQVLS-KHNE-----KKASTWLS-TS---SEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLR  178 (183)
Q Consensus       117 ~f~l~ll~q~~~-~~~~-----~~~~~~F~-~~---~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~i  178 (183)
                      +++|+|+||.+. .+..     ......|. +.   +.+||+++||++++|+.  ++||.||+++|+|.|..
T Consensus       116 ~~tfsLlDQ~~~~~~~~~~~~p~p~~~~F~rp~~~~n~~~G~~~Fi~~~~Le~--~~ylkdD~l~Irv~v~~  185 (186)
T cd03777         116 KVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMNIASGCPVFVAQTVLEN--GTYIKDDTIFIKVIVDT  185 (186)
T ss_pred             EEEEEEEcCCCccccccceeccCCccccccCCccCCCCCCCchheeEHHHhcc--CCcEeCCEEEEEEEEec
Confidence            999999999742 1211     11234576 22   35799999999999984  78999999999999863

TRAF3 was first described as a molecule that binds the cytoplasmic tail of CD40. However, it is not required for CD40 signaling. More recently, TRAF3 has been identified as a key regulator of type I interferon (IFN) production and the mammalian innate antiviral immunity. It mediates IFN responses in Toll-like receptor (TLR)-dependent as well as TLR-independent viral recognition pathways. It is also a key element in immunological homeostasis through its regulation of the anti-inflammatory cytokine interleukin-10. TRAF3 contains a RING finger domain, five zinc finger domains, and a TRAF domain. The TRAF domain can be divided into a more divergent N-terminal al

>cd00121 MATH MATH (meprin and TRAF-C homology) domain; an independent folding unit with an eight-stranded beta-sandwich structure found in meprins, TRAFs and other proteins

Probab=99.83  E-value=1.3e-19  Score=129.58  Aligned_cols=95  Identities=25%  Similarity=0.471  Sum_probs=78.1

Q ss_pred             eeeEeeCCCCCCCCCeEEEEEEecCCCCCCCCCeEEEEEEEEEEcCCCCcccccccceeec-cCCCCccccceeeccccc
Q 030100           80 KIKLYPKGQGVGRGSHISVYLALADLSTITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLS-TSSEDWGWSTFVELSYFN  158 (183)
Q Consensus        80 ~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~~~w~i~~~f~l~ll~q~~~~~~~~~~~~~F~-~~~~~wG~~~Fi~~~~L~  158 (183)
                      +|++||+|... ..+|||+||+|.+.......|++.++++|+|++|+++++......+.|. ....+|||.+||++++|+
T Consensus        31 ~l~~~p~~~~~-~~~~lsv~L~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~G~~~fi~~~~l~  109 (126)
T cd00121          31 RIRIYPNGDGE-SGDYLSLYLELDKGESDLEKWSVRAEFTLKLVNQNGGKSLSKSFTHVFFSEKGSGWGFPKFISWDDLE  109 (126)
T ss_pred             EEEEEcCCCCC-CCCEEEEEEEecCCCCCCCCCcEEEEEEEEEECCCCCccceEeccCCcCCCCCCCCChHHeeEHHHhc
Confidence            99999999866 5689999999987655456799999999999999865655555555553 456899999999999999


Q ss_pred             cCCCCeeeCCEEEEEEEEE
Q 030100          159 KAENGFLMNDVCIVEAEVL  177 (183)
Q Consensus       159 ~~~~gyl~nD~l~Ie~~V~  177 (183)
                      ++  ++++||+|+|+|+|.
T Consensus       110 ~~--~~~~~d~l~i~~~v~  126 (126)
T cd00121         110 DS--YYLVDDSLTIEVEVK  126 (126)
T ss_pred             cC--CcEECCEEEEEEEEC
Confidence            74  349999999999984

Meprins comprise a class of extracellular metalloproteases which are anchored to the membrane and are capable of cleaving growth factors, extracellular matrix proteins, and biologically active peptides. TRAF molecules serve as adapter proteins that link cell surface receptors of the Tumor Necrosis Factor and 1nterleukin-1/Toll-like families to downstream kinase cascades, which results in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses in the immune and inflammatory systems. Other members include the ubiquitin ligases, TRIM37 and SPOP, and the ubiquitin-specific proteases, HAUSP and Ubp21p. A large number of uncharacterized members mostly from lineage-specific expansions in C. elegans and rice contain MATH and BTB domains, similar to SPOP. The MATH doma

>cd03771 MATH_Meprin Meprin family, MATH domain; Meprins are multidomain, highly glycosylated extracellular metalloproteases, which are either anchored to the membrane or secreted into extracellular spaces

Probab=99.82  E-value=1.3e-19  Score=137.82  Aligned_cols=95  Identities=21%  Similarity=0.340  Sum_probs=72.2

Q ss_pred             eeeEeeCCCCCCCCCeEEEEEEecCCCCC-CCCCe-EEEEEEEEEEcCCC--C--ccccc-----c---c----------
Q 030100           80 KIKLYPKGQGVGRGSHISVYLALADLSTI-TRDSK-IYVHFTLRIRDQVL--S--KHNEK-----K---A----------  135 (183)
Q Consensus        80 ~l~~yP~G~~~~~~~~lSlyL~l~~~~~~-~~~w~-i~~~f~l~ll~q~~--~--~~~~~-----~---~----------  135 (183)
                      +|++||+|+.. .++||||||++.+++.. ..+|+ +.++++|+|+||..  .  .+...     .   .          
T Consensus        38 ~I~~YPnG~~~-~~~~lSlyL~L~~g~~d~~L~WP~v~a~~t~~LlDQ~~~~~~r~~~~~~~~~dp~~~~~~~~~~~~~r  116 (167)
T cd03771          38 QVGLYPNGTES-YPGYTGLYFHLCSGENDDVLEWPCPNRQATMTLLDQDPDIQQRMSNQRSFTTDPSMTSSDNGEYFWDR  116 (167)
T ss_pred             EEEEEeCCCCC-CCCcceEEEEEecCCccccccCcceeEEEEEEEECCCCcccccCcceEEEecCCcccccccccccccC
Confidence            99999999988 78999999999876553 36799 58999999999973  1  12111     0   0          


Q ss_pred             ----ceeecc-------CCCCccccceeeccccccCCCCeeeCCEEEEEEEEE
Q 030100          136 ----STWLST-------SSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVL  177 (183)
Q Consensus       136 ----~~~F~~-------~~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~  177 (183)
                          ..+...       ++.+|||++||++++|+.  .+||+||+|.|+++++
T Consensus       117 P~~~~~~~~~~~~~~~~~~~g~G~~~Fis~~~L~~--r~ylk~dtl~i~~~~~  167 (167)
T cd03771         117 PSKVGSYDTDTNGCTCYRGPGYGWSTFISHSRLRR--RDFLKGDDLIILLDFE  167 (167)
T ss_pred             CccccccccccccccccccCccccccceeHHHhcc--CCCCcCCEEEEEEEeC
Confidence                011221       235899999999999995  5699999999999874

They are expressed in renal and intestinal brush border membranes, leukocytes, and cancer cells, and are capable of cleaving growth factors, cytokines, extracellular matrix proteins, and biologically active peptides. Meprin proteases are composed of two related subunits, alpha and beta, which form homo- or hetro-complexes where the basic unit is a disulfide-linked dimer. Despite their similarity, the two subunits differ in their ability to self-associate, in proteolytic processing during biosynthesis and in substrate specificity. Both subunits are synthesized as membrane spanning proteins, however, the alpha subunit is cleaved during biosynthesis and loses its transmembrane domain. Meprin beta forms homodimers or heterotetramers while meprin alpha oligomerizes into large complexes co

>PF00917 MATH: MATH domain; InterPro: IPR002083 Although apparently functionally unrelated, intracellular TRAFs and extracellular meprins share a conserved region of about 180 residues, the meprin and TRAF homology (MATH) domain []

Probab=99.77  E-value=2.1e-18  Score=123.11  Aligned_cols=100  Identities=28%  Similarity=0.489  Sum_probs=81.6

Q ss_pred             CCCcEEEEEEcCccceeeEeeCCCCCCCCCeEEEEEEecCCCCCC-CCCeEEEEEEEEEEcCCCCcccccccceeeccCC
Q 030100           65 ASNYKHVWKIENFSKKIKLYPKGQGVGRGSHISVYLALADLSTIT-RDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSS  143 (183)
Q Consensus        65 ~~~~~~~W~I~nfS~~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~-~~w~i~~~f~l~ll~q~~~~~~~~~~~~~F~~~~  143 (183)
                      ...+.+.|       +|.+||+|+    ++++|+||+|..++... .+|++.++++++|+++.+.........+.|.. .
T Consensus        19 ~~~~g~~W-------~l~~~~~~~----~~~l~~~L~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~F~~-~   86 (119)
T PF00917_consen   19 FSHGGYPW-------RLKVYPKGN----GKYLSVYLHCDKGENDSDLEWSIEAEFRFRLLNQNGKSISKRIKSHSFNN-P   86 (119)
T ss_dssp             SSTTSEEE-------EEEEETTES----TTEEEEEEEEECSTTGGGSSSSEEEEEEEEEE-TTSCEEEEEEECEEECT-T
T ss_pred             EEECCEEE-------EEEEEeCCC----cCcEEEEEEEeecccccccceeeeEEEEEEEecCCCCcceeeeeeeEEee-e
Confidence            34567899       999999988    57999999999876544 68999999999999998866322112477864 5


Q ss_pred             CCccccceeeccccccCCCCeeeCCEEEEEEEEEE
Q 030100          144 EDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLR  178 (183)
Q Consensus       144 ~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~i  178 (183)
                      .+|||.+||++++|.++.  |++||+|+|+|+|+|
T Consensus        87 ~~~g~~~fi~~~~l~~~~--fl~dd~l~ie~~v~I  119 (119)
T PF00917_consen   87 SSWGWSSFISWEDLEDPY--FLVDDSLTIEVEVKI  119 (119)
T ss_dssp             SEEEEEEEEEHHHHTTCT--TSBTTEEEEEEEEEE
T ss_pred             cccchhheeEHHHhCccC--CeECCEEEEEEEEEC
Confidence            899999999999999753  899999999999987

Meprins are mammalian tissue-specific metalloendopeptidases of the astacin family implicated in developmental, normal and pathological processes by hydrolysing a variety of proteins. Various growth factors, cytokines, and extracellular matrix proteins are substrates for meprins. They are composed of five structural domains: an N-terminal endopeptidase domain, a MAM domain (see PDOC00604 from PROSITEDOC), a MATH domain, an EGF-like domain (see PDOC00021 from PROSITEDOC) and a C-terminal transmembrane region. Meprin A and B form membrane bound homotetramer whereas homooligomers of meprin A are secreted. A proteolitic site adjacent to the MATH domain, only present in meprin A, allows the release of the protein from the membrane []. TRAF proteins were first isolated by their ability to interact with TNF receptors []. They promote cell survival by the activation of downstream protein kinases and, finally, transcription factors of the NF-kB and AP-1 family. The TRAF proteins are composed of 3 structural domains: a RING finger (see PDOC00449 from PROSITEDOC) in the N-terminal part of the protein, one to seven TRAF zinc fingers (see PDOC50145 from PROSITEDOC) in the middle and the MATH domain in the C-terminal part []. The MATH domain is necessary and sufficient for self-association and receptor interaction. From the structural analysis two consensus sequence recognised by the TRAF domain have been defined: a major one, [PSAT]x[QE]E and a minor one, PxQxxD []. The structure of the TRAF2 protein reveals a trimeric self-association of the MATH domain []. The domain forms a new, light-stranded antiparallel beta sandwich structure. A coiled-coil region adjacent to the MATH domain is also important for the trimerisation. The oligomerisation is essential for establishing appropriate connections to form signalling complexes with TNF receptor-1. The ligand binding surface of TRAF proteins is located in beta-strands 6 and 7 [].; GO: 0005515 protein binding; PDB: 1D00_E 1CZY_A 1D01_F 1CA9_A 1D0J_D 1F3V_B 1CA4_C 1D0A_A 1QSC_C 1CZZ_C ....

>cd03783 MATH_Meprin_Alpha Meprin family, Alpha subunit, MATH domain; Meprins are multidomain extracellular metalloproteases capable of cleaving growth factors, cytokines, extracellular matrix proteins, and biologically active peptides

Probab=99.68  E-value=1.9e-16  Score=119.54  Aligned_cols=108  Identities=23%  Similarity=0.385  Sum_probs=83.4

Q ss_pred             cEEEEEEcCccc------------------------eeeEeeCCCCC-CCCCeEEEEEEecCCCCCC-CCCeE-EEEEEE
Q 030100           68 YKHVWKIENFSK------------------------KIKLYPKGQGV-GRGSHISVYLALADLSTIT-RDSKI-YVHFTL  120 (183)
Q Consensus        68 ~~~~W~I~nfS~------------------------~l~~yP~G~~~-~~~~~lSlyL~l~~~~~~~-~~w~i-~~~f~l  120 (183)
                      +.++|+|.||+.                        ++++||+|+.. +.+.|+|||+++.+++.+. ..|++ .-+++|
T Consensus         2 p~~iWkI~nfs~~~~~a~~~~~i~Sp~Fyt~~GYk~~l~~~lng~~~~~~g~~lSl~~~lm~Ge~D~~L~WP~~~~~itl   81 (167)
T cd03783           2 PNAVWRVRNFSQILENTTKGDVLQSPRFYSPEGYGYGVSLYPLSNESDYSGNYTGLYFHLCSGENDAVLEWPALNRQAII   81 (167)
T ss_pred             CceeEEECcHHHHHHhCcCCCeEECCCCccCCCceEEEEEEecCCCCCCCCCEEEEEEEEecccCCCcccCCCcCCEEEE
Confidence            458899999987                        89999999874 6688999999999988754 78995 569999


Q ss_pred             EEEcCCC----Cccccc--------cc-----ceeecc--------------CCCCccccceeeccccccCCCCeeeCCE
Q 030100          121 RIRDQVL----SKHNEK--------KA-----STWLST--------------SSEDWGWSTFVELSYFNKAENGFLMNDV  169 (183)
Q Consensus       121 ~ll~q~~----~~~~~~--------~~-----~~~F~~--------------~~~~wG~~~Fi~~~~L~~~~~gyl~nD~  169 (183)
                      .|+||+.    ..|...        ..     ...|.+              ++.++||++||++++|+.  .+||.||+
T Consensus        82 ~llDQ~~~~~~r~~~~~sf~~d~~~~~~~~~~~~~f~rP~~~~~~~~~~~~~~~~gfG~~~Fish~~L~~--r~yikdDt  159 (167)
T cd03783          82 TVLDQDPDVRLRMSSSRSFTTDKSQTSSAINGTLRWDRPSRVGTYDTSCDCFRGIDFGWSTFISHSQLRR--RSFLKNDD  159 (167)
T ss_pred             EEEcCCcchhhccccceeeecCCCcccccccccccccCCcccccccccccccCCcccccccceeHHHHhh--CCcccCCe
Confidence            9999963    112210        10     011332              235899999999999985  78999999


Q ss_pred             EEEEEEEE
Q 030100          170 CIVEAEVL  177 (183)
Q Consensus       170 l~Ie~~V~  177 (183)
                      |.|.++++
T Consensus       160 lfI~~~~~  167 (167)
T cd03783         160 LIIFVDFE  167 (167)
T ss_pred             EEEEEecC
Confidence            99998863

They are composed of two related subunits, alpha and beta, which form homo- or hetro-complexes where the basic unit is a disulfide-linked dimer. The alpha subunit is synthesized as a membrane spanning protein, however, it is cleaved during biosynthesis and loses its transmembrane domain. It oligomerizes into large complexes, containing 10-100 subunits (dimers that associate noncovalently), which are secreted as latent proteases and can move through extracellular spaces in a nondestructive manner. This allows delivery of the concentrated protease to sites containing activating enzymes, such as sites of inflammation, infection or cancerous growth. Meprin alpha shows preference for small or hydrophobic residues at the P1 and P1' sites of its substrate. Both

>cd03782 MATH_Meprin_Beta Meprin family, Beta subunit, MATH domain; Meprins are multidomain extracellular metalloproteases capable of cleaving growth factors, cytokines, extracellular matrix proteins, and biologically active peptides

Probab=99.67  E-value=3.5e-16  Score=117.68  Aligned_cols=107  Identities=20%  Similarity=0.304  Sum_probs=84.6

Q ss_pred             cEEEEEEcCccc------------------------eeeEeeCCCCCCCCCeEEEEEEecCCCCCC-CCCeEE-EEEEEE
Q 030100           68 YKHVWKIENFSK------------------------KIKLYPKGQGVGRGSHISVYLALADLSTIT-RDSKIY-VHFTLR  121 (183)
Q Consensus        68 ~~~~W~I~nfS~------------------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~-~~w~i~-~~f~l~  121 (183)
                      +.|+|+|.||+.                        ++++||||++.+ ++|||||+++.+++.+. ..|++. -+++|.
T Consensus         2 p~~iWkI~~fs~~~~~~~~~~~i~Sp~FYt~~GYkl~l~~ylnG~g~~-~~~lsl~~~lm~Ge~D~~L~WPf~~~qit~~   80 (167)
T cd03782           2 PEHIWHIRNFTQLLATTPPNGKIYSPPFLSSTGYSFQVGLYLNGTDDY-PGNLAIYLHLTSGPNDDQLQWPCPWQQATMM   80 (167)
T ss_pred             CcEEEEeCcHHHHHHhcCCCceEECCCCcCccCceeEEEEEecCCCCC-CCEEEEEEEEeccCCCccccCCCcCCeEEEE
Confidence            468999999998                        899999999876 68999999999988754 789998 899999


Q ss_pred             EEcCCC----Cccccc--c------cc--eee--ccC-----------------CCCccccceeeccccccCCCCeeeCC
Q 030100          122 IRDQVL----SKHNEK--K------AS--TWL--STS-----------------SEDWGWSTFVELSYFNKAENGFLMND  168 (183)
Q Consensus       122 ll~q~~----~~~~~~--~------~~--~~F--~~~-----------------~~~wG~~~Fi~~~~L~~~~~gyl~nD  168 (183)
                      |+||+.    ..|...  +      ..  ..|  .+.                 +.++||+.||++++|+.  +.||.||
T Consensus        81 LlDQ~~d~~~r~~~~~~~t~~P~~~s~~n~~f~w~rP~kvg~~~~~~~~~~~~r~~~~G~~~Fish~~L~~--r~yikdD  158 (167)
T cd03782          81 LLDQHPDIRQRMSNQRSVTTDPNMTSTDSDEYFWDDPRKVGSEVTDTDGSTFYRGPGYGTSAFITHLRLRS--RDFIKGD  158 (167)
T ss_pred             EEcCCCchhhccceeeeEEecCCcccccCccceecCCcccCcccccccccccccccccCccceeeHHHHhh--cCcccCC
Confidence            999963    123211  0      01  124  221                 46899999999999985  7799999


Q ss_pred             EEEEEEEEE
Q 030100          169 VCIVEAEVL  177 (183)
Q Consensus       169 ~l~Ie~~V~  177 (183)
                      ++.|-++++
T Consensus       159 ~ifi~~~~e  167 (167)
T cd03782         159 DVIFLLTME  167 (167)
T ss_pred             eEEEEEecC
Confidence            999988763

They are composed of two related subunits, alpha and beta, which form homo- or hetro-complexes where the basic unit is a disulfide-linked dimer. The beta subunit is a type I membrane protein, which forms homodimers or heterotetramers (alpha2beta2 or alpha3beta). Meprin beta shows preference for acidic residues at the P1 and P1' sites of its substrate. Among its best substrates are growth factors and chemokines such as gastrin and osteopontin. Both alpha and beta subunits contain a catalytic astacin (M12 family) protease domain followed by the adhesion or interaction domains MAM, MATH and AM. The MATH and MAM domains provide symmetrical intersubunit disulfide bonds necessary for the dimerization of meprin subunits. The MATH domain may also be required for f

>smart00061 MATH meprin and TRAF homology

Probab=99.48  E-value=2.2e-13  Score=93.10  Aligned_cols=70  Identities=27%  Similarity=0.519  Sum_probs=57.5

Q ss_pred             cEEEEEEcCccceeeEeeCCCCCCCCCeEEEEEEecCCCCCCCCCeEEEEEEEEEEcCCCCcccccccceeeccCCCCcc
Q 030100           68 YKHVWKIENFSKKIKLYPKGQGVGRGSHISVYLALADLSTITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSSEDWG  147 (183)
Q Consensus        68 ~~~~W~I~nfS~~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~~~w~i~~~f~l~ll~q~~~~~~~~~~~~~F~~~~~~wG  147 (183)
                      +.+.|       +|++||+      ++|||+||+|.+....+.+|++.|+++|+|++|++..+ .....+.|.. ..+||
T Consensus        26 ~g~~W-------~i~~~p~------~~~lsl~L~~~~~~~~~~~w~v~a~~~~~l~~~~~~~~-~~~~~~~F~~-~~~~G   90 (95)
T smart00061       26 FNIPW-------RLKIYRK------NGFLSLYLHCEKEECDSRKWSIEAEFTLKLVSQNGKSL-SKKDKHVFEK-PSGWG   90 (95)
T ss_pred             cCcee-------EEEEEEc------CCEEEEEEEeCCCcCCCCCeEEEEEEEEEEEeCCCCEE-eeeeeEEEcC-CCccc
Confidence            55667       9999998      57999999998776555589999999999999987655 3455678875 78999


Q ss_pred             cccee
Q 030100          148 WSTFV  152 (183)
Q Consensus       148 ~~~Fi  152 (183)
                      |.+||
T Consensus        91 ~~~fi   95 (95)
T smart00061       91 FSKFI   95 (95)
T ss_pred             eeeEC
Confidence            99986

>COG5077 Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]

Probab=99.11  E-value=1.2e-10  Score=104.34  Aligned_cols=112  Identities=23%  Similarity=0.466  Sum_probs=91.0

Q ss_pred             CCcEEEEEEcCccc-----------------eeeEeeCCCCCCCCCeEEEEEEecCCCC--CC-CCCeEEEEEEEEEEcC
Q 030100           66 SNYKHVWKIENFSK-----------------KIKLYPKGQGVGRGSHISVYLALADLST--IT-RDSKIYVHFTLRIRDQ  125 (183)
Q Consensus        66 ~~~~~~W~I~nfS~-----------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~--~~-~~w~i~~~f~l~ll~q  125 (183)
                      ....|+|+|++||.                 +|.++|+|+...  + .|+||+....+.  .. ..|.+.|+|.+.|-++
T Consensus        37 ~~~sftW~vk~wsel~~k~~Sp~F~vg~~twki~lfPqG~nq~--~-~sVyLe~~pqe~e~~~gk~~~ccaqFaf~Is~p  113 (1089)
T COG5077          37 LEMSFTWKVKRWSELAKKVESPPFSVGGHTWKIILFPQGNNQC--N-VSVYLEYEPQELEETGGKYYDCCAQFAFDISNP  113 (1089)
T ss_pred             hhcccceecCChhhhhhhccCCcccccCeeEEEEEecccCCcc--c-cEEEEEeccchhhhhcCcchhhhhheeeecCCC
Confidence            34568999999988                 899999998763  2 999999875431  11 3599999999999998


Q ss_pred             CCCc-ccccccceeeccCCCCccccceeeccccccCCCC---eeeCCEEEEEEEEEEEe
Q 030100          126 VLSK-HNEKKASTWLSTSSEDWGWSTFVELSYFNKAENG---FLMNDVCIVEAEVLRIS  180 (183)
Q Consensus       126 ~~~~-~~~~~~~~~F~~~~~~wG~~~Fi~~~~L~~~~~g---yl~nD~l~Ie~~V~i~~  180 (183)
                      ..+. ....++.|+|+....+|||.+|+.+..|..|+.|   |+.++++.|.|.|.|++
T Consensus       114 ~~pti~~iN~sHhrFs~~~tDwGFt~f~dL~kl~~psp~~Ppfleeg~l~ItvyVRvlk  172 (1089)
T COG5077         114 KYPTIEYINKSHHRFSMESTDWGFTNFIDLNKLIEPSPGRPPFLEEGTLVITVYVRVLK  172 (1089)
T ss_pred             CCCchhhhhcccccccccccccchhhhhhhhhhcCCCCCCCCcccCCeEEEEEEEEEEe
Confidence            6643 2344667899988899999999999999987666   78899999999999986

>cd03772 MATH_HAUSP Herpesvirus-associated ubiquitin-specific protease (HAUSP, also known as USP7) family, N-terminal MATH (TRAF-like) domain; composed of proteins similar to human HAUSP, an enzyme that specifically catalyzes the deubiquitylation of p53 and MDM2, hence playing an important role in the p53-MDM2 pathway

Probab=98.65  E-value=2.8e-08  Score=73.19  Aligned_cols=44  Identities=25%  Similarity=0.542  Sum_probs=40.2

Q ss_pred             ceeccCCccccCccceeccccccCCCCCeEEcceEEEeEEEEEe
Q 030100            4 ERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLVK   47 (183)
Q Consensus         4 ~~~f~~~~~~~G~~~~i~~~~l~~~~~gyl~~d~~~~~~~v~i~   47 (183)
                      .|+|+.....|||.+||+|++|.++++|||+||+|+++++|.|.
T Consensus        90 ~~~f~~~~~~~G~~~fi~~~~L~~~~sgyl~~D~l~Ie~~V~~~  133 (137)
T cd03772          90 SHLFFSKENDWGFSNFMTWSEVTDPEKGFIEDDTITLEVYVQAD  133 (137)
T ss_pred             eeEEcCCCCCccchheeEHHHhcCCCCCcEECCEEEEEEEEEee
Confidence            46898888899999999999999999999999999999999854

It contains an N-terminal TRAF-like domain and a C-terminal catalytic protease (C19 family) domain. The tumor suppressor p53 protein is a transcription factor that responds to many cellular stress signals and is regulated primarily through ubiquitylation and subsequent degradation. MDM2 is a RING-finger E3 ubiquitin ligase that promotes p53 ubiquitinylation. p53 and MDM2 bind to the same site in the N-terminal TRAF-like domain of HAUSP in a mutually exclusive manner. HAUSP also interacts with the Epstein-Barr nuclear antigen 1 (EBNA1) protein of the Epstein-Barr virus (EBV), which efficiently immortalizes infected cells predisposing the host to a variety of cancers. EBNA1

>cd03775 MATH_Ubp21p Ubiquitin-specific protease 21 (Ubp21p) family, MATH domain; composed of fungal proteins with similarity to Ubp21p of fission yeast

Probab=98.51  E-value=8.6e-08  Score=70.38  Aligned_cols=42  Identities=24%  Similarity=0.502  Sum_probs=38.0

Q ss_pred             cceeccCCccccCccceeccccccCC----CCCeEEcceEEEeEEE
Q 030100            3 KERRFHVLKLEWGFDQFIPLEEFNDA----SNGYLVGDTCVFGAEV   44 (183)
Q Consensus         3 ~~~~f~~~~~~~G~~~~i~~~~l~~~----~~gyl~~d~~~~~~~v   44 (183)
                      ..|+|+.....|||.+||++++|.+|    ++|||+||++++.|+|
T Consensus        88 ~~~~F~~~~~~wG~~~fi~~~~L~~~~~~~~~g~l~nD~l~I~~~~  133 (134)
T cd03775          88 AHHRFNAEDKDWGFTRFIELRKLAHRTPDKPSPFLENGELNITVYV  133 (134)
T ss_pred             ceeEeCCCCCCCChhHcccHHHHcccccCCCCceeECCEEEEEEEE
Confidence            46899988899999999999999965    7899999999999887

Ubp21p is a deubiquitinating enzyme that may be involved in the regulation of the protein kinase Prp4p, which controls the formation of active spliceosomes. Members of this family are similar to human HAUSP (Herpesvirus-associated ubiquitin-specific protease) in that they contain an N-terminal MATH domain and a C-terminal catalytic protease (C19 family) domain. HAUSP is also an ubiquitin-specific protease that specifically catalyzes the deubiquitylation of p53 and MDM2. The MATH domain of HAUSP contains the binding site for p53 and MDM2. Similarly, the MATH domain of members in this family may be involved in substrate binding.

>KOG1987 consensus Speckle-type POZ protein SPOP and related proteins with TRAF, MATH and BTB/POZ domains [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=98.43  E-value=2e-06  Score=70.88  Aligned_cols=92  Identities=22%  Similarity=0.463  Sum_probs=69.2

Q ss_pred             eeeEeeCCCCCCCCCeEEEEEEecCCCCCCCCCeEEEEEEEEEEcCCCCcc-ccc-ccceeeccC--CCCccccceeecc
Q 030100           80 KIKLYPKGQGVGRGSHISVYLALADLSTITRDSKIYVHFTLRIRDQVLSKH-NEK-KASTWLSTS--SEDWGWSTFVELS  155 (183)
Q Consensus        80 ~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~~~w~i~~~f~l~ll~q~~~~~-~~~-~~~~~F~~~--~~~wG~~~Fi~~~  155 (183)
                      ++.+||+|+      ++++|+.+....    +|.+++.+.|.+.||....+ ... ....+|..+  ...||+...++..
T Consensus        33 ~~~~~~~~~------~~~~~~~~~~~~----~~~~~~~~~l~v~n~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~  102 (297)
T KOG1987|consen   33 RLSAYPKGN------YLSLTLSVSDSP----GWERYAKLRLTVVNQKSEKYLSTVEEGFSWFRFNKVLKEWGFGKMLPLT  102 (297)
T ss_pred             EEEEecCCC------EEEEEEEeccCC----CcceeEEEEEEEccCCCcceeeeeeeeEEeccccccccccCcccccChH
Confidence            555555543      678888776532    79999999999999987644 333 345555544  4799999999999


Q ss_pred             ccccCCCCeeeCCEEEEEEEEEEEee
Q 030100          156 YFNKAENGFLMNDVCIVEAEVLRISK  181 (183)
Q Consensus       156 ~L~~~~~gyl~nD~l~Ie~~V~i~~~  181 (183)
                      .+.+...||++++.+++-+++.|.+.
T Consensus       103 ~~~~~~~g~~~~~~~~~~a~~~V~~~  128 (297)
T KOG1987|consen  103 LLIDCSNGFLVAHKLVLVARSEVFEA  128 (297)
T ss_pred             HhhcccCcEEEcCceEEEeeecceee
Confidence            99998899999988888887766653

>cd03774 MATH_SPOP Speckle-type POZ protein (SPOP) family, MATH domain; composed of proteins with similarity to human SPOP

Probab=98.13  E-value=1.7e-06  Score=63.73  Aligned_cols=41  Identities=34%  Similarity=0.532  Sum_probs=37.1

Q ss_pred             ceeccCCccccCccceeccccccCCCCCeEEcceEEEeEEEE
Q 030100            4 ERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVL   45 (183)
Q Consensus         4 ~~~f~~~~~~~G~~~~i~~~~l~~~~~gyl~~d~~~~~~~v~   45 (183)
                      .++|+. ...|||.+||++++|.++.+|||+||+++++++|.
T Consensus        95 ~~~f~~-~~~wG~~~fi~~~~L~~~~~g~l~dD~l~I~c~I~  135 (139)
T cd03774          95 AYRFVQ-GKDWGFKKFIRRDFLLDEANGLLPDDKLTLFCEVS  135 (139)
T ss_pred             cEeCCC-CCccCHHHeeeHHHhhhhhcccccCCEEEEEEEEE
Confidence            477875 57999999999999998899999999999999998

SPOP was isolated as a novel antigen recognized by serum from a scleroderma patient, whose overexpression in COS cells results in a discrete speckled pattern in the nuclei. It contains an N-terminal MATH domain and a C-terminal BTB (also called POZ) domain. Together with Cul3, SPOP constitutes an ubiquitin E3 ligase which is able to ubiquitinate the PcG protein BMI1, the variant histone macroH2A1 and the death domain-associated protein Daxx. Therefore, SPOP may be involved in the regulation of these proteins and may play a role in transcriptional regulation, apoptosis and X-chromosome inactivation. Cul3 binds to the BTB domain of SPOP whereas Daxx and the macroH2A1 nonhistone region have been shown to bind to the MATH domain. Both MATH and BTB domains are necessary for the nuclear speckled accumulation of SPOP. There are many proteins, mostly uncharacterized, conta

>KOG1987 consensus Speckle-type POZ protein SPOP and related proteins with TRAF, MATH and BTB/POZ domains [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=97.92  E-value=6.1e-09  Score=85.89  Aligned_cols=174  Identities=22%  Similarity=0.225  Sum_probs=112.4

Q ss_pred             eeccCCccccCccceeccccccCCCCCeEEc-ceEEEeEEEEEecccCCccceEEEe------eecCCCC----cEEEEE
Q 030100            5 RRFHVLKLEWGFDQFIPLEEFNDASNGYLVG-DTCVFGAEVLVKERNKCKGECLFLA------KLTSASN----YKHVWK   73 (183)
Q Consensus         5 ~~f~~~~~~~G~~~~i~~~~l~~~~~gyl~~-d~~~~~~~v~i~~~~~~~~e~~~~~------~~~~~~~----~~~~W~   73 (183)
                      .+|+.....||+.+++|+.++.++++||+++ +.|.++.....++.  .+.+.+...      .+.++..    ..|+|.
T Consensus        84 ~~~~~~~~~~g~~~~~~~~~~~~~~~g~~~~~~~~~~a~~~V~~~~--~~~d~~~~~~~~~~~~d~~~~~~~~~~~F~~~  161 (297)
T KOG1987|consen   84 FRFNKVLKEWGFGKMLPLTLLIDCSNGFLVAHKLVLVARSEVFEAM--GKSDVFKESSKLITLLEEKPEVLEALNGFQVL  161 (297)
T ss_pred             ccccccccccCcccccChHHhhcccCcEEEcCceEEEeeecceeee--cccccchhccccccccccchhhHhhhceEEEe
Confidence            4566668999999999999999999999999 66665544333333  444444221      0114555    899999


Q ss_pred             EcCccc----------------------eeeEeeCCCCCCCCCeEEEEEEecCCCCC--CCCCeEEEEEEEEEEcCCCCc
Q 030100           74 IENFSK----------------------KIKLYPKGQGVGRGSHISVYLALADLSTI--TRDSKIYVHFTLRIRDQVLSK  129 (183)
Q Consensus        74 I~nfS~----------------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~~--~~~w~i~~~f~l~ll~q~~~~  129 (183)
                      +.+++.                      ++.++|.|.+.....+++.||..++....  ...-.+++....+.+|+...+
T Consensus       162 ~s~~~~~~~~~~~~~~~a~~f~~~~~~lk~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~ld~l~~~  241 (297)
T KOG1987|consen  162 PSQVSSVERIFEKHPDLAAAFKYKNRHLKLACMPVLLSLIETLNVSQSLQEASNYDLKEAKSALTYVIAAGFKLDWLEKK  241 (297)
T ss_pred             ccchHHHHHhhcCChhhhhccccccHHHHHHHHHHHHHHHHhhhhcccHHHhchhHHHHHHHHHHHHHhccchHhHHHHH
Confidence            999887                      77888888877666788888876653221  123345666666677775532


Q ss_pred             --cc-ccc-cceeeccCCCCccccceeeccccccCCCCeeeCCEEEEEEEEEEEee
Q 030100          130 --HN-EKK-ASTWLSTSSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLRISK  181 (183)
Q Consensus       130 --~~-~~~-~~~~F~~~~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~i~~~  181 (183)
                        +. .+. ...+.......+ ..++.++.++.....++++++++.++++...++.
T Consensus       242 ~~~~~~k~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  296 (297)
T KOG1987|consen  242 LNEVKEKKKKDLWYEIRLQEL-EEELKSLKDKCSDLEGLLVKDKAEVEAESEPLSS  296 (297)
T ss_pred             HHHHHHhhhHHHHHHHHHHHH-HHHHHhhhhhhhhHHHHHHhhhhhhhcccCCcCC
Confidence              21 111 112222111222 5567777777766677888999888888776653

>PF00917 MATH: MATH domain; InterPro: IPR002083 Although apparently functionally unrelated, intracellular TRAFs and extracellular meprins share a conserved region of about 180 residues, the meprin and TRAF homology (MATH) domain []

Probab=97.91  E-value=6.5e-06  Score=58.11  Aligned_cols=39  Identities=31%  Similarity=0.649  Sum_probs=34.0

Q ss_pred             eeccCCccccCccceeccccccCCCCCeEEcceEEEeEEEEE
Q 030100            5 RRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLV   46 (183)
Q Consensus         5 ~~f~~~~~~~G~~~~i~~~~l~~~~~gyl~~d~~~~~~~v~i   46 (183)
                      ++|+.. ..|||.+||+|++|.++.  |+.||+++|+|+|.|
T Consensus        81 ~~F~~~-~~~g~~~fi~~~~l~~~~--fl~dd~l~ie~~v~I  119 (119)
T PF00917_consen   81 HSFNNP-SSWGWSSFISWEDLEDPY--FLVDDSLTIEVEVKI  119 (119)
T ss_dssp             EEECTT-SEEEEEEEEEHHHHTTCT--TSBTTEEEEEEEEEE
T ss_pred             eEEeee-cccchhheeEHHHhCccC--CeECCEEEEEEEEEC
Confidence            677665 799999999999998555  999999999999863

Meprins are mammalian tissue-specific metalloendopeptidases of the astacin family implicated in developmental, normal and pathological processes by hydrolysing a variety of proteins. Various growth factors, cytokines, and extracellular matrix proteins are substrates for meprins. They are composed of five structural domains: an N-terminal endopeptidase domain, a MAM domain (see PDOC00604 from PROSITEDOC), a MATH domain, an EGF-like domain (see PDOC00021 from PROSITEDOC) and a C-terminal transmembrane region. Meprin A and B form membrane bound homotetramer whereas homooligomers of meprin A are secreted. A proteolitic site adjacent to the MATH domain, only present in meprin A, allows the release of the protein from the membrane []. TRAF proteins were first isolated by their ability to interact with TNF receptors []. They promote cell survival by the activation of downstream protein kinases and, finally, transcription factors of the NF-kB and AP-1 family. The TRAF proteins are composed of 3 structural domains: a RING finger (see PDOC00449 from PROSITEDOC) in the N-terminal part of the protein, one to seven TRAF zinc fingers (see PDOC50145 from PROSITEDOC) in the middle and the MATH domain in the C-terminal part []. The MATH domain is necessary and sufficient for self-association and receptor interaction. From the structural analysis two consensus sequence recognised by the TRAF domain have been defined: a major one, [PSAT]x[QE]E and a minor one, PxQxxD []. The structure of the TRAF2 protein reveals a trimeric self-association of the MATH domain []. The domain forms a new, light-stranded antiparallel beta sandwich structure. A coiled-coil region adjacent to the MATH domain is also important for the trimerisation. The oligomerisation is essential for establishing appropriate connections to form signalling complexes with TNF receptor-1. The ligand binding surface of TRAF proteins is located in beta-strands 6 and 7 [].; GO: 0005515 protein binding; PDB: 1D00_E 1CZY_A 1D01_F 1CA9_A 1D0J_D 1F3V_B 1CA4_C 1D0A_A 1QSC_C 1CZZ_C ....

>KOG1863 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]

Probab=97.81  E-value=2.5e-05  Score=75.01  Aligned_cols=103  Identities=21%  Similarity=0.307  Sum_probs=85.0

Q ss_pred             CcEEEEEEcCccceeeEeeCCCCCCCCCeEEEEEEecCCCCCCCCCeEEEEEEEEEEcCCCCc-ccccccceeeccCCCC
Q 030100           67 NYKHVWKIENFSKKIKLYPKGQGVGRGSHISVYLALADLSTITRDSKIYVHFTLRIRDQVLSK-HNEKKASTWLSTSSED  145 (183)
Q Consensus        67 ~~~~~W~I~nfS~~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~~~w~i~~~f~l~ll~q~~~~-~~~~~~~~~F~~~~~~  145 (183)
                      .+...|       ++.+.|+|+.   ...+++|+++...... ..|.+.+++.++++|..+.. ...+...|.|.....+
T Consensus        50 ~~~~~~-------~~~~~~~~~~---~~~~~~~~~~~~~~~~-~~~s~~~~~~~~v~~~~~~~~~~~~~~~h~~~~~~~d  118 (1093)
T KOG1863|consen   50 AGATKW-------KILIAPKVNS---LQSTRKKLEVMPSQSL-KSWSCGAQAVLRVKNTIDNLPDPEKAIHHVFTADERD  118 (1093)
T ss_pred             ccccce-------eeeeccccCc---ccceeEEeeeccCCCC-cceEecchhhhccccCCCCchhhhhhhhhcccccccc
Confidence            445666       8899999984   3679999999876555 45999999999999933322 4456678899988899


Q ss_pred             ccccceeeccccccCCCCeeeCCEEEEEEEEEEEe
Q 030100          146 WGWSTFVELSYFNKAENGFLMNDVCIVEAEVLRIS  180 (183)
Q Consensus       146 wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~i~~  180 (183)
                      ||+.+|+.++++.++..||+.+|++.++++|.+..
T Consensus       119 wg~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~~  153 (1093)
T KOG1863|consen  119 WGFSCFSTSSDIRKPEDGYVRNGLEKLEKRVRVEQ  153 (1093)
T ss_pred             hhhccchhHhhccCcccccccccceeeeeeeeeec
Confidence            99999999999999999999999999999998754

>cd03773 MATH_TRIM37 Tripartite motif containing protein 37 (TRIM37) family, MATH domain; TRIM37 is a peroxisomal protein and is a member of the tripartite motif (TRIM) protein subfamily, also known as the RING-B-box-coiled-coil (RBCC) subfamily of zinc-finger proteins

Probab=97.52  E-value=4.8e-05  Score=55.27  Aligned_cols=39  Identities=31%  Similarity=0.620  Sum_probs=32.5

Q ss_pred             ceeccCCccccCccceeccccccCCCCCeEEc--ceEEEeEEEE
Q 030100            4 ERRFHVLKLEWGFDQFIPLEEFNDASNGYLVG--DTCVFGAEVL   45 (183)
Q Consensus         4 ~~~f~~~~~~~G~~~~i~~~~l~~~~~gyl~~--d~~~~~~~v~   45 (183)
                      .++|.. ...|||.+||++++|.  ++|||.|  |+++|++.|.
T Consensus        90 ~~~f~~-~~~wG~~~Fi~~~~L~--~~gfl~~~~D~l~i~~~v~  130 (132)
T cd03773          90 ASDFEV-GECWGYNRFFRLDLLI--NEGYLLPENDTLILRFSVR  130 (132)
T ss_pred             cccccC-CCCcCHHHhccHHHHh--hCCCcCCCCCEEEEEEEEe
Confidence            467765 4679999999999996  5899999  9999887764

Mutations in the human TRIM37 gene (also known as MUL) cause Mulibrey (muscle-liver-brain-eye) nanism, a rare growth disorder of prenatal onset characterized by dysmorphic features, pericardial constriction and hepatomegaly. TRIM37, similar to other TRIMs, contains a cysteine-rich, zinc-binding RING-finger domain followed by another cysteine-rich zinc-binding domain, the B-box, and a coiled-coil domain. TRIM37 is autoubiquitinated in a RING domain-dependent manner, indicating that it functions as an ubiquitin E3 ligase. In addition to the tripartite motif, TRIM37 also contains a MATH domain C-terminal to the coiled-coil domain. The MATH domain of TRIM37 has been shown to interact with the TRAF domain of six known TRAFs i

>cd00121 MATH MATH (meprin and TRAF-C homology) domain; an independent folding unit with an eight-stranded beta-sandwich structure found in meprins, TRAFs and other proteins

Probab=97.10  E-value=0.00053  Score=48.16  Aligned_cols=39  Identities=33%  Similarity=0.617  Sum_probs=31.6

Q ss_pred             eecc-CCccccCccceeccccccCCCCCeEEcceEEEeEEEE
Q 030100            5 RRFH-VLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVL   45 (183)
Q Consensus         5 ~~f~-~~~~~~G~~~~i~~~~l~~~~~gyl~~d~~~~~~~v~   45 (183)
                      +.|. .....|||.+||++++|.++  +++.||+++|+++|.
T Consensus        87 ~~~~~~~~~~~G~~~fi~~~~l~~~--~~~~~d~l~i~~~v~  126 (126)
T cd00121          87 HVFFSEKGSGWGFPKFISWDDLEDS--YYLVDDSLTIEVEVK  126 (126)
T ss_pred             CCcCCCCCCCCChHHeeEHHHhccC--CcEECCEEEEEEEEC
Confidence            3443 66789999999999999843  339999999999873

Meprins comprise a class of extracellular metalloproteases which are anchored to the membrane and are capable of cleaving growth factors, extracellular matrix proteins, and biologically active peptides. TRAF molecules serve as adapter proteins that link cell surface receptors of the Tumor Necrosis Factor and 1nterleukin-1/Toll-like families to downstream kinase cascades, which results in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses in the immune and inflammatory systems. Other members include the ubiquitin ligases, TRIM37 and SPOP, and the ubiquitin-specific proteases, HAUSP and Ubp21p. A large number of uncharacterized members mostly from lineage-specific expansions in C. elegans and rice contain MATH and BTB domains, similar to SPOP. The MATH doma

>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]

Probab=96.34  E-value=0.0047  Score=53.30  Aligned_cols=62  Identities=24%  Similarity=0.475  Sum_probs=54.4

Q ss_pred             CCCCcEEEEEEcCccc---------------------------eeeEeeCCCCCCCCCeEEEEEEecCCCCCC-CCCeEE
Q 030100           64 SASNYKHVWKIENFSK---------------------------KIKLYPKGQGVGRGSHISVYLALADLSTIT-RDSKIY  115 (183)
Q Consensus        64 ~~~~~~~~W~I~nfS~---------------------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~-~~w~i~  115 (183)
                      ....+..+|+|.+++.                           +..+|-+|++.+.+.++|+|+.+.+++..+ ..|++.
T Consensus       276 ~~~~g~~iwki~~~~~~~~e~~~~~~~~~~S~~f~t~~~Gyk~~~~~~lng~g~~~~~~~s~~~~~~~ge~d~~l~wpf~  355 (391)
T KOG0297|consen  276 RSYDGTLIWKIPDYGRKKQEAVAGATLSLFSPAFYTSKYGYKLCARIYLNGDGTGKGTHLSLYFVVMRGEYDALLPWPFR  355 (391)
T ss_pred             hccCCEEEEEecchhhhhHHHHhccCccccccccccccccHHHHhHhhhcCCCCCCcceeeeeeeecccCcccccccCCC
Confidence            3568999999999955                           777888888888889999999999988755 689999


Q ss_pred             EEEEEEEEcC
Q 030100          116 VHFTLRIRDQ  125 (183)
Q Consensus       116 ~~f~l~ll~q  125 (183)
                      -+.++.+++|
T Consensus       356 ~~v~~~l~dq  365 (391)
T KOG0297|consen  356 QKVTLMLLDQ  365 (391)
T ss_pred             CceEEEEecc
Confidence            9999999999

>COG5077 Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]

Probab=94.78  E-value=0.023  Score=52.35  Aligned_cols=43  Identities=33%  Similarity=0.600  Sum_probs=38.6

Q ss_pred             cceeccCCccccCccceeccccccCCCCC---eEEcceEEEeEEEE
Q 030100            3 KERRFHVLKLEWGFDQFIPLEEFNDASNG---YLVGDTCVFGAEVL   45 (183)
Q Consensus         3 ~~~~f~~~~~~~G~~~~i~~~~l~~~~~g---yl~~d~~~~~~~v~   45 (183)
                      ..|||+...++|||++|+.|..+..|+.|   |+.++++++.|.|.
T Consensus       124 sHhrFs~~~tDwGFt~f~dL~kl~~psp~~Ppfleeg~l~ItvyVR  169 (1089)
T COG5077         124 SHHRFSMESTDWGFTNFIDLNKLIEPSPGRPPFLEEGTLVITVYVR  169 (1089)
T ss_pred             ccccccccccccchhhhhhhhhhcCCCCCCCCcccCCeEEEEEEEE
Confidence            46999999999999999999999987666   58889999999888

>KOG1863 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]

Probab=92.69  E-value=0.074  Score=51.66  Aligned_cols=47  Identities=17%  Similarity=0.341  Sum_probs=43.3

Q ss_pred             cceeccCCccccCccceeccccccCCCCCeEEcceEEEeEEEE-Eecc
Q 030100            3 KERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVL-VKER   49 (183)
Q Consensus         3 ~~~~f~~~~~~~G~~~~i~~~~l~~~~~gyl~~d~~~~~~~v~-i~~~   49 (183)
                      ..|+|.....+||+.+|+.++++.+|+.||+.+|++.+.++|. -+++
T Consensus       108 ~~h~~~~~~~dwg~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~~~~  155 (1093)
T KOG1863|consen  108 IHHVFTADERDWGFSCFSTSSDIRKPEDGYVRNGLEKLEKRVRVEQPT  155 (1093)
T ss_pred             hhhcccccccchhhccchhHhhccCcccccccccceeeeeeeeeecCC
Confidence            5799999999999999999999999999999999999999999 4443

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	183
2foj_A	155	Ubiquitin carboxyl-terminal hydrolase 7; MATH doma	7e-21
2foj_A	155	Ubiquitin carboxyl-terminal hydrolase 7; MATH doma	2e-07
3ivv_A	145	Speckle-type POZ protein; protein binding, nucleus	1e-20
3ivv_A	145	Speckle-type POZ protein; protein binding, nucleus	5e-06
1ca9_A	192	TRAF2, protein (TNF receptor associated factor 2);	6e-14
1d00_A	168	Tumor necrosis factor receptor associated protein	2e-13
3hqi_A	312	Speckle-type POZ protein; SPOP, ubiquitin, puckere	7e-12
2gkw_A	192	TNF receptor-associated factor 3; CD40, NF-KB sign	1e-11
1flk_A	228	TNF receptor associated factor 3; TNF signaling, T	5e-11
1lb6_A	160	TNF receptor-associated factor 6; TRAF6-CD40 compl	1e-10
2f1z_A	522	Ubiquitin carboxyl-terminal hydrolase 7; hausp, US	2e-10

>2foj_A Ubiquitin carboxyl-terminal hydrolase 7; MATH domain, hydrolase; 1.60A {Homo sapiens} PDB: 1yze_A 1yy6_A 2foo_A 2fop_A 3mqr_A 3mqs_C 2f1w_A 2f1x_A 2f1y_A 2xxn_A Length = 155

 Score = 83.4 bits (206), Expect = 7e-21
 Identities = 23/127 (18%), Positives = 42/127 (33%), Gaps = 20/127 (15%)

Query: 69  KHVWKIENFSK-----------------KIKLYPKGQGVGR-GSHISVYLALADLSTITR 110
              + +E FS+                 KI + P+          +  +L   +  + + 
Sbjct: 20  TFQFTVERFSRLSESVLSPPCFVRNLPWKIMVMPRFYPDRPHQKSVGFFLQC-NAESDST 78

Query: 111 DSKIYVHFTLRIRDQV-LSKHNEKKASTWLSTSSEDWGWSTFVELSYFNKAENGFLMNDV 169
               +    L+I +     K   ++ S        DWG+S F+  S     E GF+ +D 
Sbjct: 79  SWSCHAQAVLKIINYRDDEKSFSRRISHLFFHKENDWGFSNFMAWSEVTDPEKGFIDDDK 138

Query: 170 CIVEAEV 176
              E  V
Sbjct: 139 VTFEVFV 145

>2foj_A Ubiquitin carboxyl-terminal hydrolase 7; MATH domain, hydrolase; 1.60A {Homo sapiens} PDB: 1yze_A 1yy6_A 2foo_A 2fop_A 3mqr_A 3mqs_C 2f1w_A 2f1x_A 2f1y_A 2xxn_A Length = 155

 Score = 47.5 bits (113), Expect = 2e-07
 Identities = 10/36 (27%), Positives = 14/36 (38%)

Query: 13  EWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLVKE 48
           +WGF  F+   E  D   G++  D   F   V    
Sbjct: 114 DWGFSNFMAWSEVTDPEKGFIDDDKVTFEVFVQADA 149

>3ivv_A Speckle-type POZ protein; protein binding, nucleus, UBL conjugation pathway, ligase; 1.25A {Homo sapiens} PDB: 3ivq_A 3ivb_A 3hsv_A 3hqh_A 3hqm_A 3hql_A 2cr2_A Length = 145

 Score = 82.3 bits (203), Expect = 1e-20
 Identities = 25/139 (17%), Positives = 46/139 (33%), Gaps = 29/139 (20%)

Query: 63  TSASNYKHVWKIENFSKK------------------------IKLYPKGQGVGRGSHISV 98
                + ++W I NFS                          +++ PKG       ++S+
Sbjct: 6   GKVVKFSYMWTINNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGLDEESKDYLSL 65

Query: 99  YLALADLSTITRDSKIYVHFTLRIRDQVLSK-HNEKKASTWLSTSSEDWGWSTFVELSYF 157
           YL L         S++   F   I +    +    +    +     +DWG+  F+   + 
Sbjct: 66  YLLLVS----CPKSEVRAKFKFSILNAKGEETKAMESQRAYRFVQGKDWGFKKFIRRDFL 121

Query: 158 NKAENGFLMNDVCIVEAEV 176
               NG L +D   +  EV
Sbjct: 122 LDEANGLLPDDKLTLFCEV 140

>3ivv_A Speckle-type POZ protein; protein binding, nucleus, UBL conjugation pathway, ligase; 1.25A {Homo sapiens} PDB: 3ivq_A 3ivb_A 3hsv_A 3hqh_A 3hqm_A 3hql_A 2cr2_A Length = 145

 Score = 43.4 bits (102), Expect = 5e-06
 Identities = 13/33 (39%), Positives = 16/33 (48%)

Query: 14  WGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLV 46
           WGF +FI  +   D +NG L  D      EV V
Sbjct: 110 WGFKKFIRRDFLLDEANGLLPDDKLTLFCEVSV 142

>1ca9_A TRAF2, protein (TNF receptor associated factor 2); TNF signaling, TRAF, adapter protein, cell surviVal; 2.30A {Homo sapiens} SCOP: b.8.1.1 h.1.2.1 PDB: 1qsc_A 1czz_A Length = 192

 Score = 65.8 bits (160), Expect = 6e-14
 Identities = 29/151 (19%), Positives = 55/151 (36%), Gaps = 38/151 (25%)

Query: 63  TSASNYKHVWKIENFSKK---------------------------IKLYPKGQGVGRGSH 95
            S  +   +WKI +F++K                           +++Y  G G GRG+H
Sbjct: 38  ASTYDGVFIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGTGRGTH 97

Query: 96  ISVYLALADLST-ITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSS---------ED 145
           +S++  +                 TL + DQ   +H        +++SS           
Sbjct: 98  LSLFFVVMKGPNDALLRWPFNQKVTLMLLDQNNREHVIDAFRPDVTSSSFQRPVNDMNIA 157

Query: 146 WGWSTFVELSYFNKAENGFLMNDVCIVEAEV 176
            G   F  +S   +A+N ++ +D   ++A V
Sbjct: 158 SGCPLFCPVSKM-EAKNSYVRDDAIFIKAIV 187

>1d00_A Tumor necrosis factor receptor associated protein 2; B-sandwich, protein-peptide complex, apoptosis; 2.00A {Homo sapiens} SCOP: b.8.1.1 h.1.2.1 PDB: 1ca4_A 1d0j_A 1f3v_B 1czy_A 1d01_A 1d0a_A Length = 168

 Score = 63.9 bits (155), Expect = 2e-13
 Identities = 29/151 (19%), Positives = 55/151 (36%), Gaps = 38/151 (25%)

Query: 63  TSASNYKHVWKIENFSKK---------------------------IKLYPKGQGVGRGSH 95
            S  +   +WKI +F++K                           +++Y  G G GRG+H
Sbjct: 14  ASTYDGVFIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGTGRGTH 73

Query: 96  ISVYLALADLST-ITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSS---------ED 145
           +S++  +                 TL + DQ   +H        +++SS           
Sbjct: 74  LSLFFVVMKGPNDALLRWPFNQKVTLMLLDQNNREHVIDAFRPDVTSSSFQRPVNDMNIA 133

Query: 146 WGWSTFVELSYFNKAENGFLMNDVCIVEAEV 176
            G   F  +S   +A+N ++ +D   ++A V
Sbjct: 134 SGCPLFCPVSKM-EAKNSYVRDDAIFIKAIV 163

>3hqi_A Speckle-type POZ protein; SPOP, ubiquitin, puckered, nucleus, UBL conjugation pathway, protein binding, ligase; 2.62A {Homo sapiens} PDB: 3hu6_A Length = 312

 Score = 61.4 bits (149), Expect = 7e-12
 Identities = 23/131 (17%), Positives = 43/131 (32%), Gaps = 29/131 (22%)

Query: 63  TSASNYKHVWKIENFSK------------------------KIKLYPKGQGVGRGSHISV 98
           +    + ++W I NFS                          +++ PKG       ++S+
Sbjct: 2   SKVVKFSYMWTINNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGLDEESKDYLSL 61

Query: 99  YLALADLSTITRDSKIYVHFTLRIRDQV-LSKHNEKKASTWLSTSSEDWGWSTFVELSYF 157
           YL L         S++   F   I +         +    +     +DWG+  F+   + 
Sbjct: 62  YLLLVS----CPKSEVRAKFKFSILNAKGEETKAMESQRAYRFVQGKDWGFKKFIRRGFL 117

Query: 158 NKAENGFLMND 168
               NG L +D
Sbjct: 118 LDEANGLLPDD 128

>2gkw_A TNF receptor-associated factor 3; CD40, NF-KB signaling, BAFF receptor, TRAF3, apoptosis; 2.70A {Homo sapiens} PDB: 1kzz_A 1l0a_A 1zms_A 1rf3_A Length = 192

 Score = 59.6 bits (144), Expect = 1e-11
 Identities = 26/160 (16%), Positives = 52/160 (32%), Gaps = 40/160 (25%)

Query: 55  ECLFLAKLTSASNYKHVWKIENFSKK---------------------------IKLYPKG 87
           +  F    T++ N   +WKI ++ ++                            ++Y  G
Sbjct: 27  DLRFQVLETASYNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNG 86

Query: 88  QGVGRGSHISVYLALADLST-ITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSS--- 143
            G+G+G+H+S++  +                 TL + DQ  S+ +   A      SS   
Sbjct: 87  DGMGKGTHLSLFFVIMRGEYDALLPWPFKQKVTLMLMDQGSSRRHLGDAFKPDPNSSSFK 146

Query: 144 -------EDWGWSTFVELSYFNKAENGFLMNDVCIVEAEV 176
                     G   FV  +        ++ +D   ++  V
Sbjct: 147 KPTGEMNIASGCPVFVAQTVLEN--GTYIKDDTIFIKVIV 184

>1flk_A TNF receptor associated factor 3; TNF signaling, TRAF3, CD40-binding protein, apoptosis; 2.80A {Homo sapiens} SCOP: b.8.1.1 h.1.2.1 PDB: 1fll_A Length = 228

 Score = 58.6 bits (141), Expect = 5e-11
 Identities = 27/169 (15%), Positives = 54/169 (31%), Gaps = 40/169 (23%)

Query: 46  VKERNKCKGECLFLAKLTSASNYKHVWKIENFSKK------------------------- 80
           V +      +  F    T++ N   +WKI ++ ++                         
Sbjct: 54  VHDIRLADMDLRFQVLETASYNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYK 113

Query: 81  --IKLYPKGQGVGRGSHISVYLALADLST-ITRDSKIYVHFTLRIRDQVLSKHNEKKAST 137
              ++Y  G G+G+G+H+S++  +                 TL + DQ  S+ +   A  
Sbjct: 114 MCARVYLNGDGMGKGTHLSLFFVIMRGEYDALLPWPFKQKVTLMLMDQGSSRRHLGDAFK 173

Query: 138 WLSTSS----------EDWGWSTFVELSYFNKAENGFLMNDVCIVEAEV 176
               SS             G   FV  +        ++ +D   ++  V
Sbjct: 174 PDPNSSSFKKPTGEMNIASGCPVFVAQTVLEN--GTYIKDDTIFIKVIV 220

>1lb6_A TNF receptor-associated factor 6; TRAF6-CD40 complex, signaling protein; 1.80A {Homo sapiens} SCOP: b.8.1.1 PDB: 1lb5_A 1lb4_A Length = 160

 Score = 56.5 bits (136), Expect = 1e-10
 Identities = 22/150 (14%), Positives = 45/150 (30%), Gaps = 44/150 (29%)

Query: 69  KHVWKIENFSKK---------------------------IKLYPKGQGVGR-GSHISVYL 100
            ++WKI NF                              ++L+ +     R  ++IS+++
Sbjct: 6   IYIWKIGNFGMHLKCQEEEKPVVIHSPGFYTGKPGYKLCMRLHLQLPTAQRCANYISLFV 65

Query: 101 ALADLST-ITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLST-------------SSEDW 146
                               L I DQ  +   +       +              + + +
Sbjct: 66  HTMQGEYDSHLPWPFQGTIRLTILDQSEAPVRQNHEEIMDAKPELLAFQRPTIPRNPKGF 125

Query: 147 GWSTFVELSYFNKAENGFLMNDVCIVEAEV 176
           G+ TF+ L    +    F+ +D  +V  EV
Sbjct: 126 GYVTFMHLEALRQ--RTFIKDDTLLVRCEV 153

>2f1z_A Ubiquitin carboxyl-terminal hydrolase 7; hausp, USP7, UBP, deubiquitinating enzyme, substrate recognition; 3.20A {Homo sapiens} Length = 522

 Score = 58.1 bits (140), Expect = 2e-10
 Identities = 24/134 (17%), Positives = 46/134 (34%), Gaps = 20/134 (14%)

Query: 62  LTSASNYKHVWKIENFSK-----------------KIKLYPKGQGVGRG-SHISVYLALA 103
            +  S     + +E FS+                 KI + P+          +  +L   
Sbjct: 25  TSWRSEATFQFTVERFSRLSESVLSPPCFVRNLPWKIMVMPRFYPDRPHQKSVGFFLQ-C 83

Query: 104 DLSTITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSSE-DWGWSTFVELSYFNKAEN 162
           +  + +     +    L+I +    + +  +  + L    E DWG+S F+  S     E 
Sbjct: 84  NAESDSTSWSCHAQAVLKIINYRDDEKSFSRRISHLFFHKENDWGFSNFMAWSEVTDPEK 143

Query: 163 GFLMNDVCIVEAEV 176
           GF+ +D    E  V
Sbjct: 144 GFIDDDKVTFEVFV 157

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	183
2foj_A	155	Ubiquitin carboxyl-terminal hydrolase 7; MATH doma	99.95
3ivv_A	145	Speckle-type POZ protein; protein binding, nucleus	99.94
4gjh_A	178	TNF receptor-associated factor 5; TRAF domain, imm	99.92
1d00_A	168	Tumor necrosis factor receptor associated protein	99.92
1ca9_A	192	TRAF2, protein (TNF receptor associated factor 2);	99.91
2gkw_A	192	TNF receptor-associated factor 3; CD40, NF-KB sign	99.89
1lb6_A	160	TNF receptor-associated factor 6; TRAF6-CD40 compl	99.89
4ghu_A	198	TNF receptor-associated factor 3; alpha/beta, inna	99.89
1flk_A	228	TNF receptor associated factor 3; TNF signaling, T	99.88
3hqi_A	312	Speckle-type POZ protein; SPOP, ubiquitin, puckere	99.87
2f1z_A	522	Ubiquitin carboxyl-terminal hydrolase 7; hausp, US	99.87
4gwm_A	592	Meprin A subunit beta; mulidomain structure, hydro	99.17
2foj_A	155	Ubiquitin carboxyl-terminal hydrolase 7; MATH doma	98.72
3ivv_A	145	Speckle-type POZ protein; protein binding, nucleus	98.28
3hqi_A	312	Speckle-type POZ protein; SPOP, ubiquitin, puckere	98.01
2f1z_A	522	Ubiquitin carboxyl-terminal hydrolase 7; hausp, US	97.96
4gwm_A	592	Meprin A subunit beta; mulidomain structure, hydro	87.36

>2foj_A Ubiquitin carboxyl-terminal hydrolase 7; MATH domain, hydrolase; 1.60A {Homo sapiens} PDB: 1yze_A 1yy6_A 2foo_A 2fop_A 3mqr_A 3mqs_C 2f1w_A 2f1x_A 2f1y_A 2xxn_A

Probab=99.95  E-value=3.3e-28  Score=182.00  Aligned_cols=117  Identities=20%  Similarity=0.274  Sum_probs=98.0

Q ss_pred             CCCcEEEEEEcCccc-----------------eeeEeeCCCCC-CCCCeEEEEEEecCCCCCCCCCeEEEEEEEEEEcCC
Q 030100           65 ASNYKHVWKIENFSK-----------------KIKLYPKGQGV-GRGSHISVYLALADLSTITRDSKIYVHFTLRIRDQV  126 (183)
Q Consensus        65 ~~~~~~~W~I~nfS~-----------------~l~~yP~G~~~-~~~~~lSlyL~l~~~~~~~~~w~i~~~f~l~ll~q~  126 (183)
                      ...++|+|+|+|||.                 +|++||+|+.. +.++||||||+|.. +..+.+|++.|+|+|+|+||+
T Consensus        16 ~~~~~~~w~I~nfS~~~~~~~S~~f~~gg~~W~i~~yP~G~~~~~~~~~lSlyL~~~~-~~~~~~w~v~a~~~l~l~~~~   94 (155)
T 2foj_A           16 RSEATFQFTVERFSRLSESVLSPPCFVRNLPWKIMVMPRFYPDRPHQKSVGFFLQCNA-ESDSTSWSCHAQAVLKIINYR   94 (155)
T ss_dssp             CSEEEEEEEESSGGGCCSCEECCCEEETTEEEEEEEEEEC------CBEEEEEEEEST-TCCCSSCEEEEEEEEEECCSS
T ss_pred             CCCcEEEEEECChhhcCCceEcCCEEECCccEEEEEEECCCCCCCCCCEEEEEEEeCC-CCCCCCCEEEEEEEEEEEcCC
Confidence            456889999999997                 99999999865 35799999999964 345678999999999999998


Q ss_pred             CCc-ccccccceeeccCCCCccccceeeccccccCCCCeeeCCEEEEEEEEEEEeec
Q 030100          127 LSK-HNEKKASTWLSTSSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLRISKA  182 (183)
Q Consensus       127 ~~~-~~~~~~~~~F~~~~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~i~~~t  182 (183)
                      +.. +..+...++|.....+|||++||++++|+++++|||+||+|+|+|+|.|.++|
T Consensus        95 ~~~~~~~~~~~~~F~~~~~~wG~~~Fi~~~~L~~~~~~yl~dD~l~Ie~~V~V~~~t  151 (155)
T 2foj_A           95 DDEKSFSRRISHLFFHKENDWGFSNFMAWSEVTDPEKGFIDDDKVTFEVFVQADAPH  151 (155)
T ss_dssp             CGGGCEEEEEEEEEETTBCEEEEEEEEEHHHHTCTTTSSCBTTBEEEEEEEEECCCB
T ss_pred             CCcceEEeccEEEeCCCCCCEeECCeEEHHHhcCcCCCceECCEEEEEEEEEEeCcc
Confidence            765 44556678898767899999999999999888999999999999999998876

>3ivv_A Speckle-type POZ protein; protein binding, nucleus, UBL conjugation pathway, ligase; 1.25A {Homo sapiens} SCOP: b.8.1.1 PDB: 3ivq_A 3ivb_A 3hsv_A 3hqh_A 3hqm_A 3hql_A 2cr2_A

Probab=99.94  E-value=8.6e-27  Score=172.55  Aligned_cols=112  Identities=23%  Similarity=0.448  Sum_probs=94.5

Q ss_pred             CCCCcEEEEEEcCccc------------------------eeeEeeCCCCCCCCCeEEEEEEecCCCCCCCCCeEEEEEE
Q 030100           64 SASNYKHVWKIENFSK------------------------KIKLYPKGQGVGRGSHISVYLALADLSTITRDSKIYVHFT  119 (183)
Q Consensus        64 ~~~~~~~~W~I~nfS~------------------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~~~w~i~~~f~  119 (183)
                      +...++|+|+|+|||.                        +|++||+|+..+.++||||||+|.+.    ++|++.|+|+
T Consensus         7 ~~~~~~~~w~I~~fs~~~~~~g~~~~S~~F~~gg~~g~~W~i~~yP~G~~~~~~~~lSlyL~l~~~----~~w~v~a~f~   82 (145)
T 3ivv_A            7 KVVKFSYMWTINNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGLDEESKDYLSLYLLLVSC----PKSEVRAKFK   82 (145)
T ss_dssp             CCCEEEEEEEESSGGGCCCCTTCCEECCCEEESGGGCEEEEEEEETTCSSGGGTTEEEEEEEEEEC----SSSEEEEEEE
T ss_pred             cEEEEEEEEEEcCchHHhhcCCCEEECCCcCCCCcCCceEEEEEEcCCCCCCCCCeEEEEEEEcCC----CCCcEEEEEE
Confidence            4556778888888875                        69999999887667999999999864    4699999999


Q ss_pred             EEEEcCCCCccc--ccccceeeccCCCCccccceeeccccccCCCCeeeCCEEEEEEEEEEEe
Q 030100          120 LRIRDQVLSKHN--EKKASTWLSTSSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLRIS  180 (183)
Q Consensus       120 l~ll~q~~~~~~--~~~~~~~F~~~~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~i~~  180 (183)
                      |+|+||.+.++.  .....++|. +..+|||++||++++|+++++|||+||+|+|+|+|+|++
T Consensus        83 l~llnq~~~~~~~~~~~~~~~F~-~~~~wG~~~Fi~~~~L~~~~~~yl~dD~l~I~~~V~V~~  144 (145)
T 3ivv_A           83 FSILNAKGEETKAMESQRAYRFV-QGKDWGFKKFIRRDFLLDEANGLLPDDKLTLFCEVSVVQ  144 (145)
T ss_dssp             EEEECTTSCEEEEEECSSCEEEE-TTCEEEEEEEEEHHHHHCGGGCSSGGGCEEEEEEEEECC
T ss_pred             EEEEecCCCceeeecccceEEec-CCCCcCHHHeEEhhhhccccCCcEeCCEEEEEEEEEEEe
Confidence            999999886643  233567886 468999999999999987779999999999999999985

>4gjh_A TNF receptor-associated factor 5; TRAF domain, immune system; 2.81A {Mus musculus}

Probab=99.92  E-value=1.1e-25  Score=172.23  Aligned_cols=118  Identities=21%  Similarity=0.315  Sum_probs=96.7

Q ss_pred             CCCCcEEEEEEcCccc---------------------------eeeEeeCCCCCCCCCeEEEEEEecCCCC-CCCCCeEE
Q 030100           64 SASNYKHVWKIENFSK---------------------------KIKLYPKGQGVGRGSHISVYLALADLST-ITRDSKIY  115 (183)
Q Consensus        64 ~~~~~~~~W~I~nfS~---------------------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~-~~~~w~i~  115 (183)
                      ...+++|+|+|+|||.                           +|++||+|+..+.++|||+||+|.+++. ...+|++.
T Consensus        20 ~~~~g~~~w~I~~fS~~~~~~~~g~~~~i~S~~F~~g~~G~~W~i~~yP~G~~~~~~~~lSlyL~l~~~~~d~~l~W~v~   99 (178)
T 4gjh_A           20 ACYSGKLIWKVTDYRVKKREAVEGHTVSVFSQPFYTSRCGYRLCARAYLNGDGSGKGTHLSLYFVVMRGEFDSLLQWPFR   99 (178)
T ss_dssp             CCSSSEEEEEECCHHHHHHHHHTTSCCCEECCCEESSTTSCEEEEEEETTCCGGGTTTEEEEEEEEBCCTTGGGSCSSCC
T ss_pred             cccceEEEEEECCHHHHHhhhhcCCCcEEECCCeEeCCCCeEEEEEEEECCCCCCCCCEEEEEEEEecCCCCcccCCceE
Confidence            4668899999999986                           7999999998777899999999987653 23579999


Q ss_pred             EEEEEEEEcCCCCc-cccc-----ccceeecc----CCCCccccceeeccccccCCCCeeeCCEEEEEEEEEEEee
Q 030100          116 VHFTLRIRDQVLSK-HNEK-----KASTWLST----SSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLRISK  181 (183)
Q Consensus       116 ~~f~l~ll~q~~~~-~~~~-----~~~~~F~~----~~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~i~~~  181 (183)
                      |+|+|+|+||.+.. +...     ...++|..    ...+|||++||++++|+++++|||+||+|+|+|+|.|.++
T Consensus       100 a~~~l~Lldq~~~~~~~~~~~~~~~~~~~F~~p~~~~~~~wG~~~Fi~~~~L~~~~~~yL~dD~l~I~~~V~i~~~  175 (178)
T 4gjh_A          100 QRVTLMLLDQSGKKNHIVETFKADPNSSSFKRPDGEMNIASGCPRFVSHSTLENSKNTYIKDDTLFLKVAVDLTDL  175 (178)
T ss_dssp             CEEEEEECCTTSSCCCEEEEEECCTTCGGGSCCSSSBCCCEEEEEEEEHHHHHCTTCCSSBTTBEEEEEEECCTTC
T ss_pred             EEEEEEEEcCCCCcceeEEeeccCCccccccCCcccccCCcChhheeEHHHhhccccCcCcCCEEEEEEEEEecCC
Confidence            99999999998654 3322     13467763    2468999999999999988899999999999999987653

>1d00_A Tumor necrosis factor receptor associated protein 2; B-sandwich, protein-peptide complex, apoptosis; 2.00A {Homo sapiens} SCOP: b.8.1.1 h.1.2.1 PDB: 1ca4_A 1d0j_A 1f3v_B 1czy_A 1d01_A 1d0a_A

Probab=99.92  E-value=2.4e-25  Score=168.45  Aligned_cols=115  Identities=22%  Similarity=0.351  Sum_probs=92.8

Q ss_pred             CCCcEEEEEEcCccc---------------------------eeeEeeCCCCCCCCCeEEEEEEecCCCCCC-CCCeEEE
Q 030100           65 ASNYKHVWKIENFSK---------------------------KIKLYPKGQGVGRGSHISVYLALADLSTIT-RDSKIYV  116 (183)
Q Consensus        65 ~~~~~~~W~I~nfS~---------------------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~-~~w~i~~  116 (183)
                      ...++|+|+|+|||.                           +|++||+|+..+.++|||+||+|.+++..+ .+|++.+
T Consensus        16 ~~~g~~~w~I~nfS~~~~~~~~g~~~~i~S~~F~~~~gG~~W~i~~yP~G~~~~~~~~lSlyL~l~~~~~~~~~~w~~~~   95 (168)
T 1d00_A           16 TYDGVFIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGTGRGTHLSLFFVVMKGPNDALLRWPFNQ   95 (168)
T ss_dssp             CSSSEEEEEEESHHHHHHHHHTTSSCCEECCCEESSTTSCEEEEEEETTCCGGGTTTEEEEEEEEECCTTGGGSCSSCCC
T ss_pred             ccCCEEEEEECCHHHHHHHhhcCCCeEEECCCeecCCCCEEEEEEEEeCCCCCCCCcEEEEEEEEecCCCCccCCCceEE
Confidence            467788888888775                           899999998876679999999998876544 6899999


Q ss_pred             EEEEEEEcCCCCccccccc-----ceeecc----CCCCccccceeeccccccCCCCeeeCCEEEEEEEEEEEe
Q 030100          117 HFTLRIRDQVLSKHNEKKA-----STWLST----SSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLRIS  180 (183)
Q Consensus       117 ~f~l~ll~q~~~~~~~~~~-----~~~F~~----~~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~i~~  180 (183)
                      +|+|+|+||.+.++.....     .+.|..    .+.+|||++||++++|+++ +|||+||+|+|+|+|.|.+
T Consensus        96 ~~~l~ll~q~~~~~~~~~~~~~~~~~~f~~p~~~~~~~~G~~~Fi~~~~L~~~-~gyl~dD~l~I~~~V~v~~  167 (168)
T 1d00_A           96 KVTLMLLDQNNREHVIDAFRPDVTSSSFQRPVNDMNIASGCPLFCPVSKMEAK-NSYVRDDAIFIKAIVDLTG  167 (168)
T ss_dssp             CEEEEECCTTSSCCEEEEECCCTTSGGGSCCSSSBCCCEEEEEEEETTTTTSS-SSSSBTTEEEEEEEECCTT
T ss_pred             EEEEEEECCCCCccceeccccCcchhhccCCCcCCCCCcCcceEeEHHHhccc-CCceeCCEEEEEEEEEecC
Confidence            9999999998866543221     234542    3578999999999999974 5999999999999998753

>1ca9_A TRAF2, protein (TNF receptor associated factor 2); TNF signaling, TRAF, adapter protein, cell surviVal; 2.30A {Homo sapiens} SCOP: b.8.1.1 h.1.2.1 PDB: 1qsc_A 1czz_A

Probab=99.91  E-value=6.6e-25  Score=169.74  Aligned_cols=115  Identities=22%  Similarity=0.364  Sum_probs=92.9

Q ss_pred             CCCcEEEEEEcCccc---------------------------eeeEeeCCCCCCCCCeEEEEEEecCCCCCC-CCCeEEE
Q 030100           65 ASNYKHVWKIENFSK---------------------------KIKLYPKGQGVGRGSHISVYLALADLSTIT-RDSKIYV  116 (183)
Q Consensus        65 ~~~~~~~W~I~nfS~---------------------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~-~~w~i~~  116 (183)
                      ...++|+|+|+|||.                           +|++||+|+..+.++|||+||++.+++..+ .+|++.+
T Consensus        40 ~~~g~~~w~I~nfS~~~~~~~~g~~~~i~S~~F~v~~gG~~W~i~~yP~G~~~~~~~~lSlyL~l~~~~~~~~~~W~~~a  119 (192)
T 1ca9_A           40 TYDGVFIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGTGRGTHLSLFFVVMKGPNDALLRWPFNQ  119 (192)
T ss_dssp             CSSSEEEEEEESHHHHHHHHHTTSSCCEECCCEESSTTSCEEEEEEETTCCGGGTTTEEEEEEEEECCTTGGGSCSSCCC
T ss_pred             ccCceEEEEECCHHHHHHHhhcCCCceEECceEEeCCCCeEEEEEEEeCCCCCCCCCEEEEEEEEccCCCCCcCCCceEE
Confidence            467788888888775                           899999998876789999999998876554 6899999


Q ss_pred             EEEEEEEcCCCCcccccc-----cceeec----cCCCCccccceeeccccccCCCCeeeCCEEEEEEEEEEEe
Q 030100          117 HFTLRIRDQVLSKHNEKK-----ASTWLS----TSSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLRIS  180 (183)
Q Consensus       117 ~f~l~ll~q~~~~~~~~~-----~~~~F~----~~~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~i~~  180 (183)
                      +|+|+|+||.+.++....     ..+.|.    ....+|||++||++++|++ ++|||+||+|+|+|+|.|.+
T Consensus       120 ~~~l~lldq~~~~~~~~~~~~~~~~~~f~rp~~~~~~~wG~~~Fi~~~~L~~-~~gyl~dD~l~I~~~V~V~~  191 (192)
T 1ca9_A          120 KVTLMLLDQNNREHVIDAFRPDVTSSSFQRPVNDMNIASGCPLFCPVSKMEA-KNSYVRDDAIFIKAIVDLTG  191 (192)
T ss_dssp             CEEEEECCTTSSCCEEEEECCCTTSGGGSCCSSSBCCCEEEEEEEETHHHHS-SCSSCBTTEEEEEEEECCTT
T ss_pred             EEEEEEECCCCCceeeEeeccCCchhhhcCCccCCCCCcChhheeEHHHhhh-ccCCEeCCEEEEEEEEEecC
Confidence            999999999887553222     112353    2346899999999999996 48999999999999998864

>2gkw_A TNF receptor-associated factor 3; CD40, NF-KB signaling, BAFF receptor, TRAF3, apoptosis; 2.70A {Homo sapiens} PDB: 1kzz_A 1l0a_A 1zms_A 1rf3_A

Probab=99.89  E-value=4.8e-24  Score=165.04  Aligned_cols=114  Identities=20%  Similarity=0.346  Sum_probs=92.4

Q ss_pred             CCCcEEEEEEcCccc---------------------------eeeEeeCCCCCCCCCeEEEEEEecCCCCCC-CCCeEEE
Q 030100           65 ASNYKHVWKIENFSK---------------------------KIKLYPKGQGVGRGSHISVYLALADLSTIT-RDSKIYV  116 (183)
Q Consensus        65 ~~~~~~~W~I~nfS~---------------------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~-~~w~i~~  116 (183)
                      ..+++|+|+|+|||.                           +|++||+|+..+.++|||+||++++++..+ .+|++.+
T Consensus        37 ~~~g~~~w~I~~fS~~~~~~~~g~~~~i~S~~F~vg~~Gykw~i~~yPnG~~~~~~~~lSlyL~l~~~~~d~~l~wp~~a  116 (192)
T 2gkw_A           37 SYNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDGMGKGTHLSLFFVIMRGEYDALLPWPFKQ  116 (192)
T ss_dssp             CCSSEEEEEEECHHHHHHHHHHTSCSCEECCCEESSTTSCEEEEEEETTCCGGGTTTEEEEEEEEECCTTGGGSCSSCCC
T ss_pred             ccCcEEEEEECCHHHHHHHhhcCCCceEEcccEEECCCCcEEEEEEEeCCCCCCCCCEEEEEEEEecCCCCccCCCcEEE
Confidence            367888888888876                           899999998876789999999998776543 5799999


Q ss_pred             EEEEEEEcCCCCc-ccccc-----cceeeccC----CCCccccceeeccccccCCCCeeeCCEEEEEEEEEEEe
Q 030100          117 HFTLRIRDQVLSK-HNEKK-----ASTWLSTS----SEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLRIS  180 (183)
Q Consensus       117 ~f~l~ll~q~~~~-~~~~~-----~~~~F~~~----~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~i~~  180 (183)
                      +|+|+|+||.+.. +....     ..++|...    +.+|||++||++++|++  +|||+||+|+|+|+|.|..
T Consensus       117 ~~~l~lldq~~~~~~~~~~~~~~~~~~~F~~~~~~~~~~wG~~~Fi~~~~L~~--~gyl~dD~l~I~~~V~v~~  188 (192)
T 2gkw_A          117 KVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMNIASGCPVFVAQTVLEN--GTYIKDDTIFIKVIVDTSD  188 (192)
T ss_dssp             CEEEEECCCSTTCCCEEEEECCCTTCTTSSCCSSSBCCCEEEEEEEEHHHHHH--TTSCBTTEEEEEEEECCTT
T ss_pred             EEEEEEECCCCCccceEEEEecCCCcccccCCCCCCcCCCChHHEeEHHHhCc--CCCeeCCEEEEEEEEEcCC
Confidence            9999999998763 33211     22567532    36899999999999986  6899999999999998754

>1lb6_A TNF receptor-associated factor 6; TRAF6-CD40 complex, signaling protein; 1.80A {Homo sapiens} SCOP: b.8.1.1 PDB: 1lb5_A 1lb4_A

Probab=99.89  E-value=4e-23  Score=155.17  Aligned_cols=99  Identities=18%  Similarity=0.190  Sum_probs=75.3

Q ss_pred             eeeEeeCCCCCCC-CCeEEEEEEecCCCCC-CCCCeEEEEEEEEEEcCCCCc---ccccc-----cceeecc-----CCC
Q 030100           80 KIKLYPKGQGVGR-GSHISVYLALADLSTI-TRDSKIYVHFTLRIRDQVLSK---HNEKK-----ASTWLST-----SSE  144 (183)
Q Consensus        80 ~l~~yP~G~~~~~-~~~lSlyL~l~~~~~~-~~~w~i~~~f~l~ll~q~~~~---~~~~~-----~~~~F~~-----~~~  144 (183)
                      +|++||+|+..+. ++|||+||++++++.. ..+|++.|+|+|+|+||.+..   +....     ....|..     +..
T Consensus        44 ~i~~yP~G~~~~~~~~~lSlyL~l~~~~~d~~l~wp~~a~~~l~lldq~~~~~~~~~~~~~~~~~~~~~f~~p~~~~~~~  123 (160)
T 1lb6_A           44 CMRLHLQLPTAQRCANYISLFVHTMQGEYDSHLPWPFQGTIRLTILDQSEAPVRQNHEEIMDAKPELLAFQRPTIPRNPK  123 (160)
T ss_dssp             EEEEEECCTTCTTTTTEEEEEEEEECCTTGGGSCSSCCSEEEEEECCCSCTTSCCCEEEEEECCTTSGGGSCCSSSBCSE
T ss_pred             EEEEEecCCCCCCCCCEEEEEEEEeecCCCccCCCceeeeEEEEEEcCCCccccccceEEeecCCcchhccCCcccCCCC
Confidence            8999999987653 7899999999877653 357999999999999997642   11111     1123432     123


Q ss_pred             CccccceeeccccccCCCCeeeCCEEEEEEEEEEEe
Q 030100          145 DWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLRIS  180 (183)
Q Consensus       145 ~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~i~~  180 (183)
                      +|||++||++++|+  ++|||+||+|+|+|+|.|+.
T Consensus       124 ~~G~~~Fi~~~~L~--~~~yl~dD~l~I~~~V~v~~  157 (160)
T 1lb6_A          124 GFGYVTFMHLEALR--QRTFIKDDTLLVRCEVSTRF  157 (160)
T ss_dssp             EEEEEEEEEGGGGG--TSCCCBTTBEEEEEEEEC--
T ss_pred             CcCEeeEeEHHHhh--hCCCccCCEEEEEEEEEEee
Confidence            79999999999998  48899999999999999874

>4ghu_A TNF receptor-associated factor 3; alpha/beta, innate immunity, IFN pathway, immune system; 2.20A {Mus musculus} PDB: 2gkw_A 1kzz_A 1l0a_A 1zms_A 1rf3_A

Probab=99.89  E-value=8.6e-24  Score=164.37  Aligned_cols=115  Identities=20%  Similarity=0.336  Sum_probs=92.0

Q ss_pred             CCCCcEEEEEEcCccc---------------------------eeeEeeCCCCCCCCCeEEEEEEecCCCCC-CCCCeEE
Q 030100           64 SASNYKHVWKIENFSK---------------------------KIKLYPKGQGVGRGSHISVYLALADLSTI-TRDSKIY  115 (183)
Q Consensus        64 ~~~~~~~~W~I~nfS~---------------------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~~-~~~w~i~  115 (183)
                      ...+++|+|+|+|||.                           +|++||+|+..+.++||||||++++++.. ..+|++.
T Consensus        36 ~~~~g~~~w~I~nfS~~~~~~~~~~g~~i~S~~F~vg~~Gy~W~i~~yPnG~~~~~~~~lSlyL~l~~g~~D~~l~wp~~  115 (198)
T 4ghu_A           36 ASYNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDGMGKGTHLSLFFVIMRGEYDALLPWPFK  115 (198)
T ss_dssp             CCSSSEEEEEECCHHHHHHHHHTTSSCCEECCCEESSTTSCEEEEEEETTCCGGGTTTEEEEEEEEECCTTGGGSCSSCC
T ss_pred             cccccEEEEEECCHHHHHhhhccCCCcEEECCCeEECCCCcEEEEEEEeCCCCCCCCCeEEEEEEecCCccCCCCCceEE
Confidence            3567889999999986                           79999999987778999999999877643 3579999


Q ss_pred             EEEEEEEEcCCCCc-ccccc-----cceee----ccCCCCccccceeeccccccCCCCeeeCCEEEEEEEEEEEe
Q 030100          116 VHFTLRIRDQVLSK-HNEKK-----ASTWL----STSSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLRIS  180 (183)
Q Consensus       116 ~~f~l~ll~q~~~~-~~~~~-----~~~~F----~~~~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~i~~  180 (183)
                      ++|+|+|+||.+.. +....     ....|    ...+.+|||++||++++|++  +|||+||+|+|+|+|.|+.
T Consensus       116 a~~~l~Lldq~~~~~~~~~~~~~~~~~~~f~rp~~~~~~~wG~~~Fi~~~~L~~--~gyL~dD~l~I~~~V~v~~  188 (198)
T 4ghu_A          116 QKVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMNIASGCPVFVAQTVLEN--GTYIKDDTIFIKVIVDTSD  188 (198)
T ss_dssp             CCEEEEECCCSTTCCCEEEEECCCTTSGGGSCCSSSBCCCEEEEEEEEHHHHHH--TTSCBTTBEEEEEEECCTT
T ss_pred             EEEEEEEEcCCCCccceEEEeecCcccceecCCcccCcCCcCchhEeEHHHhhh--cCCeeCCEEEEEEEEEecc
Confidence            99999999998643 32211     11223    33456899999999999985  8999999999999998864

>1flk_A TNF receptor associated factor 3; TNF signaling, TRAF3, CD40-binding protein, apoptosis; 2.80A {Homo sapiens} SCOP: b.8.1.1 h.1.2.1 PDB: 1fll_A

Probab=99.88  E-value=1.9e-23  Score=165.77  Aligned_cols=115  Identities=20%  Similarity=0.332  Sum_probs=94.0

Q ss_pred             CCCcEEEEEEcCccc---------------------------eeeEeeCCCCCCCCCeEEEEEEecCCCCCC-CCCeEEE
Q 030100           65 ASNYKHVWKIENFSK---------------------------KIKLYPKGQGVGRGSHISVYLALADLSTIT-RDSKIYV  116 (183)
Q Consensus        65 ~~~~~~~W~I~nfS~---------------------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~-~~w~i~~  116 (183)
                      ...++|+|+|+|||.                           +|++||+|+..+.++|||+||++++++..+ .+|++.+
T Consensus        73 ~~~g~~~wkI~nfS~~~~~~~~g~~~~i~S~~F~vg~~Gy~w~i~~yPnG~~~~~~~~lSlyL~l~~~~~d~~l~Wp~~a  152 (228)
T 1flk_A           73 SYNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDGMGKGTHLSLFFVIMRGEYDALLPWPFKQ  152 (228)
T ss_dssp             CSSSEEEEEEECHHHHHHHHHTTSCCCEECCCEESSTTSCEECEEEETTCCGGGTTTEEEEEECCBCCTTTTSSCSSCCC
T ss_pred             CcCcEEEEEECCHHHHHHHhhcCCCeeEECceEEeCCCCcEEEEEEEcCCCCCCCCCEEEEEEEEecCCccccCCCcEEE
Confidence            478899999999976                           899999999877789999999998776543 5799999


Q ss_pred             EEEEEEEcCCCCc-cccc-----ccceeecc----CCCCccccceeeccccccCCCCeeeCCEEEEEEEEEEEee
Q 030100          117 HFTLRIRDQVLSK-HNEK-----KASTWLST----SSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLRISK  181 (183)
Q Consensus       117 ~f~l~ll~q~~~~-~~~~-----~~~~~F~~----~~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~i~~~  181 (183)
                      +|+|+|+||.+.+ +...     ...++|..    .+.+|||++||++++|++  +|||+||+|+|+|+|.|.++
T Consensus       153 ~~~l~lldq~~~~~~~~~~~~~~~~~~~F~rp~~~~~~~wG~~~Fi~~~~L~~--~gyL~dD~l~I~~~V~v~~~  225 (228)
T 1flk_A          153 KVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMNIASGCPVFVAQTVLEN--GTYIKDDTIFIKVIVDTSDL  225 (228)
T ss_dssp             CEEEEECCCSSSCCCEEEEECCCTTCTTSSSCSSSBCCCCSEEEEEEHHHHSS--STTCCSSEEEEEEECCCTTS
T ss_pred             EEEEEEEcCCCCccceeeeecCCCccccccCCccCCCCCcCHHHeeEHHHHcc--CCCccCCEEEEEEEEEcccc
Confidence            9999999998764 3221     12345652    246899999999999985  79999999999999988654

>3hqi_A Speckle-type POZ protein; SPOP, ubiquitin, puckered, nucleus, UBL conjugation pathway, protein binding, ligase; 2.62A {Homo sapiens} PDB: 3hu6_A

Probab=99.87  E-value=1.7e-22  Score=166.17  Aligned_cols=109  Identities=23%  Similarity=0.451  Sum_probs=89.3

Q ss_pred             CcEEEEEEcCccc------------------------eeeEeeCCCCCCCCCeEEEEEEecCCCCCCCCCeEEEEEEEEE
Q 030100           67 NYKHVWKIENFSK------------------------KIKLYPKGQGVGRGSHISVYLALADLSTITRDSKIYVHFTLRI  122 (183)
Q Consensus        67 ~~~~~W~I~nfS~------------------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~~~w~i~~~f~l~l  122 (183)
                      .++|+|+|+|||.                        +|++||+|+..+.++|+|+||+|.++    ++|++.|+|+|+|
T Consensus         6 ~~~~~w~I~nfs~~~~~~~~~i~S~~F~~gg~~~~~W~i~~yP~G~~~~~~~~lslyL~~~~~----~~~~v~a~~~~~l   81 (312)
T 3hqi_A            6 KFSYMWTINNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGLDEESKDYLSLYLLLVSC----PKSEVRAKFKFSI   81 (312)
T ss_dssp             EEEEEEEETTGGGCCCCTTCCEECCCBCC--CCCCEEEEEEETTCCC--CTTEEEEEEEEEEC----CC-CEEEEEEEEE
T ss_pred             EEEEEEEEcCcchhhhcCCCeEeeCCcccCCCCCceEEEEEECCCCCccCCCcEEEEEEEcCC----CCCcEEEEEEEEE
Confidence            3567777777775                        89999999887678999999999864    3689999999999


Q ss_pred             EcCCCCcccc--cccceeeccCCCCccccceeeccccccCCCCeeeCCEEEEEEEEEEEe
Q 030100          123 RDQVLSKHNE--KKASTWLSTSSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLRIS  180 (183)
Q Consensus       123 l~q~~~~~~~--~~~~~~F~~~~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~i~~  180 (183)
                      +||++.....  ....++|.. ..+|||++||+|++|+++++|||+||+++|+|+|.|++
T Consensus        82 ~~~~~~~~~~~~~~~~~~F~~-~~~wG~~~Fi~~~~L~~~~~~yl~dD~l~i~~~v~v~~  140 (312)
T 3hqi_A           82 LNAKGEETKAMESQRAYRFVQ-GKDWGFKKFIRRGFLLDEANGLLPDDKLTLFCEVSVVQ  140 (312)
T ss_dssp             ECTTSCEEEEEECSSCEEECT-TCEEEEEEEEEHHHHTCGGGCCCGGGCEEEEEEEEEEE
T ss_pred             EeCCCCcccccccCCceeCCC-CCCcCHHHhccHHHhhccccCeecCCEEEEEEEEEEEe
Confidence            9998865432  235678874 56999999999999998788999999999999999985

>2f1z_A Ubiquitin carboxyl-terminal hydrolase 7; hausp, USP7, UBP, deubiquitinating enzyme, substrate recognition; 3.20A {Homo sapiens}

Probab=99.87  E-value=2.2e-22  Score=176.38  Aligned_cols=115  Identities=20%  Similarity=0.275  Sum_probs=94.8

Q ss_pred             CCCcEEEEEEcCccc-----------------eeeEeeCCCCCC-CCCeEEEEEEecCCCCCCCCCeEEEEEEEEEEcCC
Q 030100           65 ASNYKHVWKIENFSK-----------------KIKLYPKGQGVG-RGSHISVYLALADLSTITRDSKIYVHFTLRIRDQV  126 (183)
Q Consensus        65 ~~~~~~~W~I~nfS~-----------------~l~~yP~G~~~~-~~~~lSlyL~l~~~~~~~~~w~i~~~f~l~ll~q~  126 (183)
                      ...++|+|+|+|||.                 +|++||+|+..+ .++|||+||+|.+. ..+.+|.+.|+|+|+|+||.
T Consensus        28 ~~~~~~~w~I~nfS~~~~~~~S~~F~vgg~~W~i~~yP~G~~~~~~~~~lSlyL~~~~~-~~~~~w~v~a~f~l~l~n~~  106 (522)
T 2f1z_A           28 RSEATFQFTVERFSRLSESVLSPPCFVRNLPWKIMVMPRFYPDRPHQKSVGFFLQCNAE-SDSTSWSCHAQAVLKIINYR  106 (522)
T ss_dssp             CSEEEEEEEESSCTTCCSCEECCCEEETTEEEEEEECBC--------CBBCEEEEESTT-CCCSSCBEEEEEEEEECCTT
T ss_pred             cCCcEEEEEECChhhcCCceeCCCEEECCEeeEEEEEeCCCCCCCCCCeEEEEEEecCC-CCCCCceEEEEEEEEEEcCC
Confidence            457899999999997                 999999997543 57899999999876 45678999999999999998


Q ss_pred             CCc-ccccccceeeccCCCCccccceeeccccccCCCCeeeCCEEEEEEEEEEEe
Q 030100          127 LSK-HNEKKASTWLSTSSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLRIS  180 (183)
Q Consensus       127 ~~~-~~~~~~~~~F~~~~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~i~~  180 (183)
                      ++. +..+...++|.....+|||.+||++++|.++++|||+||+++|+|+|.|..
T Consensus       107 ~~~~~~~~~~~~~F~~~~~~wG~~~Fi~~~~L~~~~~g~L~nD~l~i~~~V~v~~  161 (522)
T 2f1z_A          107 DDEKSFSRRISHLFFHKENDWGFSNFMAWSEVTDPEKGFIDDDKVTFEVFVQADA  161 (522)
T ss_dssp             CGGGCEEEECCEEECGGGCEEEESSSSBHHHHSCGGGSSCBTTBEEEEEEEEECC
T ss_pred             CCccceeccceeEecCCCCCcchhheeEhhHhcCcccCcccCCcEEEEEEeeccc
Confidence            754 345567788987678999999999999987789999999999999999864

>4gwm_A Meprin A subunit beta; mulidomain structure, hydrolase; HET: NAG BMA FUC MAN; 1.85A {Homo sapiens} PDB: 4gwn_A*

Probab=99.17  E-value=8.6e-11  Score=104.01  Aligned_cols=110  Identities=20%  Similarity=0.308  Sum_probs=81.3

Q ss_pred             CCCCcEEEEEEcCccc----------------------eeeEeeCCCCCCCCCeEEEEEEecCCCCCC-CCCeE-EEEEE
Q 030100           64 SASNYKHVWKIENFSK----------------------KIKLYPKGQGVGRGSHISVYLALADLSTIT-RDSKI-YVHFT  119 (183)
Q Consensus        64 ~~~~~~~~W~I~nfS~----------------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~-~~w~i-~~~f~  119 (183)
                      +.+.+.+.|+|.||+.                      +|.+||+|     +.|+|||++|..++.+. ..|++ .-+++
T Consensus       402 ~G~CP~~vw~i~nfs~~l~~~~~~~~Sp~Fys~~GY~~~v~l~~~~-----~~~~~~~~~l~sG~~D~~L~WP~~~~q~t  476 (592)
T 4gwm_A          402 ETRCPHHIWHIRNFTQFIGSPNGTLYSPPFYSSKGYAFQIYLNLAH-----VTNAGIYFHLISGANDDQLQWPCPWQQAT  476 (592)
T ss_dssp             SSCCCSEEEEECSCGGGTTCTTCEEECCCEECTTSCEEEEEEECCS-----SSEEEEEEEEECCTTGGGSCSSCCSEEEE
T ss_pred             eCCCCCCceeecCHHHhhcCCCCceeCCCccCCCCeEEEEEEecCC-----CceEEEEEEEecCCCCCCccCCCCCCEEE
Confidence            5667789999999998                      66666653     47999999999987644 78999 57899


Q ss_pred             EEEEcCCCCc----cccc--------c---ccee------------ecc-----CCCCccccceeeccccccCCCCeeeC
Q 030100          120 LRIRDQVLSK----HNEK--------K---ASTW------------LST-----SSEDWGWSTFVELSYFNKAENGFLMN  167 (183)
Q Consensus       120 l~ll~q~~~~----~~~~--------~---~~~~------------F~~-----~~~~wG~~~Fi~~~~L~~~~~gyl~n  167 (183)
                      +.|+||+...    +...        .   ....            |.+     ++.+|||+.||+++.|+.  ..||+|
T Consensus       477 ~~llDQ~pd~~~rms~~~s~ttdp~~~~~~~~~~w~~P~~~g~~~~~~~~~~~~r~~~~G~~~fish~~l~~--r~fiK~  554 (592)
T 4gwm_A          477 MTLLDQNPDIRQRMSNQRSITTDPFMTTDNGNYFWDRPSKVGTVALFSNGTQFRRGGGYGTSAFITHERLKS--RDFIKG  554 (592)
T ss_dssp             EEECCCCSSGGGCCCEEEEEECCTTCBCTTSCBTTSCHHHHCEEEECTTCCEEEEEEEEEEEEEEEHHHHTS--TTSSBT
T ss_pred             EEEeCCCCChHhcCceeEEEEcCCcccCcccccccCCcccccccccccCCcceeecCCcCccccccHHHHhh--cCcccC
Confidence            9999996432    1100        0   0011            211     124789999999999984  669999


Q ss_pred             CEEEEEEEEEEEe
Q 030100          168 DVCIVEAEVLRIS  180 (183)
Q Consensus       168 D~l~Ie~~V~i~~  180 (183)
                      |+++|.++|+=+.
T Consensus       555 d~~~i~~~~eD~~  567 (592)
T 4gwm_A          555 DDVYILLTVEDIS  567 (592)
T ss_dssp             TBEEEEEEEEECG
T ss_pred             CeEEEEEEEEeCc
Confidence            9999999997553

>2foj_A Ubiquitin carboxyl-terminal hydrolase 7; MATH domain, hydrolase; 1.60A {Homo sapiens} PDB: 1yze_A 1yy6_A 2foo_A 2fop_A 3mqr_A 3mqs_C 2f1w_A 2f1x_A 2f1y_A 2xxn_A

Probab=98.72  E-value=3.5e-09  Score=78.25  Aligned_cols=43  Identities=26%  Similarity=0.556  Sum_probs=40.3

Q ss_pred             ceeccCCccccCccceeccccccCCCCCeEEcceEEEeEEEEE
Q 030100            4 ERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLV   46 (183)
Q Consensus         4 ~~~f~~~~~~~G~~~~i~~~~l~~~~~gyl~~d~~~~~~~v~i   46 (183)
                      .|+|......|||.+||++++|+||++|||+||+++|+|+|.|
T Consensus       105 ~~~F~~~~~~wG~~~Fi~~~~L~~~~~~yl~dD~l~Ie~~V~V  147 (155)
T 2foj_A          105 SHLFFHKENDWGFSNFMAWSEVTDPEKGFIDDDKVTFEVFVQA  147 (155)
T ss_dssp             EEEEETTBCEEEEEEEEEHHHHTCTTTSSCBTTBEEEEEEEEE
T ss_pred             EEEeCCCCCCEeECCeEEHHHhcCcCCCceECCEEEEEEEEEE
Confidence            5789888889999999999999999999999999999999994

>3ivv_A Speckle-type POZ protein; protein binding, nucleus, UBL conjugation pathway, ligase; 1.25A {Homo sapiens} SCOP: b.8.1.1 PDB: 3ivq_A 3ivb_A 3hsv_A 3hqh_A 3hqm_A 3hql_A 2cr2_A

Probab=98.28  E-value=1.3e-07  Score=68.95  Aligned_cols=36  Identities=36%  Similarity=0.578  Sum_probs=33.4

Q ss_pred             ccccCccceeccccccCCCCCeEEcceEEEeEEEEE
Q 030100           11 KLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLV   46 (183)
Q Consensus        11 ~~~~G~~~~i~~~~l~~~~~gyl~~d~~~~~~~v~i   46 (183)
                      ...|||.+||++++|+++++|||+||+++|+|+|.|
T Consensus       107 ~~~wG~~~Fi~~~~L~~~~~~yl~dD~l~I~~~V~V  142 (145)
T 3ivv_A          107 GKDWGFKKFIRRDFLLDEANGLLPDDKLTLFCEVSV  142 (145)
T ss_dssp             TCEEEEEEEEEHHHHHCGGGCSSGGGCEEEEEEEEE
T ss_pred             CCCcCHHHeEEhhhhccccCCcEeCCEEEEEEEEEE
Confidence            467999999999999999999999999999999974

>3hqi_A Speckle-type POZ protein; SPOP, ubiquitin, puckered, nucleus, UBL conjugation pathway, protein binding, ligase; 2.62A {Homo sapiens} PDB: 3hu6_A

Probab=98.01  E-value=1.7e-06  Score=70.48  Aligned_cols=44  Identities=34%  Similarity=0.502  Sum_probs=39.0

Q ss_pred             cceeccCCccccCccceeccccccCCCCCeEEcceEEEeEEEE-Ee
Q 030100            3 KERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVL-VK   47 (183)
Q Consensus         3 ~~~~f~~~~~~~G~~~~i~~~~l~~~~~gyl~~d~~~~~~~v~-i~   47 (183)
                      ..++|+.. ..|||.+||++++|+++++|||+||+++++++|. ++
T Consensus        96 ~~~~F~~~-~~wG~~~Fi~~~~L~~~~~~yl~dD~l~i~~~v~v~~  140 (312)
T 3hqi_A           96 RAYRFVQG-KDWGFKKFIRRGFLLDEANGLLPDDKLTLFCEVSVVQ  140 (312)
T ss_dssp             SCEEECTT-CEEEEEEEEEHHHHTCGGGCCCGGGCEEEEEEEEEEE
T ss_pred             CceeCCCC-CCcCHHHhccHHHhhccccCeecCCEEEEEEEEEEEe
Confidence            46788854 5899999999999999999999999999999999 54

>2f1z_A Ubiquitin carboxyl-terminal hydrolase 7; hausp, USP7, UBP, deubiquitinating enzyme, substrate recognition; 3.20A {Homo sapiens}

Probab=97.96  E-value=1.7e-06  Score=75.44  Aligned_cols=44  Identities=25%  Similarity=0.527  Sum_probs=40.7

Q ss_pred             cceeccCCccccCccceeccccccCCCCCeEEcceEEEeEEEEE
Q 030100            3 KERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLV   46 (183)
Q Consensus         3 ~~~~f~~~~~~~G~~~~i~~~~l~~~~~gyl~~d~~~~~~~v~i   46 (183)
                      ..|+|......|||.+||++++|.|+++|||+||++.|+|+|.+
T Consensus       116 ~~~~F~~~~~~wG~~~Fi~~~~L~~~~~g~L~nD~l~i~~~V~v  159 (522)
T 2f1z_A          116 ISHLFFHKENDWGFSNFMAWSEVTDPEKGFIDDDKVTFEVFVQA  159 (522)
T ss_dssp             CCEEECGGGCEEEESSSSBHHHHSCGGGSSCBTTBEEEEEEEEE
T ss_pred             ceeEecCCCCCcchhheeEhhHhcCcccCcccCCcEEEEEEeec
Confidence            45789888889999999999999999999999999999999994

>4gwm_A Meprin A subunit beta; mulidomain structure, hydrolase; HET: NAG BMA FUC MAN; 1.85A {Homo sapiens} PDB: 4gwn_A*

Probab=87.36  E-value=0.2  Score=44.29  Aligned_cols=36  Identities=22%  Similarity=0.334  Sum_probs=31.6

Q ss_pred             cccCccceeccccccCCCCCeEEcceEEEeEEEE-Eecc
Q 030100           12 LEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVL-VKER   49 (183)
Q Consensus        12 ~~~G~~~~i~~~~l~~~~~gyl~~d~~~~~~~v~-i~~~   49 (183)
                      ..|||+.||+++.|.  +..||.||++.|-|.|. |...
T Consensus       533 ~~~G~~~fish~~l~--~r~fiK~d~~~i~~~~eD~~~l  569 (592)
T 4gwm_A          533 GGYGTSAFITHERLK--SRDFIKGDDVYILLTVEDISHL  569 (592)
T ss_dssp             EEEEEEEEEEHHHHT--STTSSBTTBEEEEEEEEECGGG
T ss_pred             CCcCccccccHHHHh--hcCcccCCeEEEEEEEEeCccc
Confidence            458999999999997  77899999999999998 6554

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	183
d1czya1	152	b.8.1.1 (A:350-501) TNF receptor associated factor	5e-14
d1czya1	152	b.8.1.1 (A:350-501) TNF receptor associated factor	0.001
d2cr2a1	146	b.8.1.1 (A:8-153) Speckle-type poz protein SPOP {H	8e-14
d2cr2a1	146	b.8.1.1 (A:8-153) Speckle-type poz protein SPOP {H	1e-05
d1l0aa1	155	b.8.1.1 (A:350-504) TNF receptor associated factor	4e-12
d1l0aa1	155	b.8.1.1 (A:350-504) TNF receptor associated factor	0.003
d1lb6a_	155	b.8.1.1 (A:) TNF receptor associated factor 6 (TRA	2e-10
d1lb6a_	155	b.8.1.1 (A:) TNF receptor associated factor 6 (TRA	0.002

>d1czya1 b.8.1.1 (A:350-501) TNF receptor associated factor 2 (TRAF2) {Human (Homo sapiens) [TaxId: 9606]} Length = 152

class: All beta proteins
fold: TRAF domain-like
superfamily: TRAF domain-like
family: MATH domain
domain: TNF receptor associated factor 2 (TRAF2)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 64.0 bits (155), Expect = 5e-14
 Identities = 28/147 (19%), Positives = 54/147 (36%), Gaps = 38/147 (25%)

Query: 67  NYKHVWKIENFSKK---------------------------IKLYPKGQGVGRGSHISVY 99
           +   +WKI +F +K                           +++Y  G G GRG+H+S++
Sbjct: 2   DGVFIWKISDFPRKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGTGRGTHLSLF 61

Query: 100 LALAD-LSTITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSS---------EDWGWS 149
             +    +            TL + DQ   +H        +++SS            G  
Sbjct: 62  FVVMKGPNDALLRWPFNQKVTLMLLDQNNREHVIDAFRPDVTSSSFQRPVNDMNIASGCP 121

Query: 150 TFVELSYFNKAENGFLMNDVCIVEAEV 176
            F  +S   +A+N ++ +D   ++A V
Sbjct: 122 LFCPVSKM-EAKNSYVRDDAIFIKAIV 147

>d1czya1 b.8.1.1 (A:350-501) TNF receptor associated factor 2 (TRAF2) {Human (Homo sapiens) [TaxId: 9606]} Length = 152

class: All beta proteins
fold: TRAF domain-like
superfamily: TRAF domain-like
family: MATH domain
domain: TNF receptor associated factor 2 (TRAF2)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.5 bits (81), Expect = 0.001
 Identities = 10/40 (25%), Positives = 17/40 (42%), Gaps = 1/40 (2%)

Query: 5   RRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEV 44
           R  + + +  G   F P+ +  +A N Y+  D     A V
Sbjct: 109 RPVNDMNIASGCPLFCPVSKM-EAKNSYVRDDAIFIKAIV 147

>d2cr2a1 b.8.1.1 (A:8-153) Speckle-type poz protein SPOP {Human (Homo sapiens) [TaxId: 9606]} Length = 146

class: All beta proteins
fold: TRAF domain-like
superfamily: TRAF domain-like
family: MATH domain
domain: Speckle-type poz protein SPOP
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 63.3 bits (153), Expect = 8e-14
 Identities = 25/135 (18%), Positives = 46/135 (34%), Gaps = 29/135 (21%)

Query: 67  NYKHVWKIENFSK------------------------KIKLYPKGQGVGRGSHISVYLAL 102
            + ++W I NFS                          +++ PKG       ++S+YL L
Sbjct: 4   KFSYMWTINNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGLDEESKDYLSLYLLL 63

Query: 103 ADLSTITRDSKIYVHFTLRIRDQVLSKHNE-KKASTWLSTSSEDWGWSTFVELSYFNKAE 161
                    S++   F   I +    +    +    +     +DWG+  F+   +     
Sbjct: 64  VS----CPKSEVRAKFKFSILNAKGEETKAMESQRAYRFVQGKDWGFKKFIRRDFLLDEA 119

Query: 162 NGFLMNDVCIVEAEV 176
           NG L +D   +  EV
Sbjct: 120 NGLLPDDKLTLFCEV 134

>d2cr2a1 b.8.1.1 (A:8-153) Speckle-type poz protein SPOP {Human (Homo sapiens) [TaxId: 9606]} Length = 146

class: All beta proteins
fold: TRAF domain-like
superfamily: TRAF domain-like
family: MATH domain
domain: Speckle-type poz protein SPOP
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.3 bits (96), Expect = 1e-05
 Identities = 14/44 (31%), Positives = 19/44 (43%)

Query: 5   RRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLVKE 48
               V   +WGF +FI  +   D +NG L  D      EV V +
Sbjct: 95  AYRFVQGKDWGFKKFIRRDFLLDEANGLLPDDKLTLFCEVSVVQ 138

>d1l0aa1 b.8.1.1 (A:350-504) TNF receptor associated factor 3 (TRAF3) {Human (Homo sapiens) [TaxId: 9606]} Length = 155

class: All beta proteins
fold: TRAF domain-like
superfamily: TRAF domain-like
family: MATH domain
domain: TNF receptor associated factor 3 (TRAF3)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 58.7 bits (141), Expect = 4e-12
 Identities = 23/146 (15%), Positives = 46/146 (31%), Gaps = 40/146 (27%)

Query: 69  KHVWKIENFSKK---------------------------IKLYPKGQGVGRGSHISVYLA 101
             +WKI ++ ++                            ++Y  G G+G+G+H+S++  
Sbjct: 4   VLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDGMGKGTHLSLFFV 63

Query: 102 LAD-LSTITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSS----------EDWGWST 150
           +                 TL + DQ  S+ +   A      SS             G   
Sbjct: 64  IMRGEYDALLPWPFKQKVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMNIASGCPV 123

Query: 151 FVELSYFNKAENGFLMNDVCIVEAEV 176
           FV  +        ++ +D   ++  V
Sbjct: 124 FVAQTVLEN--GTYIKDDTIFIKVIV 147

>d1l0aa1 b.8.1.1 (A:350-504) TNF receptor associated factor 3 (TRAF3) {Human (Homo sapiens) [TaxId: 9606]} Length = 155

class: All beta proteins
fold: TRAF domain-like
superfamily: TRAF domain-like
family: MATH domain
domain: TNF receptor associated factor 3 (TRAF3)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.4 bits (78), Expect = 0.003
 Identities = 6/40 (15%), Positives = 12/40 (30%), Gaps = 2/40 (5%)

Query: 5   RRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEV 44
           +    + +  G   F+        +  Y+  DT      V
Sbjct: 110 KPTGEMNIASGCPVFVAQTVLE--NGTYIKDDTIFIKVIV 147

>d1lb6a_ b.8.1.1 (A:) TNF receptor associated factor 6 (TRAF6) {Human (Homo sapiens) [TaxId: 9606]} Length = 155

class: All beta proteins
fold: TRAF domain-like
superfamily: TRAF domain-like
family: MATH domain
domain: TNF receptor associated factor 6 (TRAF6)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 54.5 bits (130), Expect = 2e-10
 Identities = 23/152 (15%), Positives = 46/152 (30%), Gaps = 44/152 (28%)

Query: 67  NYKHVWKIENFSKK---------------------------IKLYPKGQGVGR-GSHISV 98
           N  ++WKI NF                              ++L+ +     R  ++IS+
Sbjct: 4   NGIYIWKIGNFGMHLKCQEEEKPVVIHSPGFYTGKPGYKLCMRLHLQLPTAQRCANYISL 63

Query: 99  YLALADLST-ITRDSKIYVHFTLRIRDQVLSKHNEKKAST-------------WLSTSSE 144
           ++                    L I DQ  +   +                   +  + +
Sbjct: 64  FVHTMQGEYDSHLPWPFQGTIRLTILDQSEAPVRQNHEEIMDAKPELLAFQRPTIPRNPK 123

Query: 145 DWGWSTFVELSYFNKAENGFLMNDVCIVEAEV 176
            +G+ TF+ L    +    F+ +D  +V  EV
Sbjct: 124 GFGYVTFMHLEALRQ--RTFIKDDTLLVRCEV 153

>d1lb6a_ b.8.1.1 (A:) TNF receptor associated factor 6 (TRAF6) {Human (Homo sapiens) [TaxId: 9606]} Length = 155

class: All beta proteins
fold: TRAF domain-like
superfamily: TRAF domain-like
family: MATH domain
domain: TNF receptor associated factor 6 (TRAF6)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.8 bits (79), Expect = 0.002
 Identities = 8/31 (25%), Positives = 14/31 (45%), Gaps = 2/31 (6%)

Query: 14  WGFDQFIPLEEFNDASNGYLVGDTCVFGAEV 44
           +G+  F+ LE        ++  DT +   EV
Sbjct: 125 FGYVTFMHLEALR--QRTFIKDDTLLVRCEV 153

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	183
d1czya1	152	TNF receptor associated factor 2 (TRAF2) {Human (H	99.92
d2cr2a1	146	Speckle-type poz protein SPOP {Human (Homo sapiens	99.92
d1l0aa1	155	TNF receptor associated factor 3 (TRAF3) {Human (H	99.9
d1lb6a_	155	TNF receptor associated factor 6 (TRAF6) {Human (H	99.89
d2cr2a1	146	Speckle-type poz protein SPOP {Human (Homo sapiens	98.41

>d1czya1 b.8.1.1 (A:350-501) TNF receptor associated factor 2 (TRAF2) {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: TRAF domain-like
superfamily: TRAF domain-like
family: MATH domain
domain: TNF receptor associated factor 2 (TRAF2)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.92  E-value=2.8e-26  Score=169.08  Aligned_cols=113  Identities=23%  Similarity=0.377  Sum_probs=91.3

Q ss_pred             CcEEEEEEcCccc---------------------------eeeEeeCCCCCCCCCeEEEEEEecCCCCC-CCCCeEEEEE
Q 030100           67 NYKHVWKIENFSK---------------------------KIKLYPKGQGVGRGSHISVYLALADLSTI-TRDSKIYVHF  118 (183)
Q Consensus        67 ~~~~~W~I~nfS~---------------------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~~-~~~w~i~~~f  118 (183)
                      +|+|+|+|+|||.                           +|++||+|+..+.++|+||||++.+++.. +..|++.++|
T Consensus         2 ~g~f~W~I~nFs~l~~~~~~~~~~~~~Sp~F~~g~~Gy~w~l~~yP~G~~~~~~~~lSlyL~l~~~~~d~~~~~~~~~~~   81 (152)
T d1czya1           2 DGVFIWKISDFPRKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGTGRGTHLSLFFVVMKGPNDALLRWPFNQKV   81 (152)
T ss_dssp             SSEEEEEECSHHHHHHHHHTTSCCCEECCCEESSTTSCEEEEEEETTCCGGGTTTEEEEEEEEECCTTGGGSCSSCCCCE
T ss_pred             CCEEEEEECCcHHHHHhhhcCCCceEECcCEEcCCCCeEEEEEEEeCCCCCCCCCEEEEEEEEccCCcCcccccceeeEE
Confidence            6889999999975                           89999999987778999999999887653 3589999999


Q ss_pred             EEEEEcCCCCcccccc-----ccee----eccCCCCccccceeeccccccCCCCeeeCCEEEEEEEEEEEe
Q 030100          119 TLRIRDQVLSKHNEKK-----ASTW----LSTSSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLRIS  180 (183)
Q Consensus       119 ~l~ll~q~~~~~~~~~-----~~~~----F~~~~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~i~~  180 (183)
                      +|+|+||.++++....     ....    +.....+|||++||++++|+ +++|||+||+|+|+|+|.|..
T Consensus        82 ~~~l~d~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~G~~~fi~~~~L~-~~~gfl~dD~l~I~~~V~v~~  151 (152)
T d1czya1          82 TLMLLDQNNREHVIDAFRPDVTSSSFQRPVNDMNIASGCPLFCPVSKME-AKNSYVRDDAIFIKAIVDLTG  151 (152)
T ss_dssp             EEEECCTTSSCCEEEEECCCTTSGGGSCCSSSBCCCEEEEEEEETCCCC-CSTTTSCSSCEEEEEEECCTT
T ss_pred             EEEEEcCCCCccceeeeccccccccccCCCcccccccchhhEEEHHHhc-ccCCcEeCCEEEEEEEEEecc
Confidence            9999999876543211     1122    33345789999999999996 458999999999999998753

>d2cr2a1 b.8.1.1 (A:8-153) Speckle-type poz protein SPOP {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: TRAF domain-like
superfamily: TRAF domain-like
family: MATH domain
domain: Speckle-type poz protein SPOP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.92  E-value=1.5e-25  Score=164.05  Aligned_cols=111  Identities=23%  Similarity=0.443  Sum_probs=92.9

Q ss_pred             cEEEEEEcCccc------------------------eeeEeeCCCCCCCCCeEEEEEEecCCCCCCCCCeEEEEEEEEEE
Q 030100           68 YKHVWKIENFSK------------------------KIKLYPKGQGVGRGSHISVYLALADLSTITRDSKIYVHFTLRIR  123 (183)
Q Consensus        68 ~~~~W~I~nfS~------------------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~~~w~i~~~f~l~ll  123 (183)
                      .+|+|+|+|||.                        +|++||+|...+.++||||||++.+.    .+|++.++|+|+|+
T Consensus         5 ~~~~W~I~nfs~~~~~~~~~~~Sp~F~~~~~~~~~W~l~lyp~G~~~~~~~~lSv~L~~~~~----~~~~v~~~~~~~l~   80 (146)
T d2cr2a1           5 FSYMWTINNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGLDEESKDYLSLYLLLVSC----PKSEVRAKFKFSIL   80 (146)
T ss_dssp             EEEEEEEETGGGCCCCSSCCEECCCBCSSSCCSCCBEEEECTTCSSSSSSSBCCEEEECCCC----SSSEEEEECEEEEE
T ss_pred             EEEEEEECCchHHhhcCCCEEECCCEEeCCcCCeEEEEEEEECCCCCCCCCEEEEEEEeccC----CCceEEEEEEEEEE
Confidence            568999999986                        79999999988778999999998764    35999999999999


Q ss_pred             cCCCCccc-ccccceeeccCCCCccccceeeccccccCCCCeeeCCEEEEEEEEEEEeec
Q 030100          124 DQVLSKHN-EKKASTWLSTSSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLRISKA  182 (183)
Q Consensus       124 ~q~~~~~~-~~~~~~~F~~~~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~i~~~t  182 (183)
                      ||++.... .....+.+..+..+|||++||++++|.++++|||+||+|+|+|+|+|++-+
T Consensus        81 n~~~~~~~~~~~~~~~~~~~~~~~G~~~fi~~~~l~~~~~g~l~~d~l~I~~~I~v~~e~  140 (146)
T d2cr2a1          81 NAKGEETKAMESQRAYRFVQGKDWGFKKFIRRDFLLDEANGLLPDDKLTLFCEVSVVQDS  140 (146)
T ss_dssp             CTTSCEEEEEECSCCEEEETTCEEEESCCSBHHHHSCTTTTSCTTSEEEEEEEEEEECCS
T ss_pred             cCCCCcccceEecceEeCCCCCeeeccEEEEHHHhcCcccCceeCCEEEEEEEEEEEeCC
Confidence            99876532 222333444467899999999999999998999999999999999998643

>d1l0aa1 b.8.1.1 (A:350-504) TNF receptor associated factor 3 (TRAF3) {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: TRAF domain-like
superfamily: TRAF domain-like
family: MATH domain
domain: TNF receptor associated factor 3 (TRAF3)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.90  E-value=8.2e-25  Score=161.43  Aligned_cols=113  Identities=19%  Similarity=0.307  Sum_probs=90.6

Q ss_pred             CCcEEEEEEcCccc---------------------------eeeEeeCCCCCCCCCeEEEEEEecCCCCC-CCCCeEEEE
Q 030100           66 SNYKHVWKIENFSK---------------------------KIKLYPKGQGVGRGSHISVYLALADLSTI-TRDSKIYVH  117 (183)
Q Consensus        66 ~~~~~~W~I~nfS~---------------------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~~-~~~w~i~~~  117 (183)
                      .+|+|+|+|+|||.                           +|++||+|+..+.++|+||||++.+++.. ...|++.++
T Consensus         1 ~~g~f~W~I~nfs~~~~~~~~~~~~~~~S~~F~~~~~Gy~w~l~~yp~G~~~~~~~~lSlyL~l~~~~~d~~~~~~~~~~   80 (155)
T d1l0aa1           1 YNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDGMGKGTHLSLFFVIMRGEYDALLPWPFKQK   80 (155)
T ss_dssp             SSSEEEEEEECHHHHHHHHHTTSCSEEECCCEESSTTSCEEEEEEETTCCGGGTTTEEEEEEEEECCTTTTTSCSSCCCC
T ss_pred             CCCEEEEEECCcHHHHHhhhcCCCcEEECcCEEeCCCCcEEEEEEEeCCCCCCCCCEEEEEEEEccCCcCcccCCcEEEE
Confidence            36899999999985                           89999999987778999999999887653 367999999


Q ss_pred             EEEEEEcCCCCccc-ccc-----c----ceeeccCCCCccccceeeccccccCCCCeeeCCEEEEEEEEEEEe
Q 030100          118 FTLRIRDQVLSKHN-EKK-----A----STWLSTSSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLRIS  180 (183)
Q Consensus       118 f~l~ll~q~~~~~~-~~~-----~----~~~F~~~~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~i~~  180 (183)
                      |+|+|+||.++.+. ...     .    .+.+.....+|||++||++++|++  +|||+||+|+|+|+|.+..
T Consensus        81 ~~~~l~~q~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~G~~~fi~~~~L~~--~gfl~dD~l~I~~~V~~~~  151 (155)
T d1l0aa1          81 VTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMNIASGCPVFVAQTVLEN--GTYIKDDTIFIKVIVDTSD  151 (155)
T ss_dssp             EEEEECCCSSSCCCEEEEECCCTTSTTSSCCSSSBCCCEEEEEEEEHHHHHT--TTTCBTTEEEEEEEECCSS
T ss_pred             EEEEEecCCCCccceeEEEeeccccccccccccccccCcChhheeEHHHhhh--CCCEECCEEEEEEEEEeCC
Confidence            99999999775421 111     1    122333457899999999999974  7999999999999997643

>d1lb6a_ b.8.1.1 (A:) TNF receptor associated factor 6 (TRAF6) {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: TRAF domain-like
superfamily: TRAF domain-like
family: MATH domain
domain: TNF receptor associated factor 6 (TRAF6)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.89  E-value=2.5e-23  Score=153.11  Aligned_cols=111  Identities=21%  Similarity=0.274  Sum_probs=88.5

Q ss_pred             CCCcEEEEEEcCccc---------------------------eeeEeeCCCCCCC-CCeEEEEEEecCCCCC-CCCCeEE
Q 030100           65 ASNYKHVWKIENFSK---------------------------KIKLYPKGQGVGR-GSHISVYLALADLSTI-TRDSKIY  115 (183)
Q Consensus        65 ~~~~~~~W~I~nfS~---------------------------~l~~yP~G~~~~~-~~~lSlyL~l~~~~~~-~~~w~i~  115 (183)
                      ..+|+|+|+|+|||.                           +|.+||+|...+. ++|+|+||++.+++.. ..+|++.
T Consensus         2 ~~~G~f~W~I~nfs~~~~~~~~~~~~~i~Sp~F~~g~~Gy~wrl~~yp~g~~~~~~~~~lsvyL~l~~~~~d~~~~~~~~   81 (155)
T d1lb6a_           2 QCNGIYIWKIGNFGMHLKCQEEEKPVVIHSPGFYTGKPGYKLCMRLHLQLPTAQRCANYISLFVHTMQGEYDSHLPWPFQ   81 (155)
T ss_dssp             CCCEEEEEEECCHHHHHHHHHTTCCEEEECCCEESSSSCCEEEEEEEECCTTCTTTTTEEEEEEEEECCTTGGGSCSSCC
T ss_pred             ccccEEEEEECChHHHHHhhhcCCCcEEECcCEEeCCCCcEEEEEEEeCCCCCCCCCCEEEEEEEEecCcccccCCCcEE
Confidence            467999999999976                           8999999987654 6899999999887653 4689999


Q ss_pred             EEEEEEEEcCCCCcccccc-------------cceeeccCCCCccccceeeccccccCCCCeeeCCEEEEEEEEE
Q 030100          116 VHFTLRIRDQVLSKHNEKK-------------ASTWLSTSSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVL  177 (183)
Q Consensus       116 ~~f~l~ll~q~~~~~~~~~-------------~~~~F~~~~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~  177 (183)
                      ++++|+|++|.+.......             ..+.+.....+|||++||++++|++  +|||+||+|+|+|+|+
T Consensus        82 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~fi~~~~L~~--~gyl~dD~l~I~~~V~  154 (155)
T d1lb6a_          82 GTIRLTILDQSEAPVRQNHEEIMDAKPELLAFQRPTIPRNPKGFGYVTFMHLEALRQ--RTFIKDDTLLVRCEVS  154 (155)
T ss_dssp             SEEEEEECCCSCTTSCCCEEEEEECCTTSGGGSCCSSSBCSEEEEEEEEEEGGGGGT--SCCCBTTBEEEEEEEE
T ss_pred             EEEEEEEECCCCCccceeeEEeeecCCccccccCCcccCCcCCcChHHeeEHHHhcc--CCCEECCEEEEEEEEE
Confidence            9999999999775421100             0122333446899999999999974  7999999999999986

>d2cr2a1 b.8.1.1 (A:8-153) Speckle-type poz protein SPOP {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: TRAF domain-like
superfamily: TRAF domain-like
family: MATH domain
domain: Speckle-type poz protein SPOP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.41  E-value=4.3e-08  Score=69.82  Aligned_cols=46  Identities=30%  Similarity=0.457  Sum_probs=40.0

Q ss_pred             ceeccCCccccCccceeccccccCCCCCeEEcceEEEeEEEE-Eecc
Q 030100            4 ERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVL-VKER   49 (183)
Q Consensus         4 ~~~f~~~~~~~G~~~~i~~~~l~~~~~gyl~~d~~~~~~~v~-i~~~   49 (183)
                      .++|......|||++||++++|.++++|||+||+++|+++|. ++++
T Consensus        94 ~~~~~~~~~~~G~~~fi~~~~l~~~~~g~l~~d~l~I~~~I~v~~e~  140 (146)
T d2cr2a1          94 RAYRFVQGKDWGFKKFIRRDFLLDEANGLLPDDKLTLFCEVSVVQDS  140 (146)
T ss_dssp             CCEEEETTCEEEESCCSBHHHHSCTTTTSCTTSEEEEEEEEEEECCS
T ss_pred             ceEeCCCCCeeeccEEEEHHHhcCcccCceeCCEEEEEEEEEEEeCC
Confidence            345666778999999999999999999999999999999999 5554