Citrus Sinensis ID: 024960

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260
Protein Sequence
MGDNAILREKRSLPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTDSEEILSLVSDPADGNYRFNIPAFGSVGDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKIPNQYSRNRAGAEQTGP
Secondary Structure (PSIPRED)
cccccccEEcccccccEEEEEEccccccccccccEEEEccEEEcccEEEEEEEcccccccccccEEEEEEEEcccccccccccEEEEEEEEEEEEcccccEEEEEEccccEEEEcccccccccccccccccccccccccEEccEEEEEEEEEEEcccccccEEEcccccccccccccccccccccccccccccEEEccEEEEEEEEccccccccccEEEEEEEEcccccccccccEEEEEEEEEEccccccccEEEEccc
Secondary Structure Prediction (SSPRO)
cccccEEEcccccccccEEEEEEccHHHHHccccEEEccEEEEcccEEEEEEEEccccccccccEEEEEEEEcccccccccccEEEEEEEEEEEEcccccEEEEEEcccEEEEEccccccccccHccEHHHcccccccEEEccEEEEEEEEEEEEcccccEEEEEccccccccEEEEEEccHHcccccccccEEEEcccEEEEEEEEcccccccccEEEEEEEEccccccccccEEEEEEEEEEEEccccccEEEEcccc
Coil and Loop (DISEMBL)
mgdnailrekrslppadyslkIESFKLLSKSTVesfesgvfksggynwklvfypngkkndggkdhLSLYLkiddsnphpdgtwnvNVYYKLFVYDQVSNQYLvvqdakapmrrfdrrktdwgfgkfldlatfnepsngylvddtcafgaevyvvkptdseeilslvsdpadgnyrfnipafgsvgdtvqrsseftvgernwqlvvypagsgadrgnFLTVSLKLAdyqtvsrkkpvyaefkfkipnqysrnragaeqtgp
Flexible Loop (DISEMBL)
mgdnailrekrslppadysLKIESFKLLSKSTVESFesgvfksggynWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTDSEEILSLVSDPADGNYRFNIPAFGSVGDTVQRSSEFTVGERNWQLVVYpagsgadrgNFLTVSLKLAdyqtvsrkkpvyaefkfkipnqysrnragaeqtgp
Low Complexity Region (SEG)
MGDNAILREKRSLPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTDSEEILSLVSDPADGNYRFNIPAFGSVGDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKIPNQYSRNRAGAEQTGP
Disordered region (IsUnstruct)
*******************LKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTDSEEILSLVSDPADGNYRFNIPAFGSVGDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKIP***************
Disordered Region (DISOPRED)
****************DYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTDSEEILSLVSDPADGNYRFNIPAFGSVGDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKIPN**************
Disordered Region (DISEMBL)
MGDNAILREKRSLPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTDSEEILSLVSDPADGNYRFNIPAFGSVGDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKIPNQYSR**********
Disordered Region (DISPRO)
****AILREKRSLPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTDSEEILSLVSDPADGNYRFNIPAFGSVGDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKIPNQYSRNRAGAE****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGDNAILREKRSLPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTDSEEILSLVSDPADGNYRFNIPAFGSVGDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKIPNQYSRNRAGAEQTGP
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	260	2.2.26 [Sep-21-2011]
Q84WU2	1115	Ubiquitin carboxyl-termin	no	no	0.526	0.122	0.360	7e-17
Q9FPT1	1116	Ubiquitin carboxyl-termin	no	no	0.515	0.120	0.344	2e-16
Q8T126	1304	Probable inactive serine/	no	no	0.45	0.089	0.281	1e-06
Q8RY18	1055	MATH domain-containing pr	no	no	0.461	0.113	0.288	2e-05
O22286	408	BTB/POZ and MATH domain-c	no	no	0.403	0.257	0.25	0.0005

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

 Score = 87.8 bits (216), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 53/147 (36%), Positives = 81/147 (55%), Gaps = 10/147 (6%)

Query: 14  PPADY-SLKIE-SFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLK 71
           PP D  SLK   +  + ++       S VF  GGY W+++ +P G       DHLS+YL 
Sbjct: 47  PPEDPPSLKFTWTIPMFTRLNTRKHYSDVFVVGGYKWRILIFPKG----NNVDHLSMYLD 102

Query: 72  IDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLAT 131
           + D+   P G W+    + L V +QV+N+Y + ++ +    +F+ R++DWGF  F+ L+ 
Sbjct: 103 VADAANLPYG-WSRYSQFSLAVVNQVNNRYSIRKETQ---HQFNARESDWGFTSFMPLSE 158

Query: 132 FNEPSNGYLVDDTCAFGAEVYVVKPTD 158
             EP+ GYLV+DT    AEV V K  D
Sbjct: 159 LYEPTRGYLVNDTVLIEAEVAVRKVLD 185

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 = 86.3 bits (212), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 50/145 (34%), Positives = 77/145 (53%), Gaps = 11/145 (7%)

Query: 14  PPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKID 73
           P   ++  I +F   S+       S VF  GGY W+++ +P G       DHLS+YL + 
Sbjct: 53  PTLKFTWTIPNF---SRQNTRKHYSDVFVVGGYKWRILIFPKG----NNVDHLSMYLDVS 105

Query: 74  DSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFN 133
           D+   P G W+    + L V +Q+  +Y V ++ +    +F+ R++DWGF  F+ L+   
Sbjct: 106 DAASLPYG-WSRYAQFSLAVVNQIHTRYTVRKETQ---HQFNARESDWGFTSFMPLSELY 161

Query: 134 EPSNGYLVDDTCAFGAEVYVVKPTD 158
           +PS GYLV+DT    AEV V K  D
Sbjct: 162 DPSRGYLVNDTVLVEAEVAVRKVLD 186

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|Q8T126|FNKC_DICDI Probable inactive serine/threonine-protein kinase fnkC OS=Dictyostelium discoideum GN=fnkC PE=3 SV=1

 Score = 53.9 bits (128), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 38/135 (28%), Positives = 69/135 (51%), Gaps = 18/135 (13%)

Query: 24   SFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTW 83
            S  ++SK + E F S +F S G  W +  YP G+ +    +++S++L+  D     +G  
Sbjct: 1178 SVPMMSKKS-EPFISPIFMSCGRKWIIKIYPMGQPS---SNYMSVFLEYRD-----EGEE 1228

Query: 84   NVNVYYKLF--VYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEPSNGYLV 141
            NV+   +L   +Y + S +Y V         RF+ +   +G+ KF+ ++T  +P  G+LV
Sbjct: 1229 NVHFSLELISQLYPEQSIKYWV-------QYRFNSKSNSFGYPKFIGVSTLMDPDMGFLV 1281

Query: 142  DDTCAFGAEVYVVKP 156
            +DT      +  +KP
Sbjct: 1282 NDTIILNVSILQLKP 1296

Dictyostelium discoideum (taxid: 44689)

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

 Score = 49.7 bits (117), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 39/135 (28%), Positives = 63/135 (46%), Gaps = 15/135 (11%)

Query: 22  IESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDG 81
           IE F  ++K         VF+ GGY W ++ YP G       +HLSL+L +        G
Sbjct: 75  IEKFSDINK---RELRGDVFEVGGYKWYILIYPQGCD---VCNHLSLFLCVAHHEKLLPG 128

Query: 82  TWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEPSNGYLV 141
            W+   ++  F    VSN+          + RF +++ DWG+ KF++L    E   G++ 
Sbjct: 129 -WS---HFAQFTI-AVSNKDPKKSKHSDTLHRFWKKEHDWGWKKFIELPKLKE---GFID 180

Query: 142 DDTC-AFGAEVYVVK 155
           D  C    A+V V++
Sbjct: 181 DSGCLTIKAQVQVIR 195

Arabidopsis thaliana (taxid: 3702)

>sp|O22286|BPM3_ARATH BTB/POZ and MATH domain-containing protein 3 OS=Arabidopsis thaliana GN=BPM3 PE=1 SV=1

 Score = 45.1 bits (105), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 33/132 (25%), Positives = 57/132 (43%), Gaps = 27/132 (20%)

Query: 36  FESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKI-DDSNPHPDGTWNVNVYYKLFVY 94
            +S +F  GGY+W + FYP+GK  +    ++SL++ +  DSN       ++   ++L + 
Sbjct: 46  IQSDIFSVGGYDWAIYFYPDGKNPEDQSSYISLFIALASDSN-------DIRALFELTLM 98

Query: 95  DQVSNQYLVVQDAKAPMRRFDR-----------RKTDWGFGKFLDLATFNEPSNGYLVDD 143
           DQ       V         FDR           + + WG+ +F   +     ++ YL DD
Sbjct: 99  DQSGKGKHKVHS------HFDRALEGGPYTLKYKGSMWGYKRFFKRSALE--TSDYLKDD 150

Query: 144 TCAFGAEVYVVK 155
                  V VV+
Sbjct: 151 CLVINCTVGVVR 162

May act as a substrate-specific adapter of an E3 ubiquitin-protein ligase complex (CUL3-RBX1-BTB) which mediates the ubiquitination and subsequent proteasomal degradation of target proteins.

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	260
359475437	314	PREDICTED: uncharacterized protein LOC10	0.930	0.770	0.436	6e-57
225429033	331	PREDICTED: uncharacterized protein LOC10	0.930	0.731	0.432	1e-56
296083026	672	unnamed protein product [Vitis vinifera]	0.930	0.360	0.432	2e-56
224074494	321	predicted protein [Populus trichocarpa]	0.926	0.750	0.425	1e-55
356503299	322	PREDICTED: uncharacterized protein LOC10	0.930	0.751	0.440	9e-55
224139110	324	predicted protein [Populus trichocarpa]	0.919	0.737	0.429	6e-54
225429031	364	PREDICTED: uncharacterized protein LOC10	0.930	0.664	0.423	7e-54
296083028	321	unnamed protein product [Vitis vinifera]	0.930	0.753	0.419	3e-53
225429035	330	PREDICTED: MATH domain-containing protei	0.926	0.730	0.419	3e-52
296083023	389	unnamed protein product [Vitis vinifera]	0.930	0.622	0.411	1e-51

>gi|359475437|ref|XP_003631686.1| PREDICTED: uncharacterized protein LOC100259955 isoform 2 [Vitis vinifera]

 Score =  226 bits (577), Expect = 6e-57,   Method: Compositional matrix adjust.
 Identities = 106/243 (43%), Positives = 154/243 (63%), Gaps = 1/243 (0%)

Query: 5   AILREKRSLPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKD 64
           AI R  RS+ PA Y  ++ES  +L  + +E +ESG FK GGY W+L  YPNG K  GG+D
Sbjct: 8   AISRTLRSIKPAHYLFRVESVSVLLNTDIEKYESGSFKVGGYRWRLCLYPNGNKKSGGED 67

Query: 65  HLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFG 124
           H+SLYL+I D+   P G W V V +KLFV++ +  +YL VQDA   +R F+  K+  GF 
Sbjct: 68  HISLYLEISDAQKLPVG-WEVTVNFKLFVFNHIHEKYLTVQDADGKVRDFNVMKSRCGFA 126

Query: 125 KFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTDSEEILSLVSDPADGNYRFNIPAFGSV 184
           +FL L    +P NGYL+DD+C FGAEV+V+K +   E LS++ DP DG + + I  F ++
Sbjct: 127 QFLSLDVLKDPCNGYLMDDSCIFGAEVFVIKYSGKGECLSMIKDPDDGTFTWVIENFSTL 186

Query: 185 GDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKI 244
            + V  S  FT+ E  W+L +YP G+G  +   L + L+LAD +T+  ++ +Y EF+  I
Sbjct: 187 NEEVLYSETFTIKEIKWKLSLYPKGNGKVKNKSLCLFLELADCETLHHQRKLYMEFELLI 246

Query: 245 PNQ 247
            +Q
Sbjct: 247 KDQ 249

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225429033|ref|XP_002265318.1| PREDICTED: uncharacterized protein LOC100259955 isoform 1 [Vitis vinifera]

 Score =  225 bits (574), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 105/243 (43%), Positives = 154/243 (63%), Gaps = 1/243 (0%)

Query: 5   AILREKRSLPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKD 64
           +I R  RS+ PA Y  ++ES  +L  + +E +ESG FK GGY W+L  YPNG K  GG+D
Sbjct: 25  SISRTLRSIKPAHYLFRVESVSVLLNTDIEKYESGSFKVGGYRWRLCLYPNGNKKSGGED 84

Query: 65  HLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFG 124
           H+SLYL+I D+   P G W V V +KLFV++ +  +YL VQDA   +R F+  K+  GF 
Sbjct: 85  HISLYLEISDAQKLPVG-WEVTVNFKLFVFNHIHEKYLTVQDADGKVRDFNVMKSRCGFA 143

Query: 125 KFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTDSEEILSLVSDPADGNYRFNIPAFGSV 184
           +FL L    +P NGYL+DD+C FGAEV+V+K +   E LS++ DP DG + + I  F ++
Sbjct: 144 QFLSLDVLKDPCNGYLMDDSCIFGAEVFVIKYSGKGECLSMIKDPDDGTFTWVIENFSTL 203

Query: 185 GDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKI 244
            + V  S  FT+ E  W+L +YP G+G  +   L + L+LAD +T+  ++ +Y EF+  I
Sbjct: 204 NEEVLYSETFTIKEIKWKLSLYPKGNGKVKNKSLCLFLELADCETLHHQRKLYMEFELLI 263

Query: 245 PNQ 247
            +Q
Sbjct: 264 KDQ 266

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296083026|emb|CBI22430.3| unnamed protein product [Vitis vinifera]

 Score =  225 bits (573), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 105/243 (43%), Positives = 154/243 (63%), Gaps = 1/243 (0%)

Query: 5   AILREKRSLPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKD 64
           +I R  RS+ PA Y  ++ES  +L  + +E +ESG FK GGY W+L  YPNG K  GG+D
Sbjct: 366 SISRTLRSIKPAHYLFRVESVSVLLNTDIEKYESGSFKVGGYRWRLCLYPNGNKKSGGED 425

Query: 65  HLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFG 124
           H+SLYL+I D+   P G W V V +KLFV++ +  +YL VQDA   +R F+  K+  GF 
Sbjct: 426 HISLYLEISDAQKLPVG-WEVTVNFKLFVFNHIHEKYLTVQDADGKVRDFNVMKSRCGFA 484

Query: 125 KFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTDSEEILSLVSDPADGNYRFNIPAFGSV 184
           +FL L    +P NGYL+DD+C FGAEV+V+K +   E LS++ DP DG + + I  F ++
Sbjct: 485 QFLSLDVLKDPCNGYLMDDSCIFGAEVFVIKYSGKGECLSMIKDPDDGTFTWVIENFSTL 544

Query: 185 GDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKI 244
            + V  S  FT+ E  W+L +YP G+G  +   L + L+LAD +T+  ++ +Y EF+  I
Sbjct: 545 NEEVLYSETFTIKEIKWKLSLYPKGNGKVKNKSLCLFLELADCETLHHQRKLYMEFELLI 604

Query: 245 PNQ 247
            +Q
Sbjct: 605 KDQ 607

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224074494|ref|XP_002304380.1| predicted protein [Populus trichocarpa] gi|118485977|gb|ABK94833.1| unknown [Populus trichocarpa] gi|222841812|gb|EEE79359.1| predicted protein [Populus trichocarpa]

 Score =  222 bits (566), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 103/242 (42%), Positives = 154/242 (63%), Gaps = 1/242 (0%)

Query: 6   ILREKRSLPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDH 65
           I R  R LPPA Y+ KIE+F LL+ + +++FESG F+ G Y W+L  YPNG K + G  H
Sbjct: 20  ITRSTRDLPPAHYTFKIENFSLLANAKIDNFESGDFEVGSYKWRLRLYPNGNKKNNGDGH 79

Query: 66  LSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGK 125
           +SLYL   +SN  P G W VNV ++LFVY+Q+ ++YL +Q AK  +RRF   KT+ GF +
Sbjct: 80  ISLYLAFSNSNALPFG-WEVNVNFRLFVYNQIQDKYLTIQYAKGRVRRFHGMKTELGFDQ 138

Query: 126 FLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTDSEEILSLVSDPADGNYRFNIPAFGSVG 185
            + L  FN+ S GYL+DD C FGAE++V+KPT   E L+LV+ P    + + I  F ++ 
Sbjct: 139 LIPLTIFNDESKGYLIDDRCIFGAEIFVIKPTGKGECLTLVNQPVSDTFTWKIQNFSALD 198

Query: 186 DTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKIP 245
               +S  F+ G   W L+VYP G+  ++G  L++ LK+ D++T+   +  YAE+  ++ 
Sbjct: 199 QESYKSQVFSFGGYKWALLVYPKGNSTEKGKSLSIYLKMEDFETLPCGRTTYAEYMLRVK 258

Query: 246 NQ 247
           +Q
Sbjct: 259 DQ 260

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356503299|ref|XP_003520448.1| PREDICTED: uncharacterized protein LOC100809118 [Glycine max]

 Score =  219 bits (558), Expect = 9e-55,   Method: Compositional matrix adjust.
 Identities = 107/243 (44%), Positives = 152/243 (62%), Gaps = 1/243 (0%)

Query: 5   AILREKRSLPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKD 64
            I R  R LPPA Y  KIES+  L  + VE +E+ VF++GGY W+L+ YP+G     G  
Sbjct: 20  GISRSGRDLPPAHYLFKIESYSELMNTGVEKYETNVFQAGGYKWRLILYPSGNIKSNGNG 79

Query: 65  HLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFG 124
           ++SLYL I D+     G W V+V +KLFV++Q +N YL +QDA   +R+F   KT+WGF 
Sbjct: 80  YVSLYLAIADTEKLSSG-WEVDVNFKLFVFNQKNNNYLTIQDADGTVRKFQEMKTEWGFE 138

Query: 125 KFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTDSEEILSLVSDPADGNYRFNIPAFGSV 184
           + + L T  + SNGY V+D+C FGAEV+V+  +   E LS+V +P  G + + I  F ++
Sbjct: 139 QLISLETLLDSSNGYHVEDSCLFGAEVFVISRSGKWESLSMVKEPPHGTFTWKIGKFSTL 198

Query: 185 GDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKI 244
            +T   S  FTVGER+W L VYP G  ++RG  L+V L+L D +    K+ VYA+FK  I
Sbjct: 199 EETYYHSKSFTVGERDWNLRVYPRGIESERGKGLSVYLQLTDCERFPAKRTVYAKFKLGI 258

Query: 245 PNQ 247
            +Q
Sbjct: 259 LDQ 261

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224139110|ref|XP_002326770.1| predicted protein [Populus trichocarpa] gi|222834092|gb|EEE72569.1| predicted protein [Populus trichocarpa]

 Score =  216 bits (551), Expect = 6e-54,   Method: Compositional matrix adjust.
 Identities = 103/240 (42%), Positives = 147/240 (61%), Gaps = 1/240 (0%)

Query: 8   REKRSLPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLS 67
           R  R LPPA Y+ KIE+F LLS + V+S ESG F+   Y W+L  +PNG K   G  H+S
Sbjct: 15  RSIRDLPPAHYAFKIENFSLLSNTKVDSVESGDFEVDSYKWRLCLHPNGNKKSNGDGHIS 74

Query: 68  LYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFL 127
           LYL    SN  P G W VNV +KLFVY+Q+ ++YL +Q+A   +RRF   KT+ GF + L
Sbjct: 75  LYLAFSKSNAPPLG-WEVNVDFKLFVYNQIHDKYLTIQNANGRVRRFHGMKTEMGFDQLL 133

Query: 128 DLATFNEPSNGYLVDDTCAFGAEVYVVKPTDSEEILSLVSDPADGNYRFNIPAFGSVGDT 187
            L  FN+ S GYL+DD C FGAE++V+K T   E LSL+  P+  ++ ++I  F ++   
Sbjct: 134 PLTLFNDESKGYLIDDCCTFGAEIFVIKHTSKGECLSLMKQPSHSSFTWSIQKFSALDQE 193

Query: 188 VQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKIPNQ 247
             +S  F  G   W L+VYP G+   +G  L++ L L D +T+   + +YAEF  ++ +Q
Sbjct: 194 SCKSQVFATGGHKWTLLVYPKGNSTFKGKSLSIFLTLEDSETLPSGRTMYAEFTLRVRDQ 253

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225429031|ref|XP_002265247.1| PREDICTED: uncharacterized protein LOC100242863 [Vitis vinifera]

 Score =  216 bits (551), Expect = 7e-54,   Method: Compositional matrix adjust.
 Identities = 103/243 (42%), Positives = 151/243 (62%), Gaps = 1/243 (0%)

Query: 5   AILREKRSLPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKD 64
           AI R  R + P+DY  ++E    L  + +E +ESG F++GGY W+L  YPNG     GK 
Sbjct: 36  AISRTLRYIQPSDYLFRVECVSSLMNTNIEKYESGKFEAGGYKWRLCLYPNGNIKSNGKG 95

Query: 65  HLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFG 124
           ++SLYL I D+   P G W VNV +KLFV++   +QYL VQDA   + RF+  KT  GF 
Sbjct: 96  YISLYLAIADTKMLPLG-WEVNVNFKLFVFNHKHDQYLTVQDAGGKLTRFNVMKTQCGFP 154

Query: 125 KFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTDSEEILSLVSDPADGNYRFNIPAFGSV 184
           +FL L   N+P NGYL++D+C FGAEV+V+K +   E LS++ +P DG + + I  F ++
Sbjct: 155 QFLSLDVLNDPCNGYLMEDSCIFGAEVFVIKYSGKGECLSMIKEPVDGTFTWVIENFSTL 214

Query: 185 GDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKI 244
            + V  S  FTV +  W L++YP GS   +   L++ L+LAD +T+  +  +YAEF+  I
Sbjct: 215 KEKVMYSDVFTVEDFKWHLILYPKGSSKTKNKSLSLFLELADCETLDNQSKLYAEFELLI 274

Query: 245 PNQ 247
            +Q
Sbjct: 275 SDQ 277

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296083028|emb|CBI22432.3| unnamed protein product [Vitis vinifera]

 Score =  214 bits (544), Expect = 3e-53,   Method: Compositional matrix adjust.
 Identities = 102/243 (41%), Positives = 151/243 (62%), Gaps = 1/243 (0%)

Query: 5   AILREKRSLPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKD 64
            I R  R + P+DY  ++E    L  + +E +ESG F++GGY W+L  YPNG     GK 
Sbjct: 15  TISRTLRYIQPSDYLFRVECVSSLMNTNIEKYESGKFEAGGYKWRLCLYPNGNIKSNGKG 74

Query: 65  HLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFG 124
           ++SLYL I D+   P G W VNV +KLFV++   +QYL VQDA   + RF+  KT  GF 
Sbjct: 75  YISLYLAIADTKMLPLG-WEVNVNFKLFVFNHKHDQYLTVQDAGGKLTRFNVMKTQCGFP 133

Query: 125 KFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTDSEEILSLVSDPADGNYRFNIPAFGSV 184
           +FL L   N+P NGYL++D+C FGAEV+V+K +   E LS++ +P DG + + I  F ++
Sbjct: 134 QFLSLDVLNDPCNGYLMEDSCIFGAEVFVIKYSGKGECLSMIKEPVDGTFTWVIENFSTL 193

Query: 185 GDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKI 244
            + V  S  FTV +  W+L++YP GS   +   L++ L+LAD +T+  +  +YAEF+  I
Sbjct: 194 KEKVMYSDVFTVEDFKWKLILYPKGSSKTKNKSLSLFLELADCETLDNQSKLYAEFELLI 253

Query: 245 PNQ 247
            +Q
Sbjct: 254 SDQ 256

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225429035|ref|XP_002268000.1| PREDICTED: MATH domain-containing protein At5g43560-like [Vitis vinifera]

 Score =  211 bits (536), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 102/243 (41%), Positives = 150/243 (61%), Gaps = 2/243 (0%)

Query: 5   AILREKRSLPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKD 64
           +I R  RS+ PA Y  K+ES  +L  + +E +ESG F+ GGY W L  YPNG K   G+ 
Sbjct: 24  SISRTLRSIQPAHYLFKVESLSVLLNTDIEKYESGSFEVGGYKWSLCIYPNGNKKSDGEG 83

Query: 65  HLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFG 124
           H+SLYL+I ++   P G W V V +KLFV++ +  +YL VQDA   +R F+  KT  GF 
Sbjct: 84  HISLYLEISEAQNLPLG-WEVTVNFKLFVFNHIHEKYLTVQDADGKVRHFNAMKTRCGFA 142

Query: 125 KFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTDSEEILSLVSDPADGNYRFNIPAFGSV 184
           +FL L    +P NGYL+DD+C FGAEV+V+K +   E LS++ DP DG + + I  F ++
Sbjct: 143 QFLSLDVLKDPRNGYLMDDSCIFGAEVFVIKYSGKGESLSMIKDPVDGTFTWTIENFSAL 202

Query: 185 GDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKI 244
              V  S  FTV E  W+LV+YP G+   +   L++ L+L + +T+ ++K +Y  F+  I
Sbjct: 203 NQEVLDSEIFTVKELKWRLVLYPKGNNKAKNKSLSLFLELTNRETLHQRK-LYTAFELLI 261

Query: 245 PNQ 247
            +Q
Sbjct: 262 KDQ 264

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296083023|emb|CBI22427.3| unnamed protein product [Vitis vinifera]

 Score =  208 bits (530), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 100/243 (41%), Positives = 146/243 (60%), Gaps = 1/243 (0%)

Query: 5   AILREKRSLPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKD 64
           AI R  RS+ PA Y  ++ES  +L  +++E +ESG F+ GGY W+L  YPNG K   G  
Sbjct: 83  AISRTLRSIQPAHYLFRVESMSVLLDTSIEKYESGSFEVGGYKWRLCLYPNGNKKSDGDG 142

Query: 65  HLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFG 124
           H+SLYL I D+   P G W V V +KLFV++ +  +YL VQD    +R F+  KT  GF 
Sbjct: 143 HISLYLVISDTQNLPLG-WEVTVSFKLFVFNHIHEEYLTVQDTDGKVRHFNVMKTQCGFA 201

Query: 125 KFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTDSEEILSLVSDPADGNYRFNIPAFGSV 184
           +FL L    +P NGYL+DD+C FGAEV+V+K +   E LS++ +P DG + + I  F  +
Sbjct: 202 QFLPLDVLTDPCNGYLMDDSCIFGAEVFVIKYSGKGECLSMIKEPDDGTFTWMIENFSRL 261

Query: 185 GDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKI 244
                 S  FTV +  W+LVVYP G+   +   L++ L+LA+  T+  ++ +Y EF+  +
Sbjct: 262 KQEAIYSEIFTVKDFKWKLVVYPKGNYKAKNKSLSLFLELANRGTLHHQRKLYTEFELLV 321

Query: 245 PNQ 247
             Q
Sbjct: 322 KEQ 324

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	260
TAIR|locus:2089045	309	AT3G17380 "AT3G17380" [Arabido	0.957	0.805	0.389	1.4e-46
TAIR|locus:2179699	350	AT5G26280 "AT5G26280" [Arabido	0.930	0.691	0.361	4.6e-41
TAIR|locus:2055998	420	AT2G04170 "AT2G04170" [Arabido	0.942	0.583	0.341	3.7e-39
TAIR|locus:2151049	333	AT5G26290 "AT5G26290" [Arabido	0.903	0.705	0.362	4.8e-39
TAIR|locus:2179744	351	AT5G26260 "AT5G26260" [Arabido	0.923	0.683	0.348	9.9e-39
TAIR|locus:2151064	352	AT5G26320 "AT5G26320" [Arabido	0.938	0.693	0.332	7e-38
TAIR|locus:2092329	363	AT3G20360 "AT3G20360" [Arabido	0.896	0.641	0.370	8e-37
TAIR|locus:2151054	349	AT5G26300 "AT5G26300" [Arabido	0.930	0.693	0.336	8e-37
TAIR|locus:2056008	411	AT2G04190 "AT2G04190" [Arabido	0.934	0.591	0.316	6.5e-35
TAIR|locus:2053674	365	AT2G15710 "AT2G15710" [Arabido	0.888	0.632	0.329	1.7e-34

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

 Score = 488 (176.8 bits), Expect = 1.4e-46, P = 1.4e-46
 Identities = 100/257 (38%), Positives = 150/257 (58%)

Query:     2 GD-NAILREKRSLPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKND 60
             GD + I++     PP  Y +KIESF LL+K  +E +E+  F++GGY WKLV YPNG K+ 
Sbjct:     5 GDYDEIIKSISDAPPTHYMVKIESFSLLTKHAIERYETESFEAGGYKWKLVLYPNGNKSK 64

Query:    61 GGKDHLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTD 120
               KDH+S+YL + DS+    G W V   ++L++ DQ  + YL++Q  +   RRF   K +
Sbjct:    65 NTKDHVSVYLSLADSSSLSPG-WEVYAVFRLYLLDQNKDNYLILQGNE---RRFHSVKRE 120

Query:   121 WGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTDSE--EILSLVSDPADGNYRFNI 178
             WGF KF+   TF++ SNGYL++DTC FGA+V+V K   S   E LS++ D     + + I
Sbjct:   121 WGFDKFIPTGTFSDASNGYLMEDTCMFGADVFVSKERRSGRGECLSMIKDATSSKHVWKI 180

Query:   179 PAFGSVGDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYA 238
               F  +      S+ F  G+R W++  YP G+    G  L++ L L D +T+S    ++ 
Sbjct:   181 ENFSKLDKESYDSNAFFAGDRKWKIEFYPTGTKQGTGTHLSIYLTLVDPETISDGTKIFV 240

Query:   239 EFKFKIPNQYS-RNRAG 254
             EF  +I +Q   R+ AG
Sbjct:   241 EFTIRIFDQLQGRHIAG 257

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 436 (158.5 bits), Expect = 4.6e-41, P = 4.6e-41
 Identities = 89/246 (36%), Positives = 141/246 (57%)

Query:     6 ILREKRSLPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDH 65
             + RE R   P+   + I SF ++ K   E +ES VF++ GY W+LV Y NG KNDGG DH
Sbjct:    50 VTRELREERPSSKIVTITSFSVI-KGRGEPYESSVFEAAGYKWRLVLYVNGNKNDGGNDH 108

Query:    66 LSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGK 125
             +SLY +I+++N  P G W VNV  KLFV++   ++YL V D    ++R++  K +WGFG+
Sbjct:   109 ISLYARIEETNSLPLG-WEVNVDLKLFVHNGKLHKYLTVTDGL--VKRYNNAKKEWGFGQ 165

Query:   126 FLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTDSEEILSLVSDPADGNYRFNIPAFGSVG 185
              +  +TF   + GYL  DT +FGAE+++VKP   +E ++ +S+P +  + + I  F ++ 
Sbjct:   166 LIPRSTFYNANEGYLDQDTGSFGAEIFIVKPAQQQEKVTFISNPPNNVFTWKILRFSTLE 225

Query:   186 DTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKIP 245
             D    S +F V +R W+L   P G G  R + L + L    ++  +     +     ++ 
Sbjct:   226 DKFYYSDDFLVEDRYWRLGFNPKGDGGGRPHALPIFLFAQGHKANAVATNTWGAVNLRLK 285

Query:   246 NQYSRN 251
             NQ S N
Sbjct:   286 NQRSTN 291

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

 Score = 418 (152.2 bits), Expect = 3.7e-39, P = 3.7e-39
 Identities = 86/252 (34%), Positives = 143/252 (56%)

Query:     2 GDNAILREKRSLPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDG 61
             G   + R++R   P++  L I SF ++ K   E +ES VF++GGY W+LV Y NG +NDG
Sbjct:   119 GQGGMWRDER---PSNKILTITSFSVI-KGRGEPYESSVFEAGGYKWRLVLYVNGNQNDG 174

Query:    62 GKDHLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDW 121
             G +H+SLY++I+++   P G W VNV  KLFVY+    +YL+V+D    ++R++  K +W
Sbjct:   175 GNNHISLYVRIEETESLPKG-WEVNVELKLFVYNGKQRKYLIVKDGI--VKRYNDAKKEW 231

Query:   122 GFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTDSEEILSLVSDPADGNYRFNIPAF 181
             G+GK + L TF + + GYL  D  +FGAE++       +E ++ +S+P +  + + I  F
Sbjct:   232 GYGKLIPLTTFLDTNEGYLEQDIASFGAEIFSGTAVQVQEKVTFISNPPNNVFTWKILHF 291

Query:   182 GSVGDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFK 241
              ++ D    S +F V +R W+L   P G+G  R   + + L    ++  +     +    
Sbjct:   292 SNLEDKFYYSDDFLVEDRYWRLGFNPKGTGDGRSQAIPIFLYAQGHKPNAVATNTWGAVN 351

Query:   242 FKIPNQYSRNRA 253
              ++ NQ S N A
Sbjct:   352 LRLKNQRSSNHA 363

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2151049 AT5G26290 "AT5G26290" [Arabidopsis thaliana (taxid:3702)]

 Score = 417 (151.9 bits), Expect = 4.8e-39, P = 4.8e-39
 Identities = 90/248 (36%), Positives = 143/248 (57%)

Query:     4 NAILREKRSLPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGK 63
             N + R  R   P+D  L I SF ++ ++  E +ES VF++ GY W+LV Y NG + DGGK
Sbjct:    41 NGVTRVWRDDRPSDKILSITSFSII-RTRPEPYESSVFEAVGYKWRLVLYVNGNEKDGGK 99

Query:    64 DHLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGF 123
             DH+SLY KI ++   P G W VNV  KLFVY+   N+YL+V      ++R++    + G+
Sbjct:   100 DHVSLYAKIVETESLPVG-WEVNVDLKLFVYNGKLNKYLIVT-----VKRYNNATKELGY 153

Query:   124 GKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTDSEEILSLVSDPADGNYRFNIPAFGS 183
             G+ +  +TF + ++GY   DT  FGAE+Y+VKP   +E ++ +S+P D  + + I  F +
Sbjct:   154 GQLIPQSTFYDGNDGYREQDTGTFGAEIYIVKPAQQKEKVTFISNPPDNVFTWKILHFST 213

Query:   184 VGDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFK 243
             + D V +S+EF VG+R W+L + P      +G  + + L    ++  +     YA    +
Sbjct:   214 LEDKVYQSNEFLVGDRYWKLGLNP------KGGLVPIFLYAQGFKANAVVTTTYAATNLR 267

Query:   244 IPNQYSRN 251
             + NQ S N
Sbjct:   268 LKNQRSSN 275

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0031225 "anchored to membrane" evidence=TAS

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

 Score = 414 (150.8 bits), Expect = 9.9e-39, P = 9.9e-39
 Identities = 85/244 (34%), Positives = 137/244 (56%)

Query:     8 REKRSLPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLS 67
             RE R   P+   + I SF ++ K   E +ES +F++ GY W+LV Y  G    G  +H+S
Sbjct:    53 RELRDERPSSKIVTITSFSVI-KDRGEPYESSIFEAAGYKWRLVLYVKGNPKGGINNHIS 111

Query:    68 LYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFL 127
             LY +I+++   P G W VNV  KLFV+++   +YL V D    ++R++  K +WGF + +
Sbjct:   112 LYARIEETETLPRG-WEVNVDLKLFVHNRKLKKYLSVTDGT--VKRYNDAKKEWGFTQLI 168

Query:   128 DLATFNEPSNGYLVDDTCAFGAEVYVVKPTDSEEILSLVSDPADGNYRFNIPAFGSVGDT 187
              L TF   + GYLV DT +FGAE+++V PT+ +E ++ +S+P D  + + I  F ++ D 
Sbjct:   169 SLPTFYNANEGYLVQDTASFGAEIFIVNPTEKQEKVTFISNPPDNVFTWKILRFSTLEDK 228

Query:   188 VQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKIPNQ 247
                S +F VG+R W+L   P GSG  R + L + L    ++  +     +     ++ NQ
Sbjct:   229 FYYSDDFLVGDRYWRLGFNPKGSGGGRPHALPIFLYAQGHKANAVVTNTWGAVNLRLKNQ 288

Query:   248 YSRN 251
              S N
Sbjct:   289 RSSN 292

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:2151064 AT5G26320 "AT5G26320" [Arabidopsis thaliana (taxid:3702)]

 Score = 406 (148.0 bits), Expect = 7.0e-38, P = 7.0e-38
 Identities = 84/253 (33%), Positives = 143/253 (56%)

Query:     1 MGDNAILREKRSLPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKND 60
             +G   +LRE+R   P+   + I SF ++ K   E+FES  F++ GY W+ + + NG +ND
Sbjct:    48 LGLTRVLREER---PSSKIVTITSFSVI-KGRSEAFESSTFEAAGYKWRFMLFVNGNQND 103

Query:    61 --GGKDHLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRK 118
               GG ++++LY+ I ++   P G W VNV  KLFV+++  ++YL V D    ++R++  K
Sbjct:   104 PDGGHENMALYVGIKETESFPRG-WEVNVDLKLFVHNEKLHKYLTVSDGT--VKRYEAAK 160

Query:   119 TDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTDSEEILSLVSDPADGNYRFNI 178
             T WGFG  +   T  +P+ GY++ DT +FGAE+ +V P + +E ++ +S+P D  + + I
Sbjct:   161 TYWGFGNLIPRTTLLDPNEGYILHDTLSFGAEISIVNPAEKQEKITFISNPPDNVFTWKI 220

Query:   179 PAFGSVGDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYA 238
               F ++ +    S EF VG+R W+L   P G   +R   L++ L    Y+  +     + 
Sbjct:   221 LRFSTLENKFYYSDEFLVGDRYWRLGFNPKGYQGERPRALSIFLYAQGYKANAVITNTWG 280

Query:   239 EFKFKIPNQYSRN 251
                 ++ NQ S N
Sbjct:   281 SVNLQLKNQRSSN 293

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

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

 Score = 396 (144.5 bits), Expect = 8.0e-37, P = 8.0e-37
 Identities = 90/243 (37%), Positives = 129/243 (53%)

Query:    11 RSLPPADYSLKIESFKLLSKST-VESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLY 69
             R  PP+ YSLK+ESF  L KS   E +ES  F+ G YNW LV YP G KND G  H+SLY
Sbjct:    62 RERPPSSYSLKMESFNTLMKSVYTERYESRPFRVGRYNWTLVVYPKGNKNDNGTGHISLY 121

Query:    70 LKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDL 129
             + +D+S         V+V  + +V+++   +Y  +QD    + RF   K  WGF K L L
Sbjct:   122 VVLDNSTLTSQSE-EVHVDLRFYVFNKKETKYFTIQDTD--VWRFSAIKRMWGFSKVLPL 178

Query:   130 ATFNEPSNGYLVD-DTCAFGAEVYVVKPTDSEEILSLVSDPADGNYRFNIPAFGSVGDTV 188
              TFN   NGYL D D C FG +V +    +  E+ S+        + + I  + ++  T 
Sbjct:   179 ITFNNLKNGYLYDVDHCEFGVDVIIPPFYEKSEVFSVTKSFPSPRFTWYIQGYSTL-PTD 237

Query:   189 QRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKP---VYAEFKFKIP 245
               S EF +G ++W L ++  G GA  G  L++ L L   Q + + KP   VY   K ++P
Sbjct:   238 YLSEEFIIGGKSWNLRIFKNGFGAFEGKNLSLYLNLGP-QELLKAKPYDKVYVRAKLRVP 296

Query:   246 NQY 248
             NQ+
Sbjct:   297 NQF 299

GO:0003674 "molecular_function" evidence=ND

GO:0005576 "extracellular region" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2151054 AT5G26300 "AT5G26300" [Arabidopsis thaliana (taxid:3702)]

 Score = 396 (144.5 bits), Expect = 8.0e-37, P = 8.0e-37
 Identities = 84/250 (33%), Positives = 137/250 (54%)

Query:     2 GDNAILREKRSLPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDG 61
             G   +LR++R   P+   L I +F ++ K  VE +ES VF++ GY W+LV Y NG  ND 
Sbjct:    49 GGTRVLRDER---PSSKILTITNFSVI-KGRVEPYESSVFEAAGYKWRLVLYVNGNPNDS 104

Query:    62 GKDHLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDW 121
             G DH+SLY++I+++   P G W VNV  KLF+++   N+YL + D    ++ ++  K +W
Sbjct:   105 GNDHISLYVRIEETEYLPRG-WEVNVDLKLFIHNGKLNKYLAISDGT--LKLYNDAKREW 161

Query:   122 GFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTDSEEILSLVSDPADGNYRFNIPAF 181
             GFG+ +   TF   + GY+  D  +FGAE+++VKP   +E ++ +S+P    + + I  F
Sbjct:   162 GFGQLIPHVTFYN-TYGYIEQDIGSFGAEIFIVKPAQQQEKVTFISNPPTNVFTWKILHF 220

Query:   182 GSVGDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFK 241
               + D    S +F V +R W+L   P G G  R   L + L    ++  +     +    
Sbjct:   221 SILEDKFYYSDDFLVEDRYWRLGFNPKGDGGGRPYALPIFLFAQGHKANAVATNTWGAAN 280

Query:   242 FKIPNQYSRN 251
              ++ NQ S N
Sbjct:   281 LRLKNQRSTN 290

GO:0003674 "molecular_function" evidence=ND

GO:0005576 "extracellular region" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0031225 "anchored to membrane" evidence=TAS

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

 Score = 378 (138.1 bits), Expect = 6.5e-35, P = 6.5e-35
 Identities = 79/250 (31%), Positives = 141/250 (56%)

Query:     6 ILREKRSLPPADYSLKIESF-KLLSKSTVESFESGVFKSG-GYNWKLVFYPNGKKNDGGK 63
             + R  R  PP+   L I +F +++ +   E +ES VF++   + W+L+ Y NG +NDGG 
Sbjct:   110 VTRTLRDEPPSHRILTITNFSEIIGRE--EPYESSVFEAYFEHKWRLILYVNGNQNDGGS 167

Query:    64 DHLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGF 123
             +H+SLYL+ ++++ H     ++N   KLFVY+   ++YL V D     +R++ +  +WG+
Sbjct:   168 NHISLYLRSEETD-HLTYDGSINFVLKLFVYNGKQDKYLTVTDGI--QKRYNYKNKEWGY 224

Query:   124 GKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTDSEEILSLVSDPADGNYRFNIPAFGS 183
             GK + L+TF + S GYL  DT +FGAE+++  P   +E ++ +S+P +  + + I  F +
Sbjct:   225 GKLIPLSTFLDTSQGYLEQDTASFGAEIFLCPPIQVQEKVTFISNPPNNVFTWKILHFST 284

Query:   184 VGDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFK 243
             + D V  S +F V +R W+L V P G+G  R   + + L    ++  +     +     +
Sbjct:   285 LEDIVYYSDDFLVEDRYWRLGVNPKGTGDGRSQAIKIFLYAQGHKPNAVVSSTWGAVNLR 344

Query:   244 IPNQYSRNRA 253
             + NQ S N +
Sbjct:   345 VKNQRSSNHS 354

GO:0003674 "molecular_function" evidence=ND

GO:0005737 "cytoplasm" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0005739 "mitochondrion" evidence=IDA

TAIR|locus:2053674 AT2G15710 "AT2G15710" [Arabidopsis thaliana (taxid:3702)]

 Score = 374 (136.7 bits), Expect = 1.7e-34, P = 1.7e-34
 Identities = 78/237 (32%), Positives = 127/237 (53%)

Query:     2 GDNAILREKRSLPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDG 61
             GD+ I+   R  PP+ YSLKI     LS+ T + +ES  F SGGYNW+LV YP G + D 
Sbjct:    85 GDSTIVNNLREHPPSSYSLKINK---LSQLTFDKYESHRFLSGGYNWRLVIYPKGNEKDK 141

Query:    62 GKDHLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDW 121
             G   +S+Y++ D++         V  Y   FVY++  N+Y  +QD +  ++RF+  +T W
Sbjct:   142 GSGFISMYVEFDNTKVSSTSPMEVFAYIIFFVYNKKENKYFTIQDVE--VKRFNALRTVW 199

Query:   122 GFGKFLDLATFNEPSNGYLVD-DTCAFGAEVYVVKPTDSEEILSLVSDPADGNYRFNIPA 180
             G  + L L TFN+  NGY  + + C FG +V V  P    E++S         + +++  
Sbjct:   200 GLSQVLSLETFNDLENGYTFEGEQCEFGVDVMVASPITKWEVVSFDEKLDILKFSWSVKD 259

Query:   181 FGSVGDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVY 237
             F  + +    S  F++G R W L +YP G       +L++ L+L+  +T++  + +Y
Sbjct:   260 FSVLKEEFYVSERFSMGGRLWDLQMYPKGDPRRDKKWLSIFLRLSGSETLTVDEKIY 316

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

---

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	260
cd00121	126	cd00121, MATH, MATH (meprin and TRAF-C homology) d	3e-25
cd00121	126	cd00121, MATH, MATH (meprin and TRAF-C homology) d	4e-10
pfam00917	116	pfam00917, MATH, MATH domain	3e-09
cd03775	134	cd03775, MATH_Ubp21p, Ubiquitin-specific protease	7e-07
COG5077	1089	COG5077, COG5077, Ubiquitin carboxyl-terminal hydr	1e-06
smart00061	95	smart00061, MATH, meprin and TRAF homology	4e-06
cd03774	139	cd03774, MATH_SPOP, Speckle-type POZ protein (SPOP	4e-05
cd03772	137	cd03772, MATH_HAUSP, Herpesvirus-associated ubiqui	0.003

>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 = 96.3 bits (240), Expect = 3e-25
 Identities = 41/134 (30%), Positives = 63/134 (47%), Gaps = 11/134 (8%)

Query: 18  YSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNP 77
           ++ KI +F   S+   ES  S  F+ GGY W++  YPNG  +    D+LSLYL++D    
Sbjct: 3   HTWKIVNF---SELEGESIYSPPFEVGGYKWRIRIYPNG--DGESGDYLSLYLELDKGES 57

Query: 78  HPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEPSN 137
             +  W+V   + L + +Q   + L           F  + + WGF KF+      +   
Sbjct: 58  DLEK-WSVRAEFTLKLVNQNGGKSLSKSFTH---VFFSEKGSGWGFPKFISWDDLEDS-- 111

Query: 138 GYLVDDTCAFGAEV 151
            YLVDD+     EV
Sbjct: 112 YYLVDDSLTIEVEV 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|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 = 55.8 bits (135), Expect = 4e-10
 Identities = 24/81 (29%), Positives = 39/81 (48%), Gaps = 1/81 (1%)

Query: 172 GNYRFNIPAFGSVGDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVS 231
           G + + I  F  +      S  F VG   W++ +YP G G + G++L++ L+L   ++  
Sbjct: 1   GKHTWKIVNFSELEGESIYSPPFEVGGYKWRIRIYPNGDG-ESGDYLSLYLELDKGESDL 59

Query: 232 RKKPVYAEFKFKIPNQYSRNR 252
            K  V AEF  K+ NQ     
Sbjct: 60  EKWSVRAEFTLKLVNQNGGKS 80

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 = 53.1 bits (128), Expect = 3e-09
 Identities = 31/124 (25%), Positives = 46/124 (37%), Gaps = 23/124 (18%)

Query: 34  ESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVYYKLFV 93
             + S   +  G  W+L  Y NG         L LYL  +         W++   + L  
Sbjct: 12  NYYTSPYEERFGIPWRLRIYRNG-------GFLGLYLHCEKGEKDELLGWSIETEFTLK- 63

Query: 94  YDQVSNQYLVVQDAKAPMRRFDRRK----TDWGFGKFLDLATFNEPSNGYLVDDTCAFGA 149
                   LV  + K+  +R         T +G+GKF+         N Y+VDDT    A
Sbjct: 64  --------LVSDNGKSLTKRNKSHVFTKPTGYGWGKFISWDDLE---NDYVVDDTIIIEA 112

Query: 150 EVYV 153
           EV +
Sbjct: 113 EVKI 116

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|239744 cd03775, MATH_Ubp21p, Ubiquitin-specific protease 21 (Ubp21p) family, MATH domain; composed of fungal proteins with similarity to Ubp21p of fission yeast

 Score = 47.0 bits (112), Expect = 7e-07
 Identities = 32/122 (26%), Positives = 55/122 (45%), Gaps = 23/122 (18%)

Query: 16  ADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDS 75
             ++ +I+++  L K       S  FK GG+ W+++ +P G    GG   +S+YL+    
Sbjct: 1   QSFTWRIKNWSELEKKVH----SPKFKCGGFEWRILLFPQGNSQTGG---VSIYLE---- 49

Query: 76  NPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAP--------MRRFDRRKTDWGFGKFL 127
            PHP+      +     V  Q +   LV+ +   P          RF+    DWGF +F+
Sbjct: 50  -PHPEEEEKAPLDEDWSVCAQFA---LVISNPGDPSIQLSNVAHHRFNAEDKDWGFTRFI 105

Query: 128 DL 129
           +L
Sbjct: 106 EL 107

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. Length = 134

>gnl|CDD|227409 COG5077, COG5077, Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]

 Score = 49.1 bits (117), Expect = 1e-06
 Identities = 42/150 (28%), Positives = 64/150 (42%), Gaps = 21/150 (14%)

Query: 16  ADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDS 75
             ++ K++ +  L+K      ES  F  GG+ WK++ +P G         +S+YL+    
Sbjct: 39  MSFTWKVKRWSELAKKV----ESPPFSVGGHTWKIILFPQGNNQCN----VSVYLE---- 86

Query: 76  NPHPDGTWNV-NVYYKL---FVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLAT 131
              P         YY     F +D  + +Y  ++       RF    TDWGF  F+DL  
Sbjct: 87  -YEPQELEETGGKYYDCCAQFAFDISNPKYPTIEYINKSHHRFSMESTDWGFTNFIDLNK 145

Query: 132 FNEPSNG---YLVDDTCAFGAEVYVVK-PT 157
             EPS G   +L + T      V V+K PT
Sbjct: 146 LIEPSPGRPPFLEEGTLVITVYVRVLKDPT 175

Length = 1089

>gnl|CDD|214496 smart00061, MATH, meprin and TRAF homology

 Score = 43.8 bits (104), Expect = 4e-06
 Identities = 25/112 (22%), Positives = 43/112 (38%), Gaps = 21/112 (18%)

Query: 20  LKIESFKLLSK-STVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPH 78
           +   +FK +S+    ES+ S   +     W+L  Y            LSLYL  +     
Sbjct: 1   VLSHTFKNVSRLEEGESYFSPSEEHFNIPWRLKIYRKN-------GFLSLYLHCEKEEC- 52

Query: 79  PDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFD---RRKTDWGFGKFL 127
               W++   + L          LV Q+ K+  ++      + + WGF KF+
Sbjct: 53  DSRKWSIEAEFTL---------KLVSQNGKSLSKKDKHVFEKPSGWGFSKFI 95

Length = 95

>gnl|CDD|239743 cd03774, MATH_SPOP, Speckle-type POZ protein (SPOP) family, MATH domain; composed of proteins with similarity to human SPOP

 Score = 42.1 bits (99), Expect = 4e-05
 Identities = 40/140 (28%), Positives = 59/140 (42%), Gaps = 12/140 (8%)

Query: 18  YSLKIESFKLLSKSTVESFESGVFKSGGYN---WKLVFYPNGKKNDGGKDHLSLYLKIDD 74
           Y   I +F    +   E  +S  F SG  +   W L   P G  ++  KD+LSLYL +  
Sbjct: 7   YMWTISNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGL-DEESKDYLSLYLLLVS 65

Query: 75  SNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNE 134
                     V   +K  + +    +   ++  +A   RF + K DWGF KF+      +
Sbjct: 66  CPKSE-----VRAKFKFSILNAKGEETKAMESQRA--YRFVQGK-DWGFKKFIRRDFLLD 117

Query: 135 PSNGYLVDDTCAFGAEVYVV 154
            +NG L DD      EV VV
Sbjct: 118 EANGLLPDDKLTLFCEVSVV 137

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, containing both MATH and BTB domains from C. elegans and plants which are excluded from this family. Length = 139

>gnl|CDD|239741 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

 Score = 36.7 bits (85), Expect = 0.003
 Identities = 15/41 (36%), Positives = 22/41 (53%), Gaps = 2/41 (4%)

Query: 114 FDRRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVV 154
           F  ++ DWGF  F+  +   +P  G++ DDT     EVYV 
Sbjct: 93  FFSKENDWGFSNFMTWSEVTDPEKGFIEDDTITL--EVYVQ 131

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 plays several important roles in EBV latent infection and cellular transformation. It binds the same pocket as p53 in the HAUSP TRAF-like domain. Through interactions with p53, MDM2 and EBNA1, HAUSP plays a role in cell proliferation, apoptosis and EBV-mediated immortalization. Length = 137

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	260
cd03772	137	MATH_HAUSP Herpesvirus-associated ubiquitin-specif	99.96
cd03774	139	MATH_SPOP Speckle-type POZ protein (SPOP) family,	99.96
cd03775	134	MATH_Ubp21p Ubiquitin-specific protease 21 (Ubp21p	99.95
cd03780	148	MATH_TRAF5 Tumor Necrosis Factor Receptor (TNFR)-A	99.94
cd03776	147	MATH_TRAF6 Tumor Necrosis Factor Receptor (TNFR)-A	99.94
cd03773	132	MATH_TRIM37 Tripartite motif containing protein 37	99.94
cd00270	149	MATH_TRAF_C Tumor Necrosis Factor Receptor (TNFR)-	99.94
cd03777	186	MATH_TRAF3 Tumor Necrosis Factor Receptor (TNFR)-A	99.94
cd03781	154	MATH_TRAF4 Tumor Necrosis Factor Receptor (TNFR)-A	99.94
cd03779	147	MATH_TRAF1 Tumor Necrosis Factor Receptor (TNFR) A	99.93
cd03771	167	MATH_Meprin Meprin family, MATH domain; Meprins ar	99.92
cd03778	164	MATH_TRAF2 Tumor Necrosis Factor Receptor (TNFR) A	99.89
cd00121	126	MATH MATH (meprin and TRAF-C homology) domain; an	99.89
PF00917	119	MATH: MATH domain; InterPro: IPR002083 Although ap	99.85
cd03783	167	MATH_Meprin_Alpha Meprin family, Alpha subunit, MA	99.79
cd03782	167	MATH_Meprin_Beta Meprin family, Beta subunit, MATH	99.78
smart00061	95	MATH meprin and TRAF homology.	99.75
cd03775	134	MATH_Ubp21p Ubiquitin-specific protease 21 (Ubp21p	99.7
cd03773	132	MATH_TRIM37 Tripartite motif containing protein 37	99.65
cd03771	167	MATH_Meprin Meprin family, MATH domain; Meprins ar	99.62
cd03780	148	MATH_TRAF5 Tumor Necrosis Factor Receptor (TNFR)-A	99.61
cd03772	137	MATH_HAUSP Herpesvirus-associated ubiquitin-specif	99.6
cd00270	149	MATH_TRAF_C Tumor Necrosis Factor Receptor (TNFR)-	99.6
COG5077	1089	Ubiquitin carboxyl-terminal hydrolase [Posttransla	99.59
cd03777	186	MATH_TRAF3 Tumor Necrosis Factor Receptor (TNFR)-A	99.58
cd03774	139	MATH_SPOP Speckle-type POZ protein (SPOP) family,	99.58
cd03776	147	MATH_TRAF6 Tumor Necrosis Factor Receptor (TNFR)-A	99.57
cd03778	164	MATH_TRAF2 Tumor Necrosis Factor Receptor (TNFR) A	99.55
cd03781	154	MATH_TRAF4 Tumor Necrosis Factor Receptor (TNFR)-A	99.55
cd03779	147	MATH_TRAF1 Tumor Necrosis Factor Receptor (TNFR) A	99.54
smart00061	95	MATH meprin and TRAF homology.	99.48
cd00121	126	MATH MATH (meprin and TRAF-C homology) domain; an	99.46
KOG1987	297	consensus Speckle-type POZ protein SPOP and relate	99.22
cd03782	167	MATH_Meprin_Beta Meprin family, Beta subunit, MATH	99.13
PF00917	119	MATH: MATH domain; InterPro: IPR002083 Although ap	99.11
cd03783	167	MATH_Meprin_Alpha Meprin family, Alpha subunit, MA	99.09
COG5077	1089	Ubiquitin carboxyl-terminal hydrolase [Posttransla	98.5
KOG1863	1093	consensus Ubiquitin carboxyl-terminal hydrolase [P	98.18
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.05
KOG1987	297	consensus Speckle-type POZ protein SPOP and relate	97.01
KOG0297	391	consensus TNF receptor-associated factor [Signal t	95.87

>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=99.96  E-value=3.6e-28  Score=187.39  Aligned_cols=133  Identities=20%  Similarity=0.411  Sum_probs=109.3

Q ss_pred             CceEEEEEcCccccccccCCeeEeccEEECCeeeEEEEeeCCCCCC-CCCCcEEEEEEecCCCCCCCCCcEEEEEEEEEE
Q 024960           15 PADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKND-GGKDHLSLYLKIDDSNPHPDGTWNVNVYYKLFV   93 (260)
Q Consensus        15 ~g~~~w~I~~fs~~~~~~~~~~~S~~F~~gg~~W~l~~yP~G~~~~-~~~~~lSv~L~l~~~~~~~~~~w~v~~~~~~~l   93 (260)
                      .|+|+|+|+|||.+    ++.++|+.|.+||++|+|++||+|.... +..++|||||.|.+... ..+ |++.|+|+|+|
T Consensus         2 ~~~~~~~I~~~S~l----~e~~~S~~f~vgG~~W~i~~~P~g~~~~~~~~~~lsvyL~~~~~~~-~~~-w~i~a~~~~~l   75 (137)
T cd03772           2 EATFSFTVERFSRL----SESVLSPPCFVRNLPWKIMVMPRNYPDRNPHQKSVGFFLQCNAESD-STS-WSCHAQAVLRI   75 (137)
T ss_pred             CcEEEEEECCcccC----CCcEECCCEEECCcceEEEEEeCCCCCCCCCCCeEEEEEeeCCcCC-CCC-CeEEEEEEEEE
Confidence            58999999999998    2689999999999999999999996421 23589999999986532 235 99999999999


Q ss_pred             EeCcCCceeEEeccCCCceeccCCCCCcccccccccccccCCCCCceeCCEEEEEEEEEEecC
Q 024960           94 YDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKP  156 (260)
Q Consensus        94 ~n~~~~~~~~~~~~~~~~~~F~~~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~v~~~  156 (260)
                      +|+.+........   ..+.|......|||.+||+|++|++++++||+||+|+|+|+|+|-.+
T Consensus        76 ~~~~~~~~~~~~~---~~~~f~~~~~~~G~~~fi~~~~L~~~~sgyl~~D~l~Ie~~V~~~~~  135 (137)
T cd03772          76 INYKDDEPSFSRR---ISHLFFSKENDWGFSNFMTWSEVTDPEKGFIEDDTITLEVYVQADAP  135 (137)
T ss_pred             EcCCCCcccEEEe---eeeEEcCCCCCccchheeEHHHhcCCCCCcEECCEEEEEEEEEeeCC
Confidence            9998543332222   44678766679999999999999877899999999999999988653

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

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

Probab=99.96  E-value=1.5e-28  Score=189.91  Aligned_cols=135  Identities=28%  Similarity=0.436  Sum_probs=111.2

Q ss_pred             CCCceEEEEEcCccccccccCCeeEeccEEECCe---eeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEEEEEE
Q 024960           13 LPPADYSLKIESFKLLSKSTVESFESGVFKSGGY---NWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVYY   89 (260)
Q Consensus        13 ~~~g~~~w~I~~fs~~~~~~~~~~~S~~F~~gg~---~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v~~~~   89 (260)
                      +...+|+|+|+|||.+++..++.+.|++|.+||+   +|+|++||+|.. ++..+|+||||++.+..    . ++++|+|
T Consensus         2 ~~~~~~~w~I~~fS~~~~~~~~~i~S~~F~vgg~~~~~W~l~~yP~G~~-~~~~~~iSlyL~l~~~~----~-~~v~a~f   75 (139)
T cd03774           2 VVKFCYMWTISNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGLD-EESKDYLSLYLLLVSCP----K-SEVRAKF   75 (139)
T ss_pred             ceEEEEEEEECCchhhhhcCCCEEECCCeecCCcCCceEEEEEeCCCCC-CCCCCeEEEEEEEccCC----C-CcEEEEE
Confidence            3567899999999998654468999999999984   999999999975 34578999999997643    2 6799999


Q ss_pred             EEEEEeCcCCceeEEeccCCCceeccCCCCCcccccccccccccCCCCCceeCCEEEEEEEEEEecC
Q 024960           90 KLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKP  156 (260)
Q Consensus        90 ~~~l~n~~~~~~~~~~~~~~~~~~F~~~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~v~~~  156 (260)
                      +|.|+|+.+.......  ....+.|.. ..+|||.+||++++|+++.+|||+||+|+|+|+|+|+++
T Consensus        76 ~~~l~n~~~~~~~~~~--~~~~~~f~~-~~~wG~~~fi~~~~L~~~~~g~l~dD~l~I~c~I~V~~~  139 (139)
T cd03774          76 KFSILNAKGEETKAME--SQRAYRFVQ-GKDWGFKKFIRRDFLLDEANGLLPDDKLTLFCEVSVVQD  139 (139)
T ss_pred             EEEEEecCCCeeeeec--ccCcEeCCC-CCccCHHHeeeHHHhhhhhcccccCCEEEEEEEEEEEcC
Confidence            9999999987643322  123567765 478999999999999877789999999999999999863

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

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

Probab=99.95  E-value=9.6e-28  Score=184.23  Aligned_cols=125  Identities=21%  Similarity=0.551  Sum_probs=104.7

Q ss_pred             eEEEEEcCccccccccCCeeEeccEEECCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCC----CCCCCcEEEEEEEEE
Q 024960           17 DYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNP----HPDGTWNVNVYYKLF   92 (260)
Q Consensus        17 ~~~w~I~~fs~~~~~~~~~~~S~~F~~gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~----~~~~~w~v~~~~~~~   92 (260)
                      +|+|+|+|||.+.    +.+.|++|.+|||+|+|.+||+|...   .+|+||||.+.+.+.    ++.+ |.+.|+|+|+
T Consensus         2 ~f~w~I~~fS~~~----~~~~S~~F~vGG~~W~l~~yP~G~~~---~~~iSlyL~l~~~~~~~~~~~~~-~~v~a~f~~~   73 (134)
T cd03775           2 SFTWRIKNWSELE----KKVHSPKFKCGGFEWRILLFPQGNSQ---TGGVSIYLEPHPEEEEKAPLDED-WSVCAQFALV   73 (134)
T ss_pred             cEEEEECCcccCC----cceeCCCEEECCeeEEEEEeCCCCCC---CCeEEEEEEecCcccccccCCCC-CeEEEEEEEE
Confidence            6999999999963    68999999999999999999999762   689999999976543    2445 9999999999


Q ss_pred             EEeCcCCceeEEeccCCCceeccCCCCCcccccccccccccCC----CCCceeCCEEEEEEEEE
Q 024960           93 VYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEP----SNGYLVDDTCAFGAEVY  152 (260)
Q Consensus        93 l~n~~~~~~~~~~~~~~~~~~F~~~~~~~G~~~Fi~~~~L~~~----~~~yl~dD~l~i~~~V~  152 (260)
                      |+||.++......   ...+.|+....+|||.+||++++|++|    ++|||+||+|+|++.|+
T Consensus        74 l~n~~~~~~~~~~---~~~~~F~~~~~~wG~~~fi~~~~L~~~~~~~~~g~l~nD~l~I~~~~~  134 (134)
T cd03775          74 ISNPGDPSIQLSN---VAHHRFNAEDKDWGFTRFIELRKLAHRTPDKPSPFLENGELNITVYVR  134 (134)
T ss_pred             EEcCCCCccceEc---cceeEeCCCCCCCChhHcccHHHHcccccCCCCceeECCEEEEEEEEC
Confidence            9999865433322   256889876789999999999999954    68999999999999874

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.

>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=99.94  E-value=1.2e-26  Score=179.87  Aligned_cols=135  Identities=24%  Similarity=0.330  Sum_probs=105.4

Q ss_pred             ceEEEEEcCccccccc--cCC--eeEeccE--EECCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEEEEEE
Q 024960           16 ADYSLKIESFKLLSKS--TVE--SFESGVF--KSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVYY   89 (260)
Q Consensus        16 g~~~w~I~~fs~~~~~--~~~--~~~S~~F--~~gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v~~~~   89 (260)
                      |++.|+|.|||.+++.  .|.  .+.|++|  .++||+|+|++||||.. .+..+||||||.+++++.+....|++++++
T Consensus         1 g~~vwkI~~ys~~~~~~~~g~~~~i~S~~Fyt~~~Gy~w~i~~ypnG~~-~~~~~~iSv~l~l~~g~~D~~l~wp~~~~~   79 (148)
T cd03780           1 GKLIWKVTDYKMKKKEAVDGHTVSIFSQPFYTSRCGYRLCARAYLNGDG-SGKGTHLSLYFVVMRGEFDSLLQWPFRQRV   79 (148)
T ss_pred             CEEEEEECCHHHHHHhhcCCCccEEECCCcccCCCCeeEEEEEEcCCCC-CCCCCEEEEEEEEecCccccccCcceEEEE
Confidence            6899999999998642  355  7999999  89999999999999987 345689999999998643322239999999


Q ss_pred             EEEEEeCcCCceeE--EeccCCCceeccCC----CCCcccccccccccccCCCCCceeCCEEEEEEEE
Q 024960           90 KLFVYDQVSNQYLV--VQDAKAPMRRFDRR----KTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEV  151 (260)
Q Consensus        90 ~~~l~n~~~~~~~~--~~~~~~~~~~F~~~----~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V  151 (260)
                      +|.|+||.+.....  ....+.....|...    +..||+.+||++++|+..+.+||.||+|+|+|.|
T Consensus        80 tfsLlDq~~~~~~~~~~~~~~~~~~~F~rp~~~~n~~~G~~~Fi~~~~Le~s~~~ylkdD~~~Ik~~v  147 (148)
T cd03780          80 TLMLLDQSGKKNHIMETFKADPNSSSFKRPDGEMNIASGCPRFVAHSVLENAKNTYIKDDTLFLKVAV  147 (148)
T ss_pred             EEEEECCCCCCCCcceeeecCCccccccCCCCCCCCCcChhheeEHHHhhcccCCcCcCCEEEEEEEE
Confidence            99999998654321  11100123567653    4579999999999998433599999999999987

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=99.94  E-value=1.6e-26  Score=180.20  Aligned_cols=133  Identities=19%  Similarity=0.271  Sum_probs=102.6

Q ss_pred             ceEEEEEcCcccccc-c-cCC--eeEeccEEE--CCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCC-CCCCcEEEEE
Q 024960           16 ADYSLKIESFKLLSK-S-TVE--SFESGVFKS--GGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPH-PDGTWNVNVY   88 (260)
Q Consensus        16 g~~~w~I~~fs~~~~-~-~~~--~~~S~~F~~--gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~-~~~~w~v~~~   88 (260)
                      |+|+|+|.|||.+++ . .|+  .+.|++|.+  |||+|+|++||+|.. ++..+|||+||+|.++... ..+ |+++|+
T Consensus         1 g~h~~~I~~yS~~~~~~~~g~~~~i~S~~F~~~~gGy~W~i~~yP~G~~-~~~~~~lS~~L~l~~~~~d~~l~-wpv~a~   78 (147)
T cd03776           1 GIYVWKIKNFSNLRRSMEAGSPVVIHSPGFYTSPPGYKLCARLNLSLPE-ARCPNYISLFVHLMQGENDSHLD-WPFQGT   78 (147)
T ss_pred             CEEEEEECCHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEeCCCC-CCCCCEEEEEEEEeccCCCcccC-Ccccce
Confidence            689999999998654 2 245  488999985  799999999999987 3456899999999876432 234 999999


Q ss_pred             EEEEEEeCcCCceeEE--eccCCCceeccC-----CCCCcccccccccccccCCCCCceeCCEEEEEEEEE
Q 024960           89 YKLFVYDQVSNQYLVV--QDAKAPMRRFDR-----RKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVY  152 (260)
Q Consensus        89 ~~~~l~n~~~~~~~~~--~~~~~~~~~F~~-----~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~  152 (260)
                      ++|.|+||.++.....  .........|..     ....|||.+||++++|+  +++||+||+|+|+|+|.
T Consensus        79 ~~~~lldq~~~~~~~~~~~~~~~~~~~F~~p~~~~~~~~~G~~~fi~~~~Le--~~~yl~dD~l~I~c~V~  147 (147)
T cd03776          79 ITLTLLDQSEPRQNIHETMMSKPELLAFQRPTTDRNPKGFGYVEFAHIEDLL--QRGFVKNDTLLIKIEVN  147 (147)
T ss_pred             eEEEEECCCcccCccEEEEEcCCChHhhcCCCcCCCCCCeeEceeeEHHHhh--hCCCccCCEEEEEEEEC
Confidence            9999999987433211  000112345653     24679999999999998  57899999999999984

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

>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=99.94  E-value=5e-26  Score=174.32  Aligned_cols=126  Identities=22%  Similarity=0.436  Sum_probs=102.7

Q ss_pred             CCceEEEEEcCccccccccCCeeEeccEEECCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEEEEEEEEEE
Q 024960           14 PPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVYYKLFV   93 (260)
Q Consensus        14 ~~g~~~w~I~~fs~~~~~~~~~~~S~~F~~gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v~~~~~~~l   93 (260)
                      +.++++|+|.|||.+++ .++.+.|++|.+|||+|+|.+||+|.. ++..+|||+||.+.+..    . |.+.++|+|+|
T Consensus         3 ~~~~~~~~I~~fS~~~~-~~~~~~S~~F~vgG~~W~i~~yP~G~~-~~~~~~lSl~L~l~~~~----~-~~~~~~~~l~l   75 (132)
T cd03773           3 PYDSATFTLENFSTLRQ-SADPVYSDPLNVDGLCWRLKVYPDGNG-EVRGNFLSVFLELCSGL----G-EASKYEYRVEM   75 (132)
T ss_pred             CCcccEEEECChhhhhc-CCcceeCCCeEeCCccEEEEEECCCCC-CCCCCEEEEEEEeecCC----C-CceeEEEEEEE
Confidence            56789999999999854 257899999999999999999999976 34568999999997642    2 67889999999


Q ss_pred             EeCcCCceeEEeccCCCceeccCCCCCcccccccccccccCCCCCceeC--CEEEEEEEEE
Q 024960           94 YDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEPSNGYLVD--DTCAFGAEVY  152 (260)
Q Consensus        94 ~n~~~~~~~~~~~~~~~~~~F~~~~~~~G~~~Fi~~~~L~~~~~~yl~d--D~l~i~~~V~  152 (260)
                      +||.++......   ...+.|.. ..+|||.+||++++|+  ++|||+|  |+|+|+|.|+
T Consensus        76 lnq~~~~~~~~~---~~~~~f~~-~~~wG~~~Fi~~~~L~--~~gfl~~~~D~l~i~~~v~  130 (132)
T cd03773          76 VHQANPTKNIKR---EFASDFEV-GECWGYNRFFRLDLLI--NEGYLLPENDTLILRFSVR  130 (132)
T ss_pred             EcCCCCccceEE---eccccccC-CCCcCHHHhccHHHHh--hCCCcCCCCCEEEEEEEEe
Confidence            999543332222   24567765 4679999999999998  5899999  9999999986

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=99.94  E-value=3.8e-26  Score=178.58  Aligned_cols=133  Identities=23%  Similarity=0.371  Sum_probs=103.0

Q ss_pred             ceEEEEEcCccccccc----cCCeeEeccEEEC--CeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCC-CCCCcEEEEE
Q 024960           16 ADYSLKIESFKLLSKS----TVESFESGVFKSG--GYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPH-PDGTWNVNVY   88 (260)
Q Consensus        16 g~~~w~I~~fs~~~~~----~~~~~~S~~F~~g--g~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~-~~~~w~v~~~   88 (260)
                      |+|+|+|+|||++++.    .++.++|++|.+|  ||+|+|++||+|.. ++..+||||||++.++... ..+ |+++|+
T Consensus         1 g~~~w~I~~fs~~~~~~~~~~~~~~~S~~F~vg~~G~~w~i~~yP~G~~-~~~~~~lsl~L~l~~~~~d~~~~-w~~~~~   78 (149)
T cd00270           1 GVLIWKIKDYSRKLQEAVAGSNTVLYSPPFYTSRYGYKLCLRLYLNGDG-TGKGTHLSLFVHVMKGEYDALLE-WPFRGK   78 (149)
T ss_pred             CEEEEEECCHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEeCCCC-CCCCCEEEEEEEEeccCCCcccc-CCccce
Confidence            6899999999998651    2578999999999  99999999999985 3346799999999876432 234 999999


Q ss_pred             EEEEEEeCcCC--ceeEEec--cCCCceecc-----CCCCCcccccccccccccCCCCCceeCCEEEEEEEEE
Q 024960           89 YKLFVYDQVSN--QYLVVQD--AKAPMRRFD-----RRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVY  152 (260)
Q Consensus        89 ~~~~l~n~~~~--~~~~~~~--~~~~~~~F~-----~~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~  152 (260)
                      |+|.|+||.++  .......  .......|.     ....+|||.+||++++|+  +.+||+||+|+|+|+|.
T Consensus        79 ~~~~l~d~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~G~~~fi~~~~L~--~~gfl~dD~l~I~~~v~  149 (149)
T cd00270          79 ITLTLLDQSDDSKRKHITETFMPDPNSSAFQRPPTGENNIGFGYPEFVPLEKLE--SRGYVKDDTLFIKVEVD  149 (149)
T ss_pred             EEEEEECCCCccccCceEEEEEcCCchHhhcCCCcccCCCCcCcceEeEHHHhc--cCCCEeCCEEEEEEEEC
Confidence            99999999874  1111000  001223454     135789999999999998  46899999999999983

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

>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=99.94  E-value=7.9e-26  Score=181.29  Aligned_cols=138  Identities=22%  Similarity=0.252  Sum_probs=106.5

Q ss_pred             cCCCceEEEEEcCccccccc--cCC--eeEeccEEEC--CeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEE
Q 024960           12 SLPPADYSLKIESFKLLSKS--TVE--SFESGVFKSG--GYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNV   85 (260)
Q Consensus        12 ~~~~g~~~w~I~~fs~~~~~--~~~--~~~S~~F~~g--g~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v   85 (260)
                      ....|+|.|+|.|||.+++.  .|+  .+.||+|.+|  ||+|+|++||||.. .+..+|+|+||.+++++..+...|++
T Consensus        35 ~~~~G~hvwkI~~yS~~~~~~~~g~~~~i~S~~Fyvg~~GY~w~i~~ypnG~g-~~~~~~iSvyl~L~~ge~D~~L~WP~  113 (186)
T cd03777          35 ASYNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDG-MGKGTHLSLFFVIMRGEYDALLPWPF  113 (186)
T ss_pred             cccceEEEEEECChhHHHHhhccCCCcEEECCCeEeCCCCeeEEEEEEcCCCC-CCCCCEEEEEEEEecCCcccccCCce
Confidence            34579999999999998642  244  7999999999  99999999999987 34578999999999865322112999


Q ss_pred             EEEEEEEEEeCcCCceeEEec--cCCCceecc-CC---CCCcccccccccccccCCCCCceeCCEEEEEEEEE
Q 024960           86 NVYYKLFVYDQVSNQYLVVQD--AKAPMRRFD-RR---KTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVY  152 (260)
Q Consensus        86 ~~~~~~~l~n~~~~~~~~~~~--~~~~~~~F~-~~---~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~  152 (260)
                      .++++|.|+||.+........  .......|. +.   +..||+.+||++++|+  +++||+||+|+|+|.|.
T Consensus       114 ~~~~tfsLlDQ~~~~~~~~~~~~p~p~~~~F~rp~~~~n~~~G~~~Fi~~~~Le--~~~ylkdD~l~Irv~v~  184 (186)
T cd03777         114 KQKVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMNIASGCPVFVAQTVLE--NGTYIKDDTIFIKVIVD  184 (186)
T ss_pred             eEEEEEEEEcCCCccccccceeccCCccccccCCccCCCCCCCchheeEHHHhc--cCCcEeCCEEEEEEEEe
Confidence            999999999997532111100  011234575 22   4579999999999999  68899999999999886

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

>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=99.94  E-value=8.5e-26  Score=177.22  Aligned_cols=133  Identities=19%  Similarity=0.332  Sum_probs=103.6

Q ss_pred             ceEEEEEcCccccccc--c--CCeeEeccEEEC--CeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCC-CCCcEEEEE
Q 024960           16 ADYSLKIESFKLLSKS--T--VESFESGVFKSG--GYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHP-DGTWNVNVY   88 (260)
Q Consensus        16 g~~~w~I~~fs~~~~~--~--~~~~~S~~F~~g--g~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~-~~~w~v~~~   88 (260)
                      |+|.|+|+|||.+++.  .  ++.+.|++|.+|  ||+|+|++||||.. ++..+|+|+||++++++... .. |+++++
T Consensus         1 g~~~~~I~gys~~~~~~~~~~~~~i~S~~F~vg~~Gy~w~i~~yPnG~~-~~~~~~vs~~l~l~~ge~d~~l~-wp~~a~   78 (154)
T cd03781           1 GTLLWKITDYSRKLQEAKGRDNLELFSPPFYTHRYGYKLQVSAFLNGNG-SGEGSHLSVYIRVLPGEYDNLLE-WPFSHR   78 (154)
T ss_pred             CEEEEEECCHHHHHHHhhcCCCceEECCCeecCCCCEEEEEEEECCCCC-CCCCCEEEEEEEEecCCcccccC-CceeeE
Confidence            7899999999998752  2  578999999999  99999999999987 34568999999999864322 24 999999


Q ss_pred             EEEEEEeCcCCc--ee-EEec---cCCCceeccC--------CCCCcccccccccccccCCCCCceeCCEEEEEEEEE
Q 024960           89 YKLFVYDQVSNQ--YL-VVQD---AKAPMRRFDR--------RKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVY  152 (260)
Q Consensus        89 ~~~~l~n~~~~~--~~-~~~~---~~~~~~~F~~--------~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~  152 (260)
                      ++|+|+||.+..  .. ....   .......|..        .+.+||+.+||++++|+  .++||+||+|+|+|+|.
T Consensus        79 ~~~~llDq~~~~~~~~~~~~~~~~~~~~~~~F~rp~~~~~~~~~~~~G~~~fi~~~~Le--~~~yl~dD~l~Irc~v~  154 (154)
T cd03781          79 ITFTLLDQSDPSLSKPQHITETFTPDPTWKNFQKPSASRLDESTLGFGYPKFISHEDLK--KRNYIKDDAIFLRASVE  154 (154)
T ss_pred             EEEEEECCCCCccccCcceEEEEEcCCchhhhcCCcccccCCCCCccchhHeeEHHHHh--hCCcccCCEEEEEEEeC
Confidence            999999998741  10 0000   0012344542        34579999999999999  57899999999999983

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

>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=99.93  E-value=1.3e-25  Score=173.29  Aligned_cols=135  Identities=21%  Similarity=0.299  Sum_probs=102.3

Q ss_pred             ceEEEEEcCccccccc--cC--CeeEeccEEEC--CeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEEEEEE
Q 024960           16 ADYSLKIESFKLLSKS--TV--ESFESGVFKSG--GYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVYY   89 (260)
Q Consensus        16 g~~~w~I~~fs~~~~~--~~--~~~~S~~F~~g--g~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v~~~~   89 (260)
                      |+++|+|.||++..+.  .+  ..++||+|..+  ||+|+|++||||.. .+..+|+|+||.+++++..+...|++++++
T Consensus         1 g~~~W~i~~f~~~~~~a~~~~~~~~~S~~Fyt~~~Gy~w~i~~ypnG~~-~~~~~~iSv~l~l~~g~~D~~l~wpv~~~~   79 (147)
T cd03779           1 GTFLWKITDVSQKQRESSHGRDVSLCSPAFYTAKYGYKVCLRLYLNGDG-AGKGTHISLFFVIMKGEYDALLPWPFRHKV   79 (147)
T ss_pred             CeEEEEECcHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEcCCCC-CCCCCEEEEEEEEecCCcccccCcceEEEE
Confidence            6899999999976542  22  47999999875  99999999999987 345789999999997642211129999999


Q ss_pred             EEEEEeCcCCceeEE-eccCCCceecc----CCCCCcccccccccccccCCCCCceeCCEEEEEEEE
Q 024960           90 KLFVYDQVSNQYLVV-QDAKAPMRRFD----RRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEV  151 (260)
Q Consensus        90 ~~~l~n~~~~~~~~~-~~~~~~~~~F~----~~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V  151 (260)
                      +|.|+||.+...... .........|.    ..+..||+.+||++++|+....+||+||+++|+|+|
T Consensus        80 tfsLlDq~~~~~~~~~~~~~~~~~~F~rP~~~~n~~~G~~~Fi~~~~Le~s~~~ylkDD~~~Irc~V  146 (147)
T cd03779          80 TFMLLDQNNREHVIDAFRPDLSSASFQRPVSDMNVASGCPLFFPLKKLQSPKHAYCKDDTIYIKCVV  146 (147)
T ss_pred             EEEEECCCCCCCCcEeecCCcccccccCcccCCCCCcchhheeEHHHhcccCCCcEeCCEEEEEEEE
Confidence            999999986543221 11000135686    344579999999999998322399999999999998

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

>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=99.92  E-value=2.2e-24  Score=169.48  Aligned_cols=132  Identities=17%  Similarity=0.305  Sum_probs=100.1

Q ss_pred             CceEEEEEcCccccc-cc-cCCeeEeccE-EECCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCC-CCCcE-EEEEE
Q 024960           15 PADYSLKIESFKLLS-KS-TVESFESGVF-KSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHP-DGTWN-VNVYY   89 (260)
Q Consensus        15 ~g~~~w~I~~fs~~~-~~-~~~~~~S~~F-~~gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~-~~~w~-v~~~~   89 (260)
                      +.+|+|+|.|||.++ +. .++.++||+| .+|||+|+|++||+|...  ..+||||||++++++..+ .+ |+ +.+++
T Consensus         1 cp~hvwkI~~yS~~~~~~~~g~~i~S~~FysvgGy~w~I~~YPnG~~~--~~~~lSlyL~L~~g~~d~~L~-WP~v~a~~   77 (167)
T cd03771           1 CPEAVWRVRNFSQLLETTPKGTKIYSPRFYSPEGYAFQVGLYPNGTES--YPGYTGLYFHLCSGENDDVLE-WPCPNRQA   77 (167)
T ss_pred             CCeEEEEEcCchhhhhcCCCCCEEECCCCCccCCeEEEEEEEeCCCCC--CCCcceEEEEEecCCcccccc-CcceeEEE
Confidence            468999999999996 33 3678999998 999999999999999873  568999999998764432 34 99 58999


Q ss_pred             EEEEEeCcCC------ceeEEeccCCC-------ceeccC-----------------CCCCcccccccccccccCCCCCc
Q 024960           90 KLFVYDQVSN------QYLVVQDAKAP-------MRRFDR-----------------RKTDWGFGKFLDLATFNEPSNGY  139 (260)
Q Consensus        90 ~~~l~n~~~~------~~~~~~~~~~~-------~~~F~~-----------------~~~~~G~~~Fi~~~~L~~~~~~y  139 (260)
                      +|+|+||...      ....... +..       ...|.+                 ++.+|||..||++++|+  ..+|
T Consensus        78 t~~LlDQ~~~~~~r~~~~~~~~~-dp~~~~~~~~~~~~~rP~~~~~~~~~~~~~~~~~~~g~G~~~Fis~~~L~--~r~y  154 (167)
T cd03771          78 TMTLLDQDPDIQQRMSNQRSFTT-DPSMTSSDNGEYFWDRPSKVGSYDTDTNGCTCYRGPGYGWSTFISHSRLR--RRDF  154 (167)
T ss_pred             EEEEECCCCcccccCcceEEEec-CCcccccccccccccCCccccccccccccccccccCccccccceeHHHhc--cCCC
Confidence            9999999731      1111111 000       011221                 23589999999999999  4679


Q ss_pred             eeCCEEEEEEEEE
Q 024960          140 LVDDTCAFGAEVY  152 (260)
Q Consensus       140 l~dD~l~i~~~V~  152 (260)
                      |+||+|.|+++++
T Consensus       155 lk~dtl~i~~~~~  167 (167)
T cd03771         155 LKGDDLIILLDFE  167 (167)
T ss_pred             CcCCEEEEEEEeC
Confidence            9999999999873

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

>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=7.3e-23  Score=159.69  Aligned_cols=136  Identities=22%  Similarity=0.304  Sum_probs=104.7

Q ss_pred             CCCceEEEEEcCccccccc--c--CCeeEeccEEE--CCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCC-CCCcEE
Q 024960           13 LPPADYSLKIESFKLLSKS--T--VESFESGVFKS--GGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHP-DGTWNV   85 (260)
Q Consensus        13 ~~~g~~~w~I~~fs~~~~~--~--~~~~~S~~F~~--gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~-~~~w~v   85 (260)
                      ...|+|+|+|.||+++.+.  .  ...++||+|..  +||+|+|++||||.+. +.+.|||+|+++++++.++ .+ |++
T Consensus        16 ~~~g~fiWkI~~fs~~~~~a~~~~~~~i~Sp~Fyt~~~GYk~~l~~ylnG~g~-~~g~~LSly~~l~~Ge~D~~L~-WPf   93 (164)
T cd03778          16 TYDGVFIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGT-GRGTHLSLFFVVMKGPNDALLR-WPF   93 (164)
T ss_pred             ccCCEEEEEECcHHHHHHHHhcCCCceEECCCcccCCCCeEEEEEEEeCCCCC-CCCCEEEEEEEEecCCcCcccC-Cce
Confidence            4579999999999998653  2  24799999975  5899999999999873 3457999999999987655 45 999


Q ss_pred             EEEEEEEEEeCcCCceeEEe-ccCCCceecc----CCCCCcccccccccccccCCCCCceeCCEEEEEEEE
Q 024960           86 NVYYKLFVYDQVSNQYLVVQ-DAKAPMRRFD----RRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEV  151 (260)
Q Consensus        86 ~~~~~~~l~n~~~~~~~~~~-~~~~~~~~F~----~~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V  151 (260)
                      ..+++|+|+||.+....... ..+.....|.    ..+.+|||..|+++++|..+ .+||+||+|.|+|.|
T Consensus        94 ~~~itl~llDQ~~r~hi~~~~~pd~~~~~f~RP~~~~n~~~G~~~Fv~l~~l~~~-~~Yv~dDtlfIk~~V  163 (164)
T cd03778          94 NQKVTLMLLDQNNREHVIDAFRPDVTSSSFQRPVNDMNIASGCPLFCPVSKXEAK-NSYVRDDAIFIKAIV  163 (164)
T ss_pred             eeEEEEEEECCCCCCcceeEEEcCcchHhcCCCCcccccCcCcceEEEhhHcccc-CCcccCCeEEEEEEE
Confidence            99999999999864332210 0011112352    24567999999999999843 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

>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=99.89  E-value=4.8e-22  Score=149.80  Aligned_cols=125  Identities=33%  Similarity=0.590  Sum_probs=99.8

Q ss_pred             ceEEEEEcCccccccccCCeeEeccEEECCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEEEEEEEEEEEe
Q 024960           16 ADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVYYKLFVYD   95 (260)
Q Consensus        16 g~~~w~I~~fs~~~~~~~~~~~S~~F~~gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v~~~~~~~l~n   95 (260)
                      ++|+|+|.+|+..   .++.++|+.|.++|++|+|.+||+|...  ..++|||||.|.+....... |.+.++|+|+|+|
T Consensus         1 ~~~~~~i~~~~~~---~~~~~~S~~f~~~g~~W~l~~~p~~~~~--~~~~lsv~L~~~~~~~~~~~-~~~~~~~~~~l~~   74 (126)
T cd00121           1 GKHTWKIVNFSEL---EGESIYSPPFEVGGYKWRIRIYPNGDGE--SGDYLSLYLELDKGESDLEK-WSVRAEFTLKLVN   74 (126)
T ss_pred             CEEEEEECCCCCC---CCcEEECCCEEEcCEeEEEEEEcCCCCC--CCCEEEEEEEecCCCCCCCC-CcEEEEEEEEEEC
Confidence            4799999999982   2478999999999999999999999752  46899999999876543344 9999999999999


Q ss_pred             CcCCceeEEeccCCCceecc-CCCCCcccccccccccccCCCCCceeCCEEEEEEEEE
Q 024960           96 QVSNQYLVVQDAKAPMRRFD-RRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVY  152 (260)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~F~-~~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~  152 (260)
                      +++.+.....    ....|. ....+|||.+||++++|++  ..++.||+|+|+|+|.
T Consensus        75 ~~~~~~~~~~----~~~~~~~~~~~~~G~~~fi~~~~l~~--~~~~~~d~l~i~~~v~  126 (126)
T cd00121          75 QNGGKSLSKS----FTHVFFSEKGSGWGFPKFISWDDLED--SYYLVDDSLTIEVEVK  126 (126)
T ss_pred             CCCCccceEe----ccCCcCCCCCCCCChHHeeEHHHhcc--CCcEECCEEEEEEEEC
Confidence            9844333221    233442 4568999999999999994  3349999999999984

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

>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=99.85  E-value=3.1e-21  Score=144.56  Aligned_cols=118  Identities=28%  Similarity=0.584  Sum_probs=95.5

Q ss_pred             EcCccccccccCCeeEeccEEECCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCC-CCCcEEEEEEEEEEEeCcCCc
Q 024960           22 IESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHP-DGTWNVNVYYKLFVYDQVSNQ  100 (260)
Q Consensus        22 I~~fs~~~~~~~~~~~S~~F~~gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~-~~~w~v~~~~~~~l~n~~~~~  100 (260)
                      |+|||.++.. +..+.|+.|.++|++|+|.+||+|.     .+++++||+|....... .+ |++.+++++.|+++.+..
T Consensus         1 i~nfs~l~~~-~~~~~s~~~~~~g~~W~l~~~~~~~-----~~~l~~~L~~~~~~~~~~~~-w~~~~~~~~~~~~~~~~~   73 (119)
T PF00917_consen    1 IKNFSKLKEG-EEYSSSFVFSHGGYPWRLKVYPKGN-----GKYLSVYLHCDKGENDSDLE-WSIEAEFRFRLLNQNGKS   73 (119)
T ss_dssp             ETTGGGHHTS-EEEEEEEESSTTSEEEEEEEETTES-----TTEEEEEEEEECSTTGGGSS-SSEEEEEEEEEE-TTSCE
T ss_pred             CcccceEeCC-CcEECCCeEEECCEEEEEEEEeCCC-----cCcEEEEEEEeecccccccc-eeeeEEEEEEEecCCCCc
Confidence            7899999732 2345568899999999999999975     47999999999885433 35 999999999999999987


Q ss_pred             eeEEeccCCCceeccCCCCCcccccccccccccCCCCCceeCCEEEEEEEEEE
Q 024960          101 YLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYV  153 (260)
Q Consensus       101 ~~~~~~~~~~~~~F~~~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~v  153 (260)
                      .....    ..+.|... .+|||.+||++++|+++  .||.||+|+|+|+|+|
T Consensus        74 ~~~~~----~~~~F~~~-~~~g~~~fi~~~~l~~~--~fl~dd~l~ie~~v~I  119 (119)
T PF00917_consen   74 ISKRI----KSHSFNNP-SSWGWSSFISWEDLEDP--YFLVDDSLTIEVEVKI  119 (119)
T ss_dssp             EEEEE----ECEEECTT-SEEEEEEEEEHHHHTTC--TTSBTTEEEEEEEEEE
T ss_pred             ceeee----eeeEEeee-cccchhheeEHHHhCcc--CCeECCEEEEEEEEEC
Confidence            43321    24788764 88999999999999943  3899999999999986

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=99.79  E-value=5.6e-19  Score=137.31  Aligned_cols=135  Identities=19%  Similarity=0.358  Sum_probs=100.3

Q ss_pred             CceEEEEEcCccccccc--cCCeeEeccEEE-CCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEE-EEEEE
Q 024960           15 PADYSLKIESFKLLSKS--TVESFESGVFKS-GGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNV-NVYYK   90 (260)
Q Consensus        15 ~g~~~w~I~~fs~~~~~--~~~~~~S~~F~~-gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v-~~~~~   90 (260)
                      +..++|+|.||+++.+.  .+..++||+|.. .||+.+|++||||....+.+.|+|||+++++++.+..-.|++ .-+++
T Consensus         1 cp~~iWkI~nfs~~~~~a~~~~~i~Sp~Fyt~~GYk~~l~~~lng~~~~~~g~~lSl~~~lm~Ge~D~~L~WP~~~~~it   80 (167)
T cd03783           1 CPNAVWRVRNFSQILENTTKGDVLQSPRFYSPEGYGYGVSLYPLSNESDYSGNYTGLYFHLCSGENDAVLEWPALNRQAI   80 (167)
T ss_pred             CCceeEEECcHHHHHHhCcCCCeEECCCCccCCCceEEEEEEecCCCCCCCCCEEEEEEEEecccCCCcccCCCcCCEEE
Confidence            45789999999997653  357899999987 499999999999986334567999999999986544223995 56999


Q ss_pred             EEEEeCcCC---ceeE---Ee-ccCCC------ceeccC--------------CCCCcccccccccccccCCCCCceeCC
Q 024960           91 LFVYDQVSN---QYLV---VQ-DAKAP------MRRFDR--------------RKTDWGFGKFLDLATFNEPSNGYLVDD  143 (260)
Q Consensus        91 ~~l~n~~~~---~~~~---~~-~~~~~------~~~F~~--------------~~~~~G~~~Fi~~~~L~~~~~~yl~dD  143 (260)
                      |+|+||+..   ..+.   .. +....      ...|.+              ++.++||..||++++|+  ..+||+||
T Consensus        81 l~llDQ~~~~~~r~~~~~sf~~d~~~~~~~~~~~~~f~rP~~~~~~~~~~~~~~~~gfG~~~Fish~~L~--~r~yikdD  158 (167)
T cd03783          81 ITVLDQDPDVRLRMSSSRSFTTDKSQTSSAINGTLRWDRPSRVGTYDTSCDCFRGIDFGWSTFISHSQLR--RRSFLKND  158 (167)
T ss_pred             EEEEcCCcchhhccccceeeecCCCcccccccccccccCCcccccccccccccCCcccccccceeHHHHh--hCCcccCC
Confidence            999999742   1111   00 00000      011332              24689999999999999  68999999


Q ss_pred             EEEEEEEE
Q 024960          144 TCAFGAEV  151 (260)
Q Consensus       144 ~l~i~~~V  151 (260)
                      +|.|.+++
T Consensus       159 tlfI~~~~  166 (167)
T cd03783         159 DLIIFVDF  166 (167)
T ss_pred             eEEEEEec
Confidence            99999886

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=99.78  E-value=2.1e-18  Score=133.42  Aligned_cols=133  Identities=17%  Similarity=0.308  Sum_probs=100.6

Q ss_pred             CceEEEEEcCccccccc--cCCeeEeccEEE-CCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEEE-EEEE
Q 024960           15 PADYSLKIESFKLLSKS--TVESFESGVFKS-GGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVN-VYYK   90 (260)
Q Consensus        15 ~g~~~w~I~~fs~~~~~--~~~~~~S~~F~~-gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v~-~~~~   90 (260)
                      +..++|+|.||+++.+.  .+..++||+|.. .||+.++++||||.+.  +.+|||+|+++++++.++.-.|++. -+++
T Consensus         1 cp~~iWkI~~fs~~~~~~~~~~~i~Sp~FYt~~GYkl~l~~ylnG~g~--~~~~lsl~~~lm~Ge~D~~L~WPf~~~qit   78 (167)
T cd03782           1 CPEHIWHIRNFTQLLATTPPNGKIYSPPFLSSTGYSFQVGLYLNGTDD--YPGNLAIYLHLTSGPNDDQLQWPCPWQQAT   78 (167)
T ss_pred             CCcEEEEeCcHHHHHHhcCCCceEECCCCcCccCceeEEEEEecCCCC--CCCEEEEEEEEeccCCCccccCCCcCCeEE
Confidence            45799999999998654  357899999964 6999999999999873  3679999999999865442239999 8999


Q ss_pred             EEEEeCcC---CceeEEe--ccCC----C-ceec--cCC-----------------CCCcccccccccccccCCCCCcee
Q 024960           91 LFVYDQVS---NQYLVVQ--DAKA----P-MRRF--DRR-----------------KTDWGFGKFLDLATFNEPSNGYLV  141 (260)
Q Consensus        91 ~~l~n~~~---~~~~~~~--~~~~----~-~~~F--~~~-----------------~~~~G~~~Fi~~~~L~~~~~~yl~  141 (260)
                      |.|+||+.   ...+...  +.+.    . ...|  .+.                 +.++||+.||++++|+  ++.||+
T Consensus        79 ~~LlDQ~~d~~~r~~~~~~~t~~P~~~s~~n~~f~w~rP~kvg~~~~~~~~~~~~r~~~~G~~~Fish~~L~--~r~yik  156 (167)
T cd03782          79 MMLLDQHPDIRQRMSNQRSVTTDPNMTSTDSDEYFWDDPRKVGSEVTDTDGSTFYRGPGYGTSAFITHLRLR--SRDFIK  156 (167)
T ss_pred             EEEEcCCCchhhccceeeeEEecCCcccccCccceecCCcccCcccccccccccccccccCccceeeHHHHh--hcCccc
Confidence            99999974   2111111  0010    0 1134  211                 5789999999999999  588999


Q ss_pred             CCEEEEEEEE
Q 024960          142 DDTCAFGAEV  151 (260)
Q Consensus       142 dD~l~i~~~V  151 (260)
                      ||++.|-+++
T Consensus       157 dD~ifi~~~~  166 (167)
T cd03782         157 GDDVIFLLTM  166 (167)
T ss_pred             CCeEEEEEec
Confidence            9999998876

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=99.75  E-value=1.8e-17  Score=118.93  Aligned_cols=94  Identities=23%  Similarity=0.441  Sum_probs=78.3

Q ss_pred             EEEEEcCccccccccCCeeEeccEEECCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEEEEEEEEEEEeCc
Q 024960           18 YSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQV   97 (260)
Q Consensus        18 ~~w~I~~fs~~~~~~~~~~~S~~F~~gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v~~~~~~~l~n~~   97 (260)
                      ++|.|+||+.+..  ++.+.|++|.++|++|+|.+||+       .+|||+||.|.+....+.. |++.|+++|.|+|++
T Consensus         2 ~~~~~~~~~~~~~--~~~~~S~~f~~~g~~W~i~~~p~-------~~~lsl~L~~~~~~~~~~~-w~v~a~~~~~l~~~~   71 (95)
T smart00061        2 LSHTFKNVSRLEE--GESYFSPSEEHFNIPWRLKIYRK-------NGFLSLYLHCEKEECDSRK-WSIEAEFTLKLVSQN   71 (95)
T ss_pred             ceeEEEchhhccc--CceEeCChhEEcCceeEEEEEEc-------CCEEEEEEEeCCCcCCCCC-eEEEEEEEEEEEeCC
Confidence            5799999999843  47899999999999999999998       3699999999876544445 999999999999999


Q ss_pred             CCceeEEeccCCCceeccCCCCCccccccc
Q 024960           98 SNQYLVVQDAKAPMRRFDRRKTDWGFGKFL  127 (260)
Q Consensus        98 ~~~~~~~~~~~~~~~~F~~~~~~~G~~~Fi  127 (260)
                      ++....     ...+.|.. ..+|||.+||
T Consensus        72 ~~~~~~-----~~~~~F~~-~~~~G~~~fi   95 (95)
T smart00061       72 GKSLSK-----KDKHVFEK-PSGWGFSKFI   95 (95)
T ss_pred             CCEEee-----eeeEEEcC-CCccceeeEC
Confidence            876522     25678876 6889999886

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

Probab=99.70  E-value=1.6e-16  Score=121.92  Aligned_cols=76  Identities=17%  Similarity=0.394  Sum_probs=66.1

Q ss_pred             ceEEEeCCccCcCCceeecCceEeCCeEEEEEEEcCCCCCCCCCeEEEEEEecCCcc----CCCCCcEEEEEEEEEecCC
Q 024960          173 NYRFNIPAFGSVGDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQT----VSRKKPVYAEFKFKIPNQY  248 (260)
Q Consensus       173 ~~~~~i~~fs~l~~~~~~s~~f~vgg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~----~~~~~~~~~~f~l~l~~q~  248 (260)
                      +|+|+|.+||.+. +.+.|++|.||||+|+|.+||+|+..  .+|+|+||.+.+.+.    ++++|.++|+|+|+|+||.
T Consensus         2 ~f~w~I~~fS~~~-~~~~S~~F~vGG~~W~l~~yP~G~~~--~~~iSlyL~l~~~~~~~~~~~~~~~v~a~f~~~l~n~~   78 (134)
T cd03775           2 SFTWRIKNWSELE-KKVHSPKFKCGGFEWRILLFPQGNSQ--TGGVSIYLEPHPEEEEKAPLDEDWSVCAQFALVISNPG   78 (134)
T ss_pred             cEEEEECCcccCC-cceeCCCEEECCeeEEEEEeCCCCCC--CCeEEEEEEecCcccccccCCCCCeEEEEEEEEEEcCC
Confidence            4899999999964 78899999999999999999999876  689999999976544    3568889999999999997


Q ss_pred             CCC
Q 024960          249 SRN  251 (260)
Q Consensus       249 ~~~  251 (260)
                      ++.
T Consensus        79 ~~~   81 (134)
T cd03775          79 DPS   81 (134)
T ss_pred             CCc
Confidence            544

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.

>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=99.65  E-value=1.1e-15  Score=116.96  Aligned_cols=77  Identities=29%  Similarity=0.490  Sum_probs=66.7

Q ss_pred             CCCcceEEEeCCccCcCC--ceeecCceEeCCeEEEEEEEcCCCCCCCCCeEEEEEEecCCccCCCCCcEEEEEEEEEec
Q 024960          169 PADGNYRFNIPAFGSVGD--TVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKIPN  246 (260)
Q Consensus       169 p~~~~~~~~i~~fs~l~~--~~~~s~~f~vgg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~~~~~~~~~f~l~l~~  246 (260)
                      |+..+++|+|.+||.+.+  +.+.|++|.||||+|+|.+||+|+..+.++|||+||++.+.    ..+.+.++|+|+|+|
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            788889999999999853  57899999999999999999999887667899999998763    235688899999999


Q ss_pred             CCC
Q 024960          247 QYS  249 (260)
Q Consensus       247 q~~  249 (260)
                      |.+
T Consensus        78 q~~   80 (132)
T cd03773          78 QAN   80 (132)
T ss_pred             CCC
Confidence            953

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

>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=99.62  E-value=2.3e-15  Score=118.44  Aligned_cols=76  Identities=14%  Similarity=0.205  Sum_probs=66.3

Q ss_pred             cceEEEeCCccCcCC-----ceeecCce-EeCCeEEEEEEEcCCCCCCCCCeEEEEEEecCCccC-CCCCc-EEEEEEEE
Q 024960          172 GNYRFNIPAFGSVGD-----TVQRSSEF-TVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTV-SRKKP-VYAEFKFK  243 (260)
Q Consensus       172 ~~~~~~i~~fs~l~~-----~~~~s~~f-~vgg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~-~~~~~-~~~~f~l~  243 (260)
                      +.|+|+|.+|+.+++     ..+.|++| .||||+|+|.+||||+.. .++||||||++.+++.. ...|+ +.++|+|+
T Consensus         2 p~hvwkI~~yS~~~~~~~~g~~i~S~~FysvgGy~w~I~~YPnG~~~-~~~~lSlyL~L~~g~~d~~L~WP~v~a~~t~~   80 (167)
T cd03771           2 PEAVWRVRNFSQLLETTPKGTKIYSPRFYSPEGYAFQVGLYPNGTES-YPGYTGLYFHLCSGENDDVLEWPCPNRQATMT   80 (167)
T ss_pred             CeEEEEEcCchhhhhcCCCCCEEECCCCCccCCeEEEEEEEeCCCCC-CCCcceEEEEEecCCccccccCcceeEEEEEE
Confidence            569999999999862     26889998 999999999999999988 78999999999877644 45889 58999999


Q ss_pred             EecCC
Q 024960          244 IPNQY  248 (260)
Q Consensus       244 l~~q~  248 (260)
                      ||||.
T Consensus        81 LlDQ~   85 (167)
T cd03771          81 LLDQD   85 (167)
T ss_pred             EECCC
Confidence            99996

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

>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=99.61  E-value=2.5e-15  Score=116.54  Aligned_cols=77  Identities=13%  Similarity=0.154  Sum_probs=67.8

Q ss_pred             ceEEEeCCccCcCC-----c--eeecCce--EeCCeEEEEEEEcCCCCCCCCCeEEEEEEecCCccCC-CCCcEEEEEEE
Q 024960          173 NYRFNIPAFGSVGD-----T--VQRSSEF--TVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVS-RKKPVYAEFKF  242 (260)
Q Consensus       173 ~~~~~i~~fs~l~~-----~--~~~s~~f--~vgg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~-~~~~~~~~f~l  242 (260)
                      .|.|+|.+|+.+++     +  .+.|+.|  .++||+|+|.+||||.+.+.++|+|+||++..++.++ ..|++.++|+|
T Consensus         2 ~~vwkI~~ys~~~~~~~~g~~~~i~S~~Fyt~~~Gy~w~i~~ypnG~~~~~~~~iSv~l~l~~g~~D~~l~wp~~~~~tf   81 (148)
T cd03780           2 KLIWKVTDYKMKKKEAVDGHTVSIFSQPFYTSRCGYRLCARAYLNGDGSGKGTHLSLYFVVMRGEFDSLLQWPFRQRVTL   81 (148)
T ss_pred             EEEEEECCHHHHHHhhcCCCccEEECCCcccCCCCeeEEEEEEcCCCCCCCCCEEEEEEEEecCccccccCcceEEEEEE
Confidence            58999999998862     2  5889999  9999999999999999988889999999998876554 47899999999


Q ss_pred             EEecCCC
Q 024960          243 KIPNQYS  249 (260)
Q Consensus       243 ~l~~q~~  249 (260)
                      +|+||.+
T Consensus        82 sLlDq~~   88 (148)
T cd03780          82 MLLDQSG   88 (148)
T ss_pred             EEECCCC
Confidence            9999964

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

>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=99.60  E-value=9.9e-15  Score=112.35  Aligned_cols=76  Identities=16%  Similarity=0.195  Sum_probs=64.9

Q ss_pred             cceEEEeCCccCcCCceeecCceEeCCeEEEEEEEcCCCCC--CCCCeEEEEEEecCCccCCCCCcEEEEEEEEEecCCC
Q 024960          172 GNYRFNIPAFGSVGDTVQRSSEFTVGERNWQLVVYPAGSGA--DRGNFLTVSLKLADYQTVSRKKPVYAEFKFKIPNQYS  249 (260)
Q Consensus       172 ~~~~~~i~~fs~l~~~~~~s~~f~vgg~~w~l~~~p~G~~~--~~~~~~s~yL~~~~~~~~~~~~~~~~~f~l~l~~q~~  249 (260)
                      .+|+|+|.+|+.+ .+.+.|++|.|||++|+|.+||+|+..  +..+|+|+||.|.+. .....|.+.|+|+|+|+||.+
T Consensus         3 ~~~~~~I~~~S~l-~e~~~S~~f~vgG~~W~i~~~P~g~~~~~~~~~~lsvyL~~~~~-~~~~~w~i~a~~~~~l~~~~~   80 (137)
T cd03772           3 ATFSFTVERFSRL-SESVLSPPCFVRNLPWKIMVMPRNYPDRNPHQKSVGFFLQCNAE-SDSTSWSCHAQAVLRIINYKD   80 (137)
T ss_pred             cEEEEEECCcccC-CCcEECCCEEECCcceEEEEEeCCCCCCCCCCCeEEEEEeeCCc-CCCCCCeEEEEEEEEEEcCCC
Confidence            5699999999998 467899999999999999999999654  235799999999654 333489999999999999974

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

>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=99.60  E-value=2.4e-15  Score=117.38  Aligned_cols=78  Identities=17%  Similarity=0.218  Sum_probs=67.6

Q ss_pred             ceEEEeCCccCcCC-------ceeecCceEeC--CeEEEEEEEcCCCCCCCCCeEEEEEEecCCccC-CCCCcEEEEEEE
Q 024960          173 NYRFNIPAFGSVGD-------TVQRSSEFTVG--ERNWQLVVYPAGSGADRGNFLTVSLKLADYQTV-SRKKPVYAEFKF  242 (260)
Q Consensus       173 ~~~~~i~~fs~l~~-------~~~~s~~f~vg--g~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~-~~~~~~~~~f~l  242 (260)
                      .|+|+|.+|+.++.       +.+.|+.|.||  ||+|+|.+||+|+..+.++|||+||++.+++.. ...|++.|+|+|
T Consensus         2 ~~~w~I~~fs~~~~~~~~~~~~~~~S~~F~vg~~G~~w~i~~yP~G~~~~~~~~lsl~L~l~~~~~d~~~~w~~~~~~~~   81 (149)
T cd00270           2 VLIWKIKDYSRKLQEAVAGSNTVLYSPPFYTSRYGYKLCLRLYLNGDGTGKGTHLSLFVHVMKGEYDALLEWPFRGKITL   81 (149)
T ss_pred             EEEEEECCHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEeCCCCCCCCCEEEEEEEEeccCCCccccCCccceEEE
Confidence            58999999999752       36899999999  999999999999877667899999999876543 457999999999


Q ss_pred             EEecCCCC
Q 024960          243 KIPNQYSR  250 (260)
Q Consensus       243 ~l~~q~~~  250 (260)
                      +|+||.++
T Consensus        82 ~l~d~~~~   89 (149)
T cd00270          82 TLLDQSDD   89 (149)
T ss_pred             EEECCCCc
Confidence            99999873

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

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

Probab=99.59  E-value=1.6e-15  Score=139.30  Aligned_cols=136  Identities=26%  Similarity=0.534  Sum_probs=109.8

Q ss_pred             cCCCceEEEEEcCccccccccCCeeEeccEEECCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCC-CCCCC-CcEEEEEE
Q 024960           12 SLPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSN-PHPDG-TWNVNVYY   89 (260)
Q Consensus        12 ~~~~g~~~w~I~~fs~~~~~~~~~~~S~~F~~gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~-~~~~~-~w~v~~~~   89 (260)
                      +....+++|+|++|+.+.+    ...||+|.+||+.|+|.++|+|+..    ..+||||+....+ ....+ .|.|+|+|
T Consensus        35 e~~~~sftW~vk~wsel~~----k~~Sp~F~vg~~twki~lfPqG~nq----~~~sVyLe~~pqe~e~~~gk~~~ccaqF  106 (1089)
T COG5077          35 ELLEMSFTWKVKRWSELAK----KVESPPFSVGGHTWKIILFPQGNNQ----CNVSVYLEYEPQELEETGGKYYDCCAQF  106 (1089)
T ss_pred             HHhhcccceecCChhhhhh----hccCCcccccCeeEEEEEecccCCc----cccEEEEEeccchhhhhcCcchhhhhhe
Confidence            3456689999999999964    5889999999999999999999862    2389999987543 11122 29999999


Q ss_pred             EEEEEeCcCCceeEEeccCCCceeccCCCCCcccccccccccccCCCCC---ceeCCEEEEEEEEEEecCCC
Q 024960           90 KLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEPSNG---YLVDDTCAFGAEVYVVKPTD  158 (260)
Q Consensus        90 ~~~l~n~~~~~~~~~~~~~~~~~~F~~~~~~~G~~~Fi~~~~L~~~~~~---yl~dD~l~i~~~V~v~~~~~  158 (260)
                      .|.|-|...+......   ++.++|+....+|||.+|+.+..|..|+.|   |+.+|++.|++.|+|++++.
T Consensus       107 af~Is~p~~pti~~iN---~sHhrFs~~~tDwGFt~f~dL~kl~~psp~~Ppfleeg~l~ItvyVRvlkdPT  175 (1089)
T COG5077         107 AFDISNPKYPTIEYIN---KSHHRFSMESTDWGFTNFIDLNKLIEPSPGRPPFLEEGTLVITVYVRVLKDPT  175 (1089)
T ss_pred             eeecCCCCCCchhhhh---cccccccccccccchhhhhhhhhhcCCCCCCCCcccCCeEEEEEEEEEEeCCc
Confidence            9999888764433322   367899998899999999999998876655   78999999999999999864

>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=99.58  E-value=1.1e-14  Score=116.95  Aligned_cols=79  Identities=18%  Similarity=0.215  Sum_probs=69.2

Q ss_pred             CcceEEEeCCccCcCC-----c--eeecCceEeC--CeEEEEEEEcCCCCCCCCCeEEEEEEecCCccCC-CCCcEEEEE
Q 024960          171 DGNYRFNIPAFGSVGD-----T--VQRSSEFTVG--ERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVS-RKKPVYAEF  240 (260)
Q Consensus       171 ~~~~~~~i~~fs~l~~-----~--~~~s~~f~vg--g~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~-~~~~~~~~f  240 (260)
                      .+.|.|+|.+|+.+++     +  .+.|+.|.+|  ||+|+|.+||||++.+.++|+|+||++..++..+ ..|++.++|
T Consensus        38 ~G~hvwkI~~yS~~~~~~~~g~~~~i~S~~Fyvg~~GY~w~i~~ypnG~g~~~~~~iSvyl~L~~ge~D~~L~WP~~~~~  117 (186)
T cd03777          38 NGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDGMGKGTHLSLFFVIMRGEYDALLPWPFKQKV  117 (186)
T ss_pred             ceEEEEEECChhHHHHhhccCCCcEEECCCeEeCCCCeeEEEEEEcCCCCCCCCCEEEEEEEEecCCcccccCCceeEEE
Confidence            5789999999998752     2  5899999999  9999999999999988889999999999876443 479999999


Q ss_pred             EEEEecCCC
Q 024960          241 KFKIPNQYS  249 (260)
Q Consensus       241 ~l~l~~q~~  249 (260)
                      +|+|+||.+
T Consensus       118 tfsLlDQ~~  126 (186)
T cd03777         118 TLMLMDQGS  126 (186)
T ss_pred             EEEEEcCCC
Confidence            999999964

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

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

Probab=99.58  E-value=1.5e-14  Score=111.68  Aligned_cols=76  Identities=32%  Similarity=0.490  Sum_probs=64.4

Q ss_pred             cceEEEeCCccCcC---CceeecCceEeCCe---EEEEEEEcCCCCCCCCCeEEEEEEecCCccCCCCCcEEEEEEEEEe
Q 024960          172 GNYRFNIPAFGSVG---DTVQRSSEFTVGER---NWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKIP  245 (260)
Q Consensus       172 ~~~~~~i~~fs~l~---~~~~~s~~f~vgg~---~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~~~~~~~~~f~l~l~  245 (260)
                      .+|+|+|.+||.+.   .+.+.|++|.|||+   +|+|.+||+|+..+..+|+|+||++.+.    ..++++|+|+|+|+
T Consensus         5 ~~~~w~I~~fS~~~~~~~~~i~S~~F~vgg~~~~~W~l~~yP~G~~~~~~~~iSlyL~l~~~----~~~~v~a~f~~~l~   80 (139)
T cd03774           5 FCYMWTISNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGLDEESKDYLSLYLLLVSC----PKSEVRAKFKFSIL   80 (139)
T ss_pred             EEEEEEECCchhhhhcCCCEEECCCeecCCcCCceEEEEEeCCCCCCCCCCeEEEEEEEccC----CCCcEEEEEEEEEE
Confidence            46999999999864   35789999999995   9999999999876667899999999653    23579999999999


Q ss_pred             cCCCCC
Q 024960          246 NQYSRN  251 (260)
Q Consensus       246 ~q~~~~  251 (260)
                      ||.+..
T Consensus        81 n~~~~~   86 (139)
T cd03774          81 NAKGEE   86 (139)
T ss_pred             ecCCCe
Confidence            998654

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

>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=99.57  E-value=5.6e-15  Score=115.06  Aligned_cols=77  Identities=14%  Similarity=0.161  Sum_probs=65.2

Q ss_pred             ceEEEeCCccCcCC-----c--eeecCceEe--CCeEEEEEEEcCCCCCCCCCeEEEEEEecCCcc-CCCCCcEEEEEEE
Q 024960          173 NYRFNIPAFGSVGD-----T--VQRSSEFTV--GERNWQLVVYPAGSGADRGNFLTVSLKLADYQT-VSRKKPVYAEFKF  242 (260)
Q Consensus       173 ~~~~~i~~fs~l~~-----~--~~~s~~f~v--gg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~-~~~~~~~~~~f~l  242 (260)
                      .|+|+|.+|+.+++     +  .+.|++|.|  |||+|+|.+||+|...+..+|||+||+|.+++. ...+|++.++|+|
T Consensus         2 ~h~~~I~~yS~~~~~~~~g~~~~i~S~~F~~~~gGy~W~i~~yP~G~~~~~~~~lS~~L~l~~~~~d~~l~wpv~a~~~~   81 (147)
T cd03776           2 IYVWKIKNFSNLRRSMEAGSPVVIHSPGFYTSPPGYKLCARLNLSLPEARCPNYISLFVHLMQGENDSHLDWPFQGTITL   81 (147)
T ss_pred             EEEEEECCHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEeCCCCCCCCCEEEEEEEEeccCCCcccCCcccceeEE
Confidence            58999999997642     1  377999985  799999999999998777889999999987654 3457999999999


Q ss_pred             EEecCCC
Q 024960          243 KIPNQYS  249 (260)
Q Consensus       243 ~l~~q~~  249 (260)
                      +|+||.+
T Consensus        82 ~lldq~~   88 (147)
T cd03776          82 TLLDQSE   88 (147)
T ss_pred             EEECCCc
Confidence            9999975

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

>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=99.55  E-value=1.7e-14  Score=112.81  Aligned_cols=84  Identities=19%  Similarity=0.291  Sum_probs=74.2

Q ss_pred             CcceEEEeCCccCcCC-------ceeecCceEeC--CeEEEEEEEcCCCCCCCCCeEEEEEEecCCccCC-CCCcEEEEE
Q 024960          171 DGNYRFNIPAFGSVGD-------TVQRSSEFTVG--ERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVS-RKKPVYAEF  240 (260)
Q Consensus       171 ~~~~~~~i~~fs~l~~-------~~~~s~~f~vg--g~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~-~~~~~~~~f  240 (260)
                      ++.|+|+|++|+++++       ..+.|+.|..+  |++|+|.+||||++.+++.|||||+++..++.++ ..|+++.++
T Consensus        18 ~g~fiWkI~~fs~~~~~a~~~~~~~i~Sp~Fyt~~~GYk~~l~~ylnG~g~~~g~~LSly~~l~~Ge~D~~L~WPf~~~i   97 (164)
T cd03778          18 DGVFIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGTGRGTHLSLFFVVMKGPNDALLRWPFNQKV   97 (164)
T ss_pred             CCEEEEEECcHHHHHHHHhcCCCceEECCCcccCCCCeEEEEEEEeCCCCCCCCCEEEEEEEEecCCcCcccCCceeeEE
Confidence            5889999999998763       15678888875  7999999999999988889999999999999887 799999999


Q ss_pred             EEEEecCCCCCccc
Q 024960          241 KFKIPNQYSRNRAG  254 (260)
Q Consensus       241 ~l~l~~q~~~~~~~  254 (260)
                      +|.|+||.+++|+.
T Consensus        98 tl~llDQ~~r~hi~  111 (164)
T cd03778          98 TLMLLDQNNREHVI  111 (164)
T ss_pred             EEEEECCCCCCcce
Confidence            99999998777764

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

>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=99.55  E-value=2e-14  Score=112.73  Aligned_cols=78  Identities=15%  Similarity=0.213  Sum_probs=67.8

Q ss_pred             ceEEEeCCccCcCC-------ceeecCceEeC--CeEEEEEEEcCCCCCCCCCeEEEEEEecCCccCC-CCCcEEEEEEE
Q 024960          173 NYRFNIPAFGSVGD-------TVQRSSEFTVG--ERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVS-RKKPVYAEFKF  242 (260)
Q Consensus       173 ~~~~~i~~fs~l~~-------~~~~s~~f~vg--g~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~-~~~~~~~~f~l  242 (260)
                      .|.|+|.+|+.++.       ..+.|+.|.||  ||+|+|.+||||...+.++|+|+||+|.+++..+ ..|++.++|+|
T Consensus         2 ~~~~~I~gys~~~~~~~~~~~~~i~S~~F~vg~~Gy~w~i~~yPnG~~~~~~~~vs~~l~l~~ge~d~~l~wp~~a~~~~   81 (154)
T cd03781           2 TLLWKITDYSRKLQEAKGRDNLELFSPPFYTHRYGYKLQVSAFLNGNGSGEGSHLSVYIRVLPGEYDNLLEWPFSHRITF   81 (154)
T ss_pred             EEEEEECCHHHHHHHhhcCCCceEECCCeecCCCCEEEEEEEECCCCCCCCCCEEEEEEEEecCCcccccCCceeeEEEE
Confidence            58899999988752       35789999999  9999999999999887889999999998865544 48999999999


Q ss_pred             EEecCCCC
Q 024960          243 KIPNQYSR  250 (260)
Q Consensus       243 ~l~~q~~~  250 (260)
                      +||||.++
T Consensus        82 ~llDq~~~   89 (154)
T cd03781          82 TLLDQSDP   89 (154)
T ss_pred             EEECCCCC
Confidence            99999754

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

>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=99.54  E-value=2.7e-14  Score=110.32  Aligned_cols=80  Identities=16%  Similarity=0.230  Sum_probs=67.2

Q ss_pred             ceEEEeCCccCcCC-------ceeecCceEeC--CeEEEEEEEcCCCCCCCCCeEEEEEEecCCccC-CCCCcEEEEEEE
Q 024960          173 NYRFNIPAFGSVGD-------TVQRSSEFTVG--ERNWQLVVYPAGSGADRGNFLTVSLKLADYQTV-SRKKPVYAEFKF  242 (260)
Q Consensus       173 ~~~~~i~~fs~l~~-------~~~~s~~f~vg--g~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~-~~~~~~~~~f~l  242 (260)
                      .|.|+|.+|+++++       ..+.|+.|..+  ||+|+|.+||||++.+.++|+|+||++.+++.. ...|++.++|+|
T Consensus         2 ~~~W~i~~f~~~~~~a~~~~~~~~~S~~Fyt~~~Gy~w~i~~ypnG~~~~~~~~iSv~l~l~~g~~D~~l~wpv~~~~tf   81 (147)
T cd03779           2 TFLWKITDVSQKQRESSHGRDVSLCSPAFYTAKYGYKVCLRLYLNGDGAGKGTHISLFFVIMKGEYDALLPWPFRHKVTF   81 (147)
T ss_pred             eEEEEECcHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEcCCCCCCCCCEEEEEEEEecCCcccccCcceEEEEEE
Confidence            58999999997652       15789999987  999999999999998888999999999876533 247899999999


Q ss_pred             EEecCCCCCc
Q 024960          243 KIPNQYSRNR  252 (260)
Q Consensus       243 ~l~~q~~~~~  252 (260)
                      +|+||.+..+
T Consensus        82 sLlDq~~~~~   91 (147)
T cd03779          82 MLLDQNNREH   91 (147)
T ss_pred             EEECCCCCCC
Confidence            9999975443

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

>smart00061 MATH meprin and TRAF homology

Probab=99.48  E-value=2.3e-13  Score=97.45  Aligned_cols=73  Identities=21%  Similarity=0.256  Sum_probs=63.3

Q ss_pred             eEEEeCCccCcC-CceeecCceEeCCeEEEEEEEcCCCCCCCCCeEEEEEEecCCccCCCCCcEEEEEEEEEecCCCCCc
Q 024960          174 YRFNIPAFGSVG-DTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKIPNQYSRNR  252 (260)
Q Consensus       174 ~~~~i~~fs~l~-~~~~~s~~f~vgg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~~~~~~~~~f~l~l~~q~~~~~  252 (260)
                      ++|++++|+.+. .+.+.|+.|.++|++|+|.+||+      ++|+|+||.+.+....+..|++.|+|+|+|+||++..+
T Consensus         2 ~~~~~~~~~~~~~~~~~~S~~f~~~g~~W~i~~~p~------~~~lsl~L~~~~~~~~~~~w~v~a~~~~~l~~~~~~~~   75 (95)
T smart00061        2 LSHTFKNVSRLEEGESYFSPSEEHFNIPWRLKIYRK------NGFLSLYLHCEKEECDSRKWSIEAEFTLKLVSQNGKSL   75 (95)
T ss_pred             ceeEEEchhhcccCceEeCChhEEcCceeEEEEEEc------CCEEEEEEEeCCCcCCCCCeEEEEEEEEEEEeCCCCEE
Confidence            579999999885 46789999999999999999999      36999999998776555689999999999999986544

>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=99.46  E-value=1.4e-12  Score=97.87  Aligned_cols=79  Identities=29%  Similarity=0.521  Sum_probs=67.7

Q ss_pred             ceEEEeCCccCcCCceeecCceEeCCeEEEEEEEcCCCCCCCCCeEEEEEEecCCccCCCCCcEEEEEEEEEecCCCCCc
Q 024960          173 NYRFNIPAFGSVGDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKIPNQYSRNR  252 (260)
Q Consensus       173 ~~~~~i~~fs~l~~~~~~s~~f~vgg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~~~~~~~~~f~l~l~~q~~~~~  252 (260)
                      .|+|+|.+|+....+.+.|+.|.++|++|+|.+||+|... ..+|+|+||++.+.......|.+.++|+|.|+||.++++
T Consensus         2 ~~~~~i~~~~~~~~~~~~S~~f~~~g~~W~l~~~p~~~~~-~~~~lsv~L~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   80 (126)
T cd00121           2 KHTWKIVNFSELEGESIYSPPFEVGGYKWRIRIYPNGDGE-SGDYLSLYLELDKGESDLEKWSVRAEFTLKLVNQNGGKS   80 (126)
T ss_pred             EEEEEECCCCCCCCcEEECCCEEEcCEeEEEEEEcCCCCC-CCCEEEEEEEecCCCCCCCCCcEEEEEEEEEECCCCCcc
Confidence            4899999999844578899999999999999999999866 568999999998765555679999999999999984444

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

>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=99.22  E-value=5e-12  Score=109.68  Aligned_cols=211  Identities=24%  Similarity=0.357  Sum_probs=156.3

Q ss_pred             EEEcCccccccccCCeeEeccEEECCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEEEEEEEEEEEeCcCC
Q 024960           20 LKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSN   99 (260)
Q Consensus        20 w~I~~fs~~~~~~~~~~~S~~F~~gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v~~~~~~~l~n~~~~   99 (260)
                      |.|.+|+...    ..++|..|..++..|++.+||.|+       +++.|+.+....    + |.+.+.+.|.+.|+...
T Consensus         8 ~~~~~~~~~~----l~~ys~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~----~-~~~~~~~~l~v~n~~~~   71 (297)
T KOG1987|consen    8 WVISNFSSVG----LVIYSNGFVKGGCKWRLSAYPKGN-------YLSLTLSVSDSP----G-WERYAKLRLTVVNQKSE   71 (297)
T ss_pred             eeeccCcchh----hhccccceeecCceEEEEEecCCC-------EEEEEEEeccCC----C-cceeEEEEEEEccCCCc
Confidence            8899988875    578999999999999999999863       688888887643    3 99999999999999987


Q ss_pred             ce-eEEeccCCCceecc--CCCCCcccccccccccccCCCCCceeCCEEEEEEEEEEecCCCccceeec--------ccC
Q 024960          100 QY-LVVQDAKAPMRRFD--RRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTDSEEILSL--------VSD  168 (260)
Q Consensus       100 ~~-~~~~~~~~~~~~F~--~~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~v~~~~~~~~~~~~--------i~~  168 (260)
                      .. ...+.   ....|.  .....||+..+++...+.+++.||+.++.+.+-+.+.|++..+..+....        ...
T Consensus        72 ~~~~~~~~---~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~g~~~~~~~~~~a~~~V~~~~~~~d~~~~~~~~~~~~d~~  148 (297)
T KOG1987|consen   72 KYLSTVEE---GFSWFRFNKVLKEWGFGKMLPLTLLIDCSNGFLVAHKLVLVARSEVFEAMGKSDVFKESSKLITLLEEK  148 (297)
T ss_pred             ceeeeeee---eEEeccccccccccCcccccChHHhhcccCcEEEcCceEEEeeecceeeecccccchhccccccccccc
Confidence            55 33211   233333  23578999999999999988899999988888888888887764332211        223


Q ss_pred             CCC----cceEEEeCCccCcCC----ceeecCceEeCCeEEEEEEEcCCCCCCCCCeEEEEEEecCCccC--CCCCcEEE
Q 024960          169 PAD----GNYRFNIPAFGSVGD----TVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTV--SRKKPVYA  238 (260)
Q Consensus       169 p~~----~~~~~~i~~fs~l~~----~~~~s~~f~vgg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~--~~~~~~~~  238 (260)
                      |+.    ..|+|.+.+++....    ....+..|.++++.|++.++|.|.+......++.||.+.+...+  +....+++
T Consensus       149 ~~~~~~~~~F~~~~s~~~~~~~~~~~~~~~a~~f~~~~~~lk~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  228 (297)
T KOG1987|consen  149 PEVLEALNGFQVLPSQVSSVERIFEKHPDLAAAFKYKNRHLKLACMPVLLSLIETLNVSQSLQEASNYDLKEAKSALTYV  228 (297)
T ss_pred             hhhHhhhceEEEeccchHHHHHhhcCChhhhhccccccHHHHHHHHHHHHHHHHhhhhcccHHHhchhHHHHHHHHHHHH
Confidence            444    779999999987762    14566789999999999999999877666788899987663222  22333445


Q ss_pred             EEEEEEecCCC
Q 024960          239 EFKFKIPNQYS  249 (260)
Q Consensus       239 ~f~l~l~~q~~  249 (260)
                      ......+|+..
T Consensus       229 ~~~~~~ld~l~  239 (297)
T KOG1987|consen  229 IAAGFKLDWLE  239 (297)
T ss_pred             HhccchHhHHH
Confidence            55555566544

>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=99.13  E-value=1.5e-10  Score=89.90  Aligned_cols=76  Identities=16%  Similarity=0.125  Sum_probs=64.8

Q ss_pred             cceEEEeCCccCcCC-----ceeecCceEe-CCeEEEEEEEcCCCCCCCCCeEEEEEEecCCccCC-CCCcEE-EEEEEE
Q 024960          172 GNYRFNIPAFGSVGD-----TVQRSSEFTV-GERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVS-RKKPVY-AEFKFK  243 (260)
Q Consensus       172 ~~~~~~i~~fs~l~~-----~~~~s~~f~v-gg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~-~~~~~~-~~f~l~  243 (260)
                      +.|.|+|++|+++++     ..+.|+.|.. .|++++|.+||||++.+ +.|||||+++..++.++ ..|++. -+.+|.
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            468999999998773     3567777765 58999999999999876 67999999999998665 599998 899999


Q ss_pred             EecCC
Q 024960          244 IPNQY  248 (260)
Q Consensus       244 l~~q~  248 (260)
                      ||||.
T Consensus        81 LlDQ~   85 (167)
T cd03782          81 LLDQH   85 (167)
T ss_pred             EEcCC
Confidence            99995

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

>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=99.11  E-value=1.2e-10  Score=86.80  Aligned_cols=70  Identities=31%  Similarity=0.550  Sum_probs=58.5

Q ss_pred             eCCccCcCC-c-eeecCceEeCCeEEEEEEEcCCCCCCCCCeEEEEEEecCCccCC-CCCcEEEEEEEEEecCCCCC
Q 024960          178 IPAFGSVGD-T-VQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVS-RKKPVYAEFKFKIPNQYSRN  251 (260)
Q Consensus       178 i~~fs~l~~-~-~~~s~~f~vgg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~-~~~~~~~~f~l~l~~q~~~~  251 (260)
                      |+||+.+.. + ...+..|.++|++|+|.+||+|+    ++++|+||+|...+... ..|++.++|+++|+++.++.
T Consensus         1 i~nfs~l~~~~~~~~s~~~~~~g~~W~l~~~~~~~----~~~l~~~L~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~   73 (119)
T PF00917_consen    1 IKNFSKLKEGEEYSSSFVFSHGGYPWRLKVYPKGN----GKYLSVYLHCDKGENDSDLEWSIEAEFRFRLLNQNGKS   73 (119)
T ss_dssp             ETTGGGHHTSEEEEEEEESSTTSEEEEEEEETTES----TTEEEEEEEEECSTTGGGSSSSEEEEEEEEEE-TTSCE
T ss_pred             CcccceEeCCCcEECCCeEEECCEEEEEEEEeCCC----cCcEEEEEEEeecccccccceeeeEEEEEEEecCCCCc
Confidence            678999873 3 34568999999999999999987    47999999999876554 68999999999999997765

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=99.09  E-value=2.8e-10  Score=88.85  Aligned_cols=77  Identities=16%  Similarity=0.250  Sum_probs=65.5

Q ss_pred             cceEEEeCCccCcCC-----ceeecCceEeC-CeEEEEEEEcCCCCC-CCCCeEEEEEEecCCccCC-CCCcE-EEEEEE
Q 024960          172 GNYRFNIPAFGSVGD-----TVQRSSEFTVG-ERNWQLVVYPAGSGA-DRGNFLTVSLKLADYQTVS-RKKPV-YAEFKF  242 (260)
Q Consensus       172 ~~~~~~i~~fs~l~~-----~~~~s~~f~vg-g~~w~l~~~p~G~~~-~~~~~~s~yL~~~~~~~~~-~~~~~-~~~f~l  242 (260)
                      +.+.|+|++|+++++     ..+.|+.|... |+++.|.+||+|++. +++.|+|||+++..++.++ ..|++ .-+.+|
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            458999999998763     35889999885 999999999999874 5688999999999998665 59994 569999


Q ss_pred             EEecCC
Q 024960          243 KIPNQY  248 (260)
Q Consensus       243 ~l~~q~  248 (260)
                      .||||.
T Consensus        82 ~llDQ~   87 (167)
T cd03783          82 TVLDQD   87 (167)
T ss_pred             EEEcCC
Confidence            999995

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

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

Probab=98.50  E-value=1.1e-07  Score=88.45  Aligned_cols=76  Identities=20%  Similarity=0.476  Sum_probs=62.9

Q ss_pred             CcceEEEeCCccCcCCceeecCceEeCCeEEEEEEEcCCCCCCCCCeEEEEEEecCCc--cCC-CCCcEEEEEEEEEecC
Q 024960          171 DGNYRFNIPAFGSVGDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQ--TVS-RKKPVYAEFKFKIPNQ  247 (260)
Q Consensus       171 ~~~~~~~i~~fs~l~~~~~~s~~f~vgg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~--~~~-~~~~~~~~f~l~l~~q  247 (260)
                      ...|+|+|++++++. ++..|+.|.|||+.|.|.++|.|+++.  + +|+||+....+  ... ..|.+||+|.|.|-|.
T Consensus        38 ~~sftW~vk~wsel~-~k~~Sp~F~vg~~twki~lfPqG~nq~--~-~sVyLe~~pqe~e~~~gk~~~ccaqFaf~Is~p  113 (1089)
T COG5077          38 EMSFTWKVKRWSELA-KKVESPPFSVGGHTWKIILFPQGNNQC--N-VSVYLEYEPQELEETGGKYYDCCAQFAFDISNP  113 (1089)
T ss_pred             hcccceecCChhhhh-hhccCCcccccCeeEEEEEecccCCcc--c-cEEEEEeccchhhhhcCcchhhhhheeeecCCC
Confidence            356999999999986 578899999999999999999999874  2 99999886442  112 3588999999999998


Q ss_pred             CCC
Q 024960          248 YSR  250 (260)
Q Consensus       248 ~~~  250 (260)
                      +.+
T Consensus       114 ~~p  116 (1089)
T COG5077         114 KYP  116 (1089)
T ss_pred             CCC
Confidence            763

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

Probab=98.18  E-value=2.2e-06  Score=86.15  Aligned_cols=129  Identities=22%  Similarity=0.308  Sum_probs=103.2

Q ss_pred             eEEEEEcCccccccccCCeeEeccEEECCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEEEEEEEEEEEeC
Q 024960           17 DYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQ   96 (260)
Q Consensus        17 ~~~w~I~~fs~~~~~~~~~~~S~~F~~gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v~~~~~~~l~n~   96 (260)
                      ..+|.+.+...+.    ....||.|..|+.+|++.+.|++..    ...+++|+.+...... .. |.+.+++.+.+.|.
T Consensus        28 ~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~-~~-~s~~~~~~~~v~~~   97 (1093)
T KOG1863|consen   28 STTIDGIDDKSLL----YRALSSNFGAGATKWKILIAPKVNS----LQSTRKKLEVMPSQSL-KS-WSCGAQAVLRVKNT   97 (1093)
T ss_pred             cccccCcCcchhh----hHhcCccccccccceeeeeccccCc----ccceeEEeeeccCCCC-cc-eEecchhhhccccC
Confidence            3445555444433    2567899999999999999999874    4679999999977655 33 99999999999994


Q ss_pred             cCCceeEEeccCCCceeccCCCCCcccccccccccccCCCCCceeCCEEEEEEEEEEecCCC
Q 024960           97 VSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTD  158 (260)
Q Consensus        97 ~~~~~~~~~~~~~~~~~F~~~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~v~~~~~  158 (260)
                      .+......   +...+.|.....+||+.+|+.++++.++..+|+.+|++.+++.|.+...++
T Consensus        98 ~~~~~~~~---~~~~h~~~~~~~dwg~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~~~~~  156 (1093)
T KOG1863|consen   98 IDNLPDPE---KAIHHVFTADERDWGFSCFSTSSDIRKPEDGYVRNGLEKLEKRVRVEQPTS  156 (1093)
T ss_pred             CCCchhhh---hhhhhcccccccchhhccchhHhhccCcccccccccceeeeeeeeeecCCc
Confidence            44333222   236789998889999999999999999999999999999999999988775

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

Probab=97.05  E-value=0.00045  Score=62.16  Aligned_cols=83  Identities=24%  Similarity=0.282  Sum_probs=67.6

Q ss_pred             CCCceEEEEEcCccccccc----cCCeeEeccEEE--CCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEEE
Q 024960           13 LPPADYSLKIESFKLLSKS----TVESFESGVFKS--GGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVN   86 (260)
Q Consensus        13 ~~~g~~~w~I~~fs~~~~~----~~~~~~S~~F~~--gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v~   86 (260)
                      ...|+..|+|.+|+..+..    ....+.|+.|..  .||+.+.++|-||+. .+...++|+|+.+..++..+.-.|+.+
T Consensus       277 ~~~g~~iwki~~~~~~~~e~~~~~~~~~~S~~f~t~~~Gyk~~~~~~lng~g-~~~~~~~s~~~~~~~ge~d~~l~wpf~  355 (391)
T KOG0297|consen  277 SYDGTLIWKIPDYGRKKQEAVAGATLSLFSPAFYTSKYGYKLCARIYLNGDG-TGKGTHLSLYFVVMRGEYDALLPWPFR  355 (391)
T ss_pred             ccCCEEEEEecchhhhhHHHHhccCccccccccccccccHHHHhHhhhcCCC-CCCcceeeeeeeecccCcccccccCCC
Confidence            3579999999999655432    246899999975  799999999999986 345679999999998865443349999


Q ss_pred             EEEEEEEEeC
Q 024960           87 VYYKLFVYDQ   96 (260)
Q Consensus        87 ~~~~~~l~n~   96 (260)
                      -+++|.+++|
T Consensus       356 ~~v~~~l~dq  365 (391)
T KOG0297|consen  356 QKVTLMLLDQ  365 (391)
T ss_pred             CceEEEEecc
Confidence            9999999999

>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=97.01  E-value=0.0032  Score=54.53  Aligned_cols=68  Identities=32%  Similarity=0.606  Sum_probs=56.1

Q ss_pred             eEEEeCCccCcCCceeecCceEeCCeEEEEEEEcCCCCCCCCCeEEEEEEecCCccCCCCCcEEEEEEEEEecCCCCCc
Q 024960          174 YRFNIPAFGSVGDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKIPNQYSRNR  252 (260)
Q Consensus       174 ~~~~i~~fs~l~~~~~~s~~f~vgg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~~~~~~~~~f~l~l~~q~~~~~  252 (260)
                      ++|.+.+++... ..+.+..|.+|+..|++.+||.|+      ++|.|+.+....    +|.+++++.|.+.||...+.
T Consensus         6 ~~~~~~~~~~~~-l~~ys~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~----~~~~~~~~~l~v~n~~~~~~   73 (297)
T KOG1987|consen    6 FTWVISNFSSVG-LVIYSNGFVKGGCKWRLSAYPKGN------YLSLTLSVSDSP----GWERYAKLRLTVVNQKSEKY   73 (297)
T ss_pred             cceeeccCcchh-hhccccceeecCceEEEEEecCCC------EEEEEEEeccCC----CcceeEEEEEEEccCCCcce
Confidence            447777877764 456778899999999999999985      799999987642    79999999999999976643

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

Probab=95.87  E-value=0.0055  Score=55.24  Aligned_cols=77  Identities=18%  Similarity=0.274  Sum_probs=64.6

Q ss_pred             CcceEEEeCCccCcCC-------ceeecCceEe--CCeEEEEEEEcCCCCCCCCCeEEEEEEecCCccCC-CCCcEEEEE
Q 024960          171 DGNYRFNIPAFGSVGD-------TVQRSSEFTV--GERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVS-RKKPVYAEF  240 (260)
Q Consensus       171 ~~~~~~~i~~fs~l~~-------~~~~s~~f~v--gg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~-~~~~~~~~f  240 (260)
                      .+.+.|+|.+++....       ..+.|+.|..  .|++....+|.||++.+++-++|+|+.+..++..+ ..|++.-+.
T Consensus       279 ~g~~iwki~~~~~~~~e~~~~~~~~~~S~~f~t~~~Gyk~~~~~~lng~g~~~~~~~s~~~~~~~ge~d~~l~wpf~~~v  358 (391)
T KOG0297|consen  279 DGTLIWKIPDYGRKKQEAVAGATLSLFSPAFYTSKYGYKLCARIYLNGDGTGKGTHLSLYFVVMRGEYDALLPWPFRQKV  358 (391)
T ss_pred             CCEEEEEecchhhhhHHHHhccCccccccccccccccHHHHhHhhhcCCCCCCcceeeeeeeecccCcccccccCCCCce
Confidence            5778999999965552       2456777776  48899999999999999899999999999887665 489999999


Q ss_pred             EEEEecC
Q 024960          241 KFKIPNQ  247 (260)
Q Consensus       241 ~l~l~~q  247 (260)
                      +|.+++|
T Consensus       359 ~~~l~dq  365 (391)
T KOG0297|consen  359 TLMLLDQ  365 (391)
T ss_pred             EEEEecc
Confidence            9999999

---

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	260
2foj_A	155	Ubiquitin carboxyl-terminal hydrolase 7; MATH doma	1e-33
2foj_A	155	Ubiquitin carboxyl-terminal hydrolase 7; MATH doma	6e-08
3ivv_A	145	Speckle-type POZ protein; protein binding, nucleus	4e-28
3ivv_A	145	Speckle-type POZ protein; protein binding, nucleus	4e-06
1lb6_A	160	TNF receptor-associated factor 6; TRAF6-CD40 compl	3e-18
2f1z_A	522	Ubiquitin carboxyl-terminal hydrolase 7; hausp, US	2e-17
3hqi_A	312	Speckle-type POZ protein; SPOP, ubiquitin, puckere	6e-17
3hqi_A	312	Speckle-type POZ protein; SPOP, ubiquitin, puckere	2e-06
1ca9_A	192	TRAF2, protein (TNF receptor associated factor 2);	3e-16
1ca9_A	192	TRAF2, protein (TNF receptor associated factor 2);	3e-04
1d00_A	168	Tumor necrosis factor receptor associated protein	3e-15
1d00_A	168	Tumor necrosis factor receptor associated protein	2e-04
1flk_A	228	TNF receptor associated factor 3; TNF signaling, T	3e-15
2gkw_A	192	TNF receptor-associated factor 3; CD40, NF-KB sign	8e-15

>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 =  118 bits (297), Expect = 1e-33
 Identities = 27/156 (17%), Positives = 55/156 (35%), Gaps = 9/156 (5%)

Query: 2   GDNAILREKRSLPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDG 61
            +  +  +      A +   +E F  LS    ES  S         WK++  P    +  
Sbjct: 5   AEEDMEDDTSWRSEATFQFTVERFSRLS----ESVLSPPCFVRNLPWKIMVMPRFYPDRP 60

Query: 62  GKDHLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDW 121
            +  +  +L+ +  +      W+ +    L + +   ++    +        F  ++ DW
Sbjct: 61  HQKSVGFFLQCNAESDSTS--WSCHAQAVLKIINYRDDEKSFSRRIS---HLFFHKENDW 115

Query: 122 GFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPT 157
           GF  F+  +   +P  G++ DD   F   V    P 
Sbjct: 116 GFSNFMAWSEVTDPEKGFIDDDKVTFEVFVQADAPH 151

>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 = 49.8 bits (119), Expect = 6e-08
 Identities = 17/92 (18%), Positives = 37/92 (40%), Gaps = 3/92 (3%)

Query: 157 TDSEEILSLVSDPADGNYRFNIPAFGSVGDTVQRSSEFTVGERNWQLVVYPAG-SGADRG 215
           T  E++    S  ++  ++F +  F  + ++V  S    V    W+++V P         
Sbjct: 4   TAEEDMEDDTSWRSEATFQFTVERFSRLSESV-LSPPCFVRNLPWKIMVMPRFYPDRPHQ 62

Query: 216 NFLTVSLKLADYQTVSRKKPVYAEFKFKIPNQ 247
             +   L+  + ++ S     +A+   KI N 
Sbjct: 63  KSVGFFLQC-NAESDSTSWSCHAQAVLKIINY 93

>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 =  103 bits (259), Expect = 4e-28
 Identities = 36/141 (25%), Positives = 56/141 (39%), Gaps = 12/141 (8%)

Query: 18  YSLKIESFKLLSKSTVESFESGVFKSGGYN---WKLVFYPNGKKNDGGKDHLSLYLKIDD 74
           Y   I +F    +   E  +S  F SG  +   W L   P G  ++  KD+LSLYL +  
Sbjct: 13  YMWTINNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGL-DEESKDYLSLYLLLVS 71

Query: 75  SNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNE 134
                     V   +K  + +    +   +   ++       +  DWGF KF+      +
Sbjct: 72  CPK-----SEVRAKFKFSILNAKGEETKAM---ESQRAYRFVQGKDWGFKKFIRRDFLLD 123

Query: 135 PSNGYLVDDTCAFGAEVYVVK 155
            +NG L DD      EV VV+
Sbjct: 124 EANGLLPDDKLTLFCEVSVVQ 144

>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 = 44.5 bits (105), Expect = 4e-06
 Identities = 24/85 (28%), Positives = 38/85 (44%), Gaps = 12/85 (14%)

Query: 170 ADGNYRFNIPAF----GSVGDTVQRSSEFTVGERN---WQLVVYPAGSGADRGNFLTVSL 222
              +Y + I  F      +G+ + +SS F+ G  +   W L V P G   +  ++L++ L
Sbjct: 9   VKFSYMWTINNFSFCREEMGEVI-KSSTFSSGANDKLKWCLRVNPKGLDEESKDYLSLYL 67

Query: 223 KLADYQTVSRKKPVYAEFKFKIPNQ 247
            L        K  V A+FKF I N 
Sbjct: 68  LLVS----CPKSEVRAKFKFSILNA 88

>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 = 78.0 bits (192), Expect = 3e-18
 Identities = 31/153 (20%), Positives = 51/153 (33%), Gaps = 17/153 (11%)

Query: 18  YSLKIESFKLLSKSTVE----SFESGVFKSG--GYNWKLVFYPNGKKNDGGKDHLSLYLK 71
           Y  KI +F +  K   E       S  F +G  GY   +  +          +++SL++ 
Sbjct: 7   YIWKIGNFGMHLKCQEEEKPVVIHSPGFYTGKPGYKLCMRLHLQLPTAQRCANYISLFVH 66

Query: 72  IDDSNPHPDGTWNVNVYYKLFVYDQ----VSNQYLVVQDAKAPMRRFDR-----RKTDWG 122
                      W      +L + DQ    V   +  + DAK  +  F R         +G
Sbjct: 67  TMQGEYDSHLPWPFQGTIRLTILDQSEAPVRQNHEEIMDAKPELLAFQRPTIPRNPKGFG 126

Query: 123 FGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVK 155
           +  F+ L         ++ DDT     EV    
Sbjct: 127 YVTFMHLEALR--QRTFIKDDTLLVRCEVSTRF 157

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

 Score = 80.0 bits (197), Expect = 2e-17
 Identities = 26/152 (17%), Positives = 53/152 (34%), Gaps = 9/152 (5%)

Query: 9   EKRSLPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSL 68
           +      A +   +E F  LS+S      S         WK++  P    +   +  +  
Sbjct: 24  DTSWRSEATFQFTVERFSRLSES----VLSPPCFVRNLPWKIMVMPRFYPDRPHQKSVGF 79

Query: 69  YLKIDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLD 128
           +L+ +  +      W+ +    L + +   ++    +        F  ++ DWGF  F+ 
Sbjct: 80  FLQCNAESDSTS--WSCHAQAVLKIINYRDDEKSFSRRISH---LFFHKENDWGFSNFMA 134

Query: 129 LATFNEPSNGYLVDDTCAFGAEVYVVKPTDSE 160
            +   +P  G++ DD   F   V    P    
Sbjct: 135 WSEVTDPEKGFIDDDKVTFEVFVQADAPHGVA 166

>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 = 77.6 bits (191), Expect = 6e-17
 Identities = 38/147 (25%), Positives = 58/147 (39%), Gaps = 12/147 (8%)

Query: 18  YSLKIESFKLLSKSTVESFESGVFKSGGYN---WKLVFYPNGKKNDGGKDHLSLYLKIDD 74
           Y   I +F    +   E  +S  F SG  +   W L   P G   +  KD+LSLYL +  
Sbjct: 9   YMWTINNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGLDEE-SKDYLSLYLLLVS 67

Query: 75  SNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNE 134
                     V   +K  + +    +   ++       RF  +  DWGF KF+      +
Sbjct: 68  CPKSE-----VRAKFKFSILNAKGEETKAME--SQRAYRFV-QGKDWGFKKFIRRGFLLD 119

Query: 135 PSNGYLVDDTCAFGAEVYVVKPTDSEE 161
            +NG L DD      EV VV+ + +  
Sbjct: 120 EANGLLPDDKLTLFCEVSVVQDSVNIS 146

>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 = 47.2 bits (112), Expect = 2e-06
 Identities = 24/83 (28%), Positives = 38/83 (45%), Gaps = 12/83 (14%)

Query: 172 GNYRFNIPAF----GSVGDTVQRSSEFTVGERN---WQLVVYPAGSGADRGNFLTVSLKL 224
            +Y + I  F      +G+ + +SS F+ G  +   W L V P G   +  ++L++ L L
Sbjct: 7   FSYMWTINNFSFCREEMGEVI-KSSTFSSGANDKLKWCLRVNPKGLDEESKDYLSLYLLL 65

Query: 225 ADYQTVSRKKPVYAEFKFKIPNQ 247
                   K  V A+FKF I N 
Sbjct: 66  VS----CPKSEVRAKFKFSILNA 84

>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 = 73.5 bits (180), Expect = 3e-16
 Identities = 34/147 (23%), Positives = 50/147 (34%), Gaps = 13/147 (8%)

Query: 18  YSLKIESFKLLSKSTVE----SFESGVFKSG--GYNWKLVFYPNGKKNDGGKDHLSLYLK 71
           +  KI  F    +  V     +  S  F +   GY   L  Y NG    G   HLSL+  
Sbjct: 45  FIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGD-GTGRGTHLSLFFV 103

Query: 72  IDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQ-DAKAPMRRFDRRKTD----WGFGKF 126
           +          W  N    L + DQ + ++++           F R   D     G   F
Sbjct: 104 VMKGPNDALLRWPFNQKVTLMLLDQNNREHVIDAFRPDVTSSSFQRPVNDMNIASGCPLF 163

Query: 127 LDLATFNEPSNGYLVDDTCAFGAEVYV 153
             ++   E  N Y+ DD     A V +
Sbjct: 164 CPVSKM-EAKNSYVRDDAIFIKAIVDL 189

>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 = 39.6 bits (92), Expect = 3e-04
 Identities = 17/103 (16%), Positives = 34/103 (33%), Gaps = 10/103 (9%)

Query: 160 EEILSLVSDPADGNYRFNIPAFGSV-------GDTVQRSSEFTVGER--NWQLVVYPAGS 210
           +++L + +   DG + + I  F                S  F          L +Y  G 
Sbjct: 31  QKVLEMEASTYDGVFIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGD 90

Query: 211 GADRGNFLTVSLKLADYQTVSR-KKPVYAEFKFKIPNQYSRNR 252
           G  RG  L++   +      +  + P   +    + +Q +R  
Sbjct: 91  GTGRGTHLSLFFVVMKGPNDALLRWPFNQKVTLMLLDQNNREH 133

>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 = 70.4 bits (172), Expect = 3e-15
 Identities = 34/145 (23%), Positives = 49/145 (33%), Gaps = 13/145 (8%)

Query: 18  YSLKIESFKLLSKSTVE----SFESGVFKSG--GYNWKLVFYPNGKKNDGGKDHLSLYLK 71
           +  KI  F    +  V     +  S  F +   GY   L  Y NG    G   HLSL+  
Sbjct: 21  FIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGD-GTGRGTHLSLFFV 79

Query: 72  IDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQ-DAKAPMRRFDRRKTD----WGFGKF 126
           +          W  N    L + DQ + ++++           F R   D     G   F
Sbjct: 80  VMKGPNDALLRWPFNQKVTLMLLDQNNREHVIDAFRPDVTSSSFQRPVNDMNIASGCPLF 139

Query: 127 LDLATFNEPSNGYLVDDTCAFGAEV 151
             ++   E  N Y+ DD     A V
Sbjct: 140 CPVSKM-EAKNSYVRDDAIFIKAIV 163

>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 = 40.0 bits (93), Expect = 2e-04
 Identities = 17/102 (16%), Positives = 34/102 (33%), Gaps = 10/102 (9%)

Query: 160 EEILSLVSDPADGNYRFNIPAFGSV-------GDTVQRSSEFTVGER--NWQLVVYPAGS 210
           +++L + +   DG + + I  F                S  F          L +Y  G 
Sbjct: 7   QKVLEMEASTYDGVFIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGD 66

Query: 211 GADRGNFLTVSLKLADYQTVSR-KKPVYAEFKFKIPNQYSRN 251
           G  RG  L++   +      +  + P   +    + +Q +R 
Sbjct: 67  GTGRGTHLSLFFVVMKGPNDALLRWPFNQKVTLMLLDQNNRE 108

>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 = 71.7 bits (175), Expect = 3e-15
 Identities = 33/153 (21%), Positives = 46/153 (30%), Gaps = 15/153 (9%)

Query: 18  YSLKIESFKLLSKSTVE----SFESGVFKSG--GYNWKLVFYPNGKKNDGGKDHLSLYLK 71
              KI  +K   +  V     S  S  F +G  GY      Y NG    G   HLSL+  
Sbjct: 78  LIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGD-GMGKGTHLSLFFV 136

Query: 72  IDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQ--DAKAPMRRFDRRKTD----WGFGK 125
           I          W       L + DQ S++  +            F +   +     G   
Sbjct: 137 IMRGEYDALLPWPFKQKVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMNIASGCPV 196

Query: 126 FLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTD 158
           F+        +  Y+ DDT      V      D
Sbjct: 197 FVAQTVLE--NGTYIKDDTIFIKVIVDTSDLPD 227

>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 = 70.0 bits (171), Expect = 8e-15
 Identities = 33/153 (21%), Positives = 46/153 (30%), Gaps = 15/153 (9%)

Query: 18  YSLKIESFKLLSKSTVE----SFESGVFKSG--GYNWKLVFYPNGKKNDGGKDHLSLYLK 71
              KI  +K   +  V     S  S  F +G  GY      Y NG    G   HLSL+  
Sbjct: 42  LIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGD-GMGKGTHLSLFFV 100

Query: 72  IDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVV--QDAKAPMRRFDRRKTD----WGFGK 125
           I          W       L + DQ S++  +            F +   +     G   
Sbjct: 101 IMRGEYDALLPWPFKQKVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMNIASGCPV 160

Query: 126 FLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTD 158
           F+        +  Y+ DDT      V      D
Sbjct: 161 FVAQTVLE--NGTYIKDDTIFIKVIVDTSDLPD 191

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	260
3ivv_A	145	Speckle-type POZ protein; protein binding, nucleus	99.97
2foj_A	155	Ubiquitin carboxyl-terminal hydrolase 7; MATH doma	99.97
3hqi_A	312	Speckle-type POZ protein; SPOP, ubiquitin, puckere	99.97
4gjh_A	178	TNF receptor-associated factor 5; TRAF domain, imm	99.96
1lb6_A	160	TNF receptor-associated factor 6; TRAF6-CD40 compl	99.95
4ghu_A	198	TNF receptor-associated factor 3; alpha/beta, inna	99.95
1ca9_A	192	TRAF2, protein (TNF receptor associated factor 2);	99.95
1d00_A	168	Tumor necrosis factor receptor associated protein	99.94
2gkw_A	192	TNF receptor-associated factor 3; CD40, NF-KB sign	99.94
1flk_A	228	TNF receptor associated factor 3; TNF signaling, T	99.93
2f1z_A	522	Ubiquitin carboxyl-terminal hydrolase 7; hausp, US	99.92
2foj_A	155	Ubiquitin carboxyl-terminal hydrolase 7; MATH doma	99.68
3ivv_A	145	Speckle-type POZ protein; protein binding, nucleus	99.67
1ca9_A	192	TRAF2, protein (TNF receptor associated factor 2);	99.66
4ghu_A	198	TNF receptor-associated factor 3; alpha/beta, inna	99.64
4gjh_A	178	TNF receptor-associated factor 5; TRAF domain, imm	99.64
1lb6_A	160	TNF receptor-associated factor 6; TRAF6-CD40 compl	99.64
1d00_A	168	Tumor necrosis factor receptor associated protein	99.63
2gkw_A	192	TNF receptor-associated factor 3; CD40, NF-KB sign	99.62
1flk_A	228	TNF receptor associated factor 3; TNF signaling, T	99.59
2f1z_A	522	Ubiquitin carboxyl-terminal hydrolase 7; hausp, US	99.51
4gwm_A	592	Meprin A subunit beta; mulidomain structure, hydro	99.5
3hqi_A	312	Speckle-type POZ protein; SPOP, ubiquitin, puckere	99.48
4gwm_A	592	Meprin A subunit beta; mulidomain structure, hydro	98.32

>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=99.97  E-value=4e-32  Score=210.40  Aligned_cols=140  Identities=27%  Similarity=0.426  Sum_probs=117.4

Q ss_pred             eecccCCCceEEEEEcCccccccccCCeeEeccEEECCe---eeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcE
Q 024960            8 REKRSLPPADYSLKIESFKLLSKSTVESFESGVFKSGGY---NWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWN   84 (260)
Q Consensus         8 ~~~~~~~~g~~~w~I~~fs~~~~~~~~~~~S~~F~~gg~---~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~   84 (260)
                      ..+.++..++|+|+|+|||.+++..++.++||+|.+|||   +|+|++||+|.. .+..+|||+||.|.+..    + |+
T Consensus         3 ~~m~~~~~~~~~w~I~~fs~~~~~~g~~~~S~~F~~gg~~g~~W~i~~yP~G~~-~~~~~~lSlyL~l~~~~----~-w~   76 (145)
T 3ivv_A            3 GGSGKVVKFSYMWTINNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGLD-EESKDYLSLYLLLVSCP----K-SE   76 (145)
T ss_dssp             --CCCCCEEEEEEEESSGGGCCCCTTCCEECCCEEESGGGCEEEEEEEETTCSS-GGGTTEEEEEEEEEECS----S-SE
T ss_pred             CCCCcEEEEEEEEEEcCchHHhhcCCCEEECCCcCCCCcCCceEEEEEEcCCCC-CCCCCeEEEEEEEcCCC----C-Cc
Confidence            456778899999999999998753467899999999996   999999999976 23568999999998652    3 99


Q ss_pred             EEEEEEEEEEeCcCCceeEEeccCCCceeccCCCCCcccccccccccccCCCCCceeCCEEEEEEEEEEecC
Q 024960           85 VNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKP  156 (260)
Q Consensus        85 v~~~~~~~l~n~~~~~~~~~~~~~~~~~~F~~~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~v~~~  156 (260)
                      ++|+|+|+|+||.++.......  ...++|.. ..+|||.+||++++|++++++||+||+|+|+|+|+|+++
T Consensus        77 v~a~f~l~llnq~~~~~~~~~~--~~~~~F~~-~~~wG~~~Fi~~~~L~~~~~~yl~dD~l~I~~~V~V~~d  145 (145)
T 3ivv_A           77 VRAKFKFSILNAKGEETKAMES--QRAYRFVQ-GKDWGFKKFIRRDFLLDEANGLLPDDKLTLFCEVSVVQD  145 (145)
T ss_dssp             EEEEEEEEEECTTSCEEEEEEC--SSCEEEET-TCEEEEEEEEEHHHHHCGGGCSSGGGCEEEEEEEEECC-
T ss_pred             EEEEEEEEEEecCCCceeeecc--cceEEecC-CCCcCHHHeEEhhhhccccCCcEeCCEEEEEEEEEEEeC
Confidence            9999999999999887554332  25678874 578999999999999876799999999999999999864

>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=99.97  E-value=6.7e-31  Score=205.72  Aligned_cols=137  Identities=20%  Similarity=0.391  Sum_probs=113.1

Q ss_pred             CCCceEEEEEcCccccccccCCeeEeccEEECCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEEEEEEEEE
Q 024960           13 LPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVYYKLF   92 (260)
Q Consensus        13 ~~~g~~~w~I~~fs~~~~~~~~~~~S~~F~~gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v~~~~~~~   92 (260)
                      .+.++|+|+|+|||.++    +.++|++|.+||++|+|++||+|....+..+||||||+|... ..+.+ |+++|+|+|+
T Consensus        16 ~~~~~~~w~I~nfS~~~----~~~~S~~f~~gg~~W~i~~yP~G~~~~~~~~~lSlyL~~~~~-~~~~~-w~v~a~~~l~   89 (155)
T 2foj_A           16 RSEATFQFTVERFSRLS----ESVLSPPCFVRNLPWKIMVMPRFYPDRPHQKSVGFFLQCNAE-SDSTS-WSCHAQAVLK   89 (155)
T ss_dssp             CSEEEEEEEESSGGGCC----SCEECCCEEETTEEEEEEEEEEC------CBEEEEEEEESTT-CCCSS-CEEEEEEEEE
T ss_pred             CCCcEEEEEECChhhcC----CceEcCCEEECCccEEEEEEECCCCCCCCCCEEEEEEEeCCC-CCCCC-CEEEEEEEEE
Confidence            45799999999999994    579999999999999999999997521246899999999654 34556 9999999999


Q ss_pred             EEeCcCCceeEEeccCCCceeccCCCCCcccccccccccccCCCCCceeCCEEEEEEEEEEecCCC
Q 024960           93 VYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTD  158 (260)
Q Consensus        93 l~n~~~~~~~~~~~~~~~~~~F~~~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~v~~~~~  158 (260)
                      |+||+++.....+.   ..+.|.....+|||.+||++++|++++++||+||+|+|+|+|+|.+++|
T Consensus        90 l~~~~~~~~~~~~~---~~~~F~~~~~~wG~~~Fi~~~~L~~~~~~yl~dD~l~Ie~~V~V~~~tG  152 (155)
T 2foj_A           90 IINYRDDEKSFSRR---ISHLFFHKENDWGFSNFMAWSEVTDPEKGFIDDDKVTFEVFVQADAPHG  152 (155)
T ss_dssp             ECCSSCGGGCEEEE---EEEEEETTBCEEEEEEEEEHHHHTCTTTSSCBTTBEEEEEEEEECCCBS
T ss_pred             EEcCCCCcceEEec---cEEEeCCCCCCEeECCeEEHHHhcCcCCCceECCEEEEEEEEEEeCccc
Confidence            99999875333222   5678877668899999999999998889999999999999999987765

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

Probab=99.97  E-value=5.8e-31  Score=228.48  Aligned_cols=179  Identities=24%  Similarity=0.383  Sum_probs=140.1

Q ss_pred             cCCCceEEEEEcCccccccccCCeeEeccEEECCe---eeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEEEEE
Q 024960           12 SLPPADYSLKIESFKLLSKSTVESFESGVFKSGGY---NWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVY   88 (260)
Q Consensus        12 ~~~~g~~~w~I~~fs~~~~~~~~~~~S~~F~~gg~---~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v~~~   88 (260)
                      ++..|+|+|+|+|||.++...++.+.||+|.+|||   +|+|++||+|.. ++..+|+|+||.|.+.+    + |+++|+
T Consensus         3 ~~~~~~~~w~I~nfs~~~~~~~~~i~S~~F~~gg~~~~~W~i~~yP~G~~-~~~~~~lslyL~~~~~~----~-~~v~a~   76 (312)
T 3hqi_A            3 KVVKFSYMWTINNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGLD-EESKDYLSLYLLLVSCP----K-SEVRAK   76 (312)
T ss_dssp             EEEEEEEEEEETTGGGCCCCTTCCEECCCBCC--CCCCEEEEEEETTCCC---CTTEEEEEEEEEECC----C--CEEEE
T ss_pred             ceEEEEEEEEEcCcchhhhcCCCeEeeCCcccCCCCCceEEEEEECCCCC-ccCCCcEEEEEEEcCCC----C-CcEEEE
Confidence            34578999999999999743468999999999985   999999999976 34578999999998654    2 999999


Q ss_pred             EEEEEEeCcCCceeEEeccCCCceeccCCCCCcccccccccccccCCCCCceeCCEEEEEEEEEEecCCCc---cceeec
Q 024960           89 YKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTDS---EEILSL  165 (260)
Q Consensus        89 ~~~~l~n~~~~~~~~~~~~~~~~~~F~~~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~v~~~~~~---~~~~~~  165 (260)
                      |+|+|+|++++.......  ...++|... .+|||.+||+|++|+++.+|||+||+|+|+|+|+|++....   .+....
T Consensus        77 ~~~~l~~~~~~~~~~~~~--~~~~~F~~~-~~wG~~~Fi~~~~L~~~~~~yl~dD~l~i~~~v~v~~~~~~~~~~~~~~~  153 (312)
T 3hqi_A           77 FKFSILNAKGEETKAMES--QRAYRFVQG-KDWGFKKFIRRGFLLDEANGLLPDDKLTLFCEVSVVQDSVNISGQNTMNM  153 (312)
T ss_dssp             EEEEEECTTSCEEEEEEC--SSCEEECTT-CEEEEEEEEEHHHHTCGGGCCCGGGCEEEEEEEEEEEECCCEECCCCCSS
T ss_pred             EEEEEEeCCCCccccccc--CCceeCCCC-CCcCHHHhccHHHhhccccCeecCCEEEEEEEEEEEeccccccccccccc
Confidence            999999999987655432  256788754 68999999999999877789999999999999999976432   122344


Q ss_pred             ccCCCCcceEEEeCCccCcC-CceeecCceEeCCeEEEE
Q 024960          166 VSDPADGNYRFNIPAFGSVG-DTVQRSSEFTVGERNWQL  203 (260)
Q Consensus       166 i~~p~~~~~~~~i~~fs~l~-~~~~~s~~f~vgg~~w~l  203 (260)
                      +.+|++..    .+++..+. .+.++|++|.|+|.+|+.
T Consensus       154 ~~~p~~~l----~~~l~~l~~~~~~~Dv~l~v~~~~f~~  188 (312)
T 3hqi_A          154 VKVPECRL----ADELGGLWENSRFTDCCLCVAGQEFQA  188 (312)
T ss_dssp             CCCCCCCH----HHHHHHHHHTTCSCCEEEEETTEEEEE
T ss_pred             cCCCCchH----HHHHHHHHhCCCCCceEEEECCEEEeH
Confidence            66777654    45676655 467899999999988755

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

Probab=99.96  E-value=1e-29  Score=203.31  Aligned_cols=144  Identities=22%  Similarity=0.314  Sum_probs=114.3

Q ss_pred             ccCCCceEEEEEcCccccccc---c-CCeeEeccEEEC--CeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCC-CCCCCc
Q 024960           11 RSLPPADYSLKIESFKLLSKS---T-VESFESGVFKSG--GYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNP-HPDGTW   83 (260)
Q Consensus        11 ~~~~~g~~~w~I~~fs~~~~~---~-~~~~~S~~F~~g--g~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~-~~~~~w   83 (260)
                      ..+..|+|+|+|+|||.+++.   + +..++||+|.+|  ||+|+|++||+|+. .+..+||||||.|.+++. ...+ |
T Consensus        19 ~~~~~g~~~w~I~~fS~~~~~~~~g~~~~i~S~~F~~g~~G~~W~i~~yP~G~~-~~~~~~lSlyL~l~~~~~d~~l~-W   96 (178)
T 4gjh_A           19 GACYSGKLIWKVTDYRVKKREAVEGHTVSVFSQPFYTSRCGYRLCARAYLNGDG-SGKGTHLSLYFVVMRGEFDSLLQ-W   96 (178)
T ss_dssp             HCCSSSEEEEEECCHHHHHHHHHTTSCCCEECCCEESSTTSCEEEEEEETTCCG-GGTTTEEEEEEEEBCCTTGGGSC-S
T ss_pred             CcccceEEEEEECCHHHHHhhhhcCCCcEEECCCeEeCCCCeEEEEEEEECCCC-CCCCCEEEEEEEEecCCCCcccC-C
Confidence            357789999999999998752   2 348999999999  99999999999986 334689999999987643 1234 9


Q ss_pred             EEEEEEEEEEEeCcCCceeEEec--cCCCceeccC----CCCCcccccccccccccCCCCCceeCCEEEEEEEEEEecC
Q 024960           84 NVNVYYKLFVYDQVSNQYLVVQD--AKAPMRRFDR----RKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKP  156 (260)
Q Consensus        84 ~v~~~~~~~l~n~~~~~~~~~~~--~~~~~~~F~~----~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~v~~~  156 (260)
                      +++|+|+|+|+||.++.......  .+...+.|..    ...+|||.+||++++|++++++||+||+|+|+|+|.|.+.
T Consensus        97 ~v~a~~~l~Lldq~~~~~~~~~~~~~~~~~~~F~~p~~~~~~~wG~~~Fi~~~~L~~~~~~yL~dD~l~I~~~V~i~~~  175 (178)
T 4gjh_A           97 PFRQRVTLMLLDQSGKKNHIVETFKADPNSSSFKRPDGEMNIASGCPRFVSHSTLENSKNTYIKDDTLFLKVAVDLTDL  175 (178)
T ss_dssp             SCCCEEEEEECCTTSSCCCEEEEEECCTTCGGGSCCSSSBCCCEEEEEEEEHHHHHCTTCCSSBTTBEEEEEEECCTTC
T ss_pred             ceEEEEEEEEEcCCCCcceeEEeeccCCccccccCCcccccCCcChhheeEHHHhhccccCcCcCCEEEEEEEEEecCC
Confidence            99999999999999765333210  0113467763    3468999999999999977799999999999999976543

>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=99.95  E-value=1.2e-28  Score=193.77  Aligned_cols=141  Identities=21%  Similarity=0.272  Sum_probs=106.6

Q ss_pred             CCCceEEEEEcCcccccc-c-cCC--eeEeccEEEC--CeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCC-CCCCcEE
Q 024960           13 LPPADYSLKIESFKLLSK-S-TVE--SFESGVFKSG--GYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPH-PDGTWNV   85 (260)
Q Consensus        13 ~~~g~~~w~I~~fs~~~~-~-~~~--~~~S~~F~~g--g~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~-~~~~w~v   85 (260)
                      ...|+|+|+|+|||.+++ . .|+  .++||+|.+|  ||+|+|++||+|...+...+|||+||.+.+++.. ..+ |++
T Consensus         2 ~~~g~~~w~I~~fS~~~~~~~~g~~~~i~S~~F~vg~~Gy~w~i~~yP~G~~~~~~~~~lSlyL~l~~~~~d~~l~-wp~   80 (160)
T 1lb6_A            2 QCNGIYIWKIGNFGMHLKCQEEEKPVVIHSPGFYTGKPGYKLCMRLHLQLPTAQRCANYISLFVHTMQGEYDSHLP-WPF   80 (160)
T ss_dssp             CCCEEEEEEECCHHHHHHHHHTTCCEEEECCCEESSSSCCEEEEEEEECCTTCTTTTTEEEEEEEEECCTTGGGSC-SSC
T ss_pred             ccCcEEEEEECCHHHHHHhhhcCCCeEEECcCeecCCCCeeEEEEEEecCCCCCCCCCEEEEEEEEeecCCCccCC-Cce
Confidence            357999999999999875 2 255  8999999999  9999999999997632236899999999876542 234 999


Q ss_pred             EEEEEEEEEeCcCCcee----EEeccCCCceeccC-----CCCCcccccccccccccCCCCCceeCCEEEEEEEEEEecC
Q 024960           86 NVYYKLFVYDQVSNQYL----VVQDAKAPMRRFDR-----RKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKP  156 (260)
Q Consensus        86 ~~~~~~~l~n~~~~~~~----~~~~~~~~~~~F~~-----~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~v~~~  156 (260)
                      +|+|+|+|+||.+....    .....+.....|..     ...+|||.+||++++|+  +++||+||+|+|+|+|+|+.+
T Consensus        81 ~a~~~l~lldq~~~~~~~~~~~~~~~~~~~~~f~~p~~~~~~~~~G~~~Fi~~~~L~--~~~yl~dD~l~I~~~V~v~~~  158 (160)
T 1lb6_A           81 QGTIRLTILDQSEAPVRQNHEEIMDAKPELLAFQRPTIPRNPKGFGYVTFMHLEALR--QRTFIKDDTLLVRCEVSTRFD  158 (160)
T ss_dssp             CSEEEEEECCCSCTTSCCCEEEEEECCTTSGGGSCCSSSBCSEEEEEEEEEEGGGGG--TSCCCBTTBEEEEEEEEC---
T ss_pred             eeeEEEEEEcCCCccccccceEEeecCCcchhccCCcccCCCCCcCEeeEeEHHHhh--hCCCccCCEEEEEEEEEEeec
Confidence            99999999999875211    00000112234542     12379999999999999  689999999999999999865

>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=99.95  E-value=3.8e-29  Score=202.76  Aligned_cols=142  Identities=22%  Similarity=0.231  Sum_probs=112.1

Q ss_pred             cCCCceEEEEEcCcccccc---cc-CCeeEeccEEEC--CeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCC-CCCcE
Q 024960           12 SLPPADYSLKIESFKLLSK---ST-VESFESGVFKSG--GYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHP-DGTWN   84 (260)
Q Consensus        12 ~~~~g~~~w~I~~fs~~~~---~~-~~~~~S~~F~~g--g~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~-~~~w~   84 (260)
                      .+..|+|+|+|+|||.++.   .+ ++.++||+|.+|  ||+|+|++||+|+. .+..+||||||.+.+++... .+ |+
T Consensus        36 ~~~~g~~~w~I~nfS~~~~~~~~~~g~~i~S~~F~vg~~Gy~W~i~~yPnG~~-~~~~~~lSlyL~l~~g~~D~~l~-wp  113 (198)
T 4ghu_A           36 ASYNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDG-MGKGTHLSLFFVIMRGEYDALLP-WP  113 (198)
T ss_dssp             CCSSSEEEEEECCHHHHHHHHHTTSSCCEECCCEESSTTSCEEEEEEETTCCG-GGTTTEEEEEEEEECCTTGGGSC-SS
T ss_pred             cccccEEEEEECCHHHHHhhhccCCCcEEECCCeEECCCCcEEEEEEEeCCCC-CCCCCeEEEEEEecCCccCCCCC-ce
Confidence            4578999999999999875   22 578999999999  99999999999986 23468999999998765322 24 99


Q ss_pred             EEEEEEEEEEeCcCCceeEEecc--CCCceec----cCCCCCcccccccccccccCCCCCceeCCEEEEEEEEEEecCC
Q 024960           85 VNVYYKLFVYDQVSNQYLVVQDA--KAPMRRF----DRRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPT  157 (260)
Q Consensus        85 v~~~~~~~l~n~~~~~~~~~~~~--~~~~~~F----~~~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~v~~~~  157 (260)
                      ++|+|+|.|+||.+.........  +.....|    ...+.+|||.+||++++|+  ++|||+||+|+|+|+|+|+..+
T Consensus       114 ~~a~~~l~Lldq~~~~~~~~~~~~~~~~~~~f~rp~~~~~~~wG~~~Fi~~~~L~--~~gyL~dD~l~I~~~V~v~~~~  190 (198)
T 4ghu_A          114 FKQKVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMNIASGCPVFVAQTVLE--NGTYIKDDTIFIKVIVDTSDLP  190 (198)
T ss_dssp             CCCCEEEEECCCSTTCCCEEEEECCCTTSGGGSCCSSSBCCCEEEEEEEEHHHHH--HTTSCBTTBEEEEEEECCTTCC
T ss_pred             EEEEEEEEEEcCCCCccceEEEeecCcccceecCCcccCcCCcCchhEeEHHHhh--hcCCeeCCEEEEEEEEEeccCC
Confidence            99999999999997643332110  0111233    3345789999999999999  5899999999999999887754

>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=99.95  E-value=5.1e-28  Score=195.77  Aligned_cols=140  Identities=22%  Similarity=0.293  Sum_probs=110.3

Q ss_pred             CCCceEEEEEcCccccccc--cCC--eeEeccEEE--CCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCC-CCCcEE
Q 024960           13 LPPADYSLKIESFKLLSKS--TVE--SFESGVFKS--GGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHP-DGTWNV   85 (260)
Q Consensus        13 ~~~g~~~w~I~~fs~~~~~--~~~--~~~S~~F~~--gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~-~~~w~v   85 (260)
                      ...|+|+|+|+|||.+++.  .|+  .++||+|.+  |||+|+|++||+|+. .+..+|||+||.+.+++..+ .+ |++
T Consensus        40 ~~~g~~~w~I~nfS~~~~~~~~g~~~~i~S~~F~v~~gG~~W~i~~yP~G~~-~~~~~~lSlyL~l~~~~~~~~~~-W~~  117 (192)
T 1ca9_A           40 TYDGVFIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDG-TGRGTHLSLFFVVMKGPNDALLR-WPF  117 (192)
T ss_dssp             CSSSEEEEEEESHHHHHHHHHTTSSCCEECCCEESSTTSCEEEEEEETTCCG-GGTTTEEEEEEEEECCTTGGGSC-SSC
T ss_pred             ccCceEEEEECCHHHHHHHhhcCCCceEECceEEeCCCCeEEEEEEEeCCCC-CCCCCEEEEEEEEccCCCCCcCC-Cce
Confidence            5789999999999998752  244  699999999  999999999999976 23468999999998775433 45 999


Q ss_pred             EEEEEEEEEeCcCCceeEEe-ccCCCceeccC----CCCCcccccccccccccCCCCCceeCCEEEEEEEEEEec
Q 024960           86 NVYYKLFVYDQVSNQYLVVQ-DAKAPMRRFDR----RKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVK  155 (260)
Q Consensus        86 ~~~~~~~l~n~~~~~~~~~~-~~~~~~~~F~~----~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~v~~  155 (260)
                      +|+|+|.|+||.+....... ..+.....|..    ...+|||.+||++++|++ .++||+||+|+|+|+|+|.+
T Consensus       118 ~a~~~l~lldq~~~~~~~~~~~~~~~~~~f~rp~~~~~~~wG~~~Fi~~~~L~~-~~gyl~dD~l~I~~~V~V~~  191 (192)
T 1ca9_A          118 NQKVTLMLLDQNNREHVIDAFRPDVTSSSFQRPVNDMNIASGCPLFCPVSKMEA-KNSYVRDDAIFIKAIVDLTG  191 (192)
T ss_dssp             CCCEEEEECCTTSSCCEEEEECCCTTSGGGSCCSSSBCCCEEEEEEEETHHHHS-SCSSCBTTEEEEEEEECCTT
T ss_pred             EEEEEEEEECCCCCceeeEeeccCCchhhhcCCccCCCCCcChhheeEHHHhhh-ccCCEeCCEEEEEEEEEecC
Confidence            99999999999987432211 00012234642    346899999999999986 57999999999999998754

>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=99.94  E-value=6.2e-28  Score=191.27  Aligned_cols=140  Identities=22%  Similarity=0.277  Sum_probs=108.7

Q ss_pred             CCCceEEEEEcCccccccc--cCC--eeEeccEE--ECCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCC-CCCcEE
Q 024960           13 LPPADYSLKIESFKLLSKS--TVE--SFESGVFK--SGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHP-DGTWNV   85 (260)
Q Consensus        13 ~~~g~~~w~I~~fs~~~~~--~~~--~~~S~~F~--~gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~-~~~w~v   85 (260)
                      ...|+|+|+|+|||.+++.  .++  .++||+|.  +|||+|+|++||+|.. .+..+|||+||.|.++...+ .+ |++
T Consensus        16 ~~~g~~~w~I~nfS~~~~~~~~g~~~~i~S~~F~~~~gG~~W~i~~yP~G~~-~~~~~~lSlyL~l~~~~~~~~~~-w~~   93 (168)
T 1d00_A           16 TYDGVFIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDG-TGRGTHLSLFFVVMKGPNDALLR-WPF   93 (168)
T ss_dssp             CSSSEEEEEEESHHHHHHHHHTTSSCCEECCCEESSTTSCEEEEEEETTCCG-GGTTTEEEEEEEEECCTTGGGSC-SSC
T ss_pred             ccCCEEEEEECCHHHHHHHhhcCCCeEEECCCeecCCCCEEEEEEEEeCCCC-CCCCcEEEEEEEEecCCCCccCC-Cce
Confidence            4789999999999999753  244  49999996  7899999999999976 23468999999998765433 35 999


Q ss_pred             EEEEEEEEEeCcCCceeEEec-cCCCceeccC----CCCCcccccccccccccCCCCCceeCCEEEEEEEEEEec
Q 024960           86 NVYYKLFVYDQVSNQYLVVQD-AKAPMRRFDR----RKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVK  155 (260)
Q Consensus        86 ~~~~~~~l~n~~~~~~~~~~~-~~~~~~~F~~----~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~v~~  155 (260)
                      +|+|+|+|+||.+.......- .......|..    ...+|||.+||++++|+++ ++||+||+|+|+|+|+|.+
T Consensus        94 ~~~~~l~ll~q~~~~~~~~~~~~~~~~~~f~~p~~~~~~~~G~~~Fi~~~~L~~~-~gyl~dD~l~I~~~V~v~~  167 (168)
T 1d00_A           94 NQKVTLMLLDQNNREHVIDAFRPDVTSSSFQRPVNDMNIASGCPLFCPVSKMEAK-NSYVRDDAIFIKAIVDLTG  167 (168)
T ss_dssp             CCCEEEEECCTTSSCCEEEEECCCTTSGGGSCCSSSBCCCEEEEEEEETTTTTSS-SSSSBTTEEEEEEEECCTT
T ss_pred             EEEEEEEEECCCCCccceeccccCcchhhccCCCcCCCCCcCcceEeEHHHhccc-CCceeCCEEEEEEEEEecC
Confidence            999999999999865332110 0001235653    3578999999999999953 3999999999999998743

>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=99.94  E-value=4.3e-28  Score=196.03  Aligned_cols=138  Identities=22%  Similarity=0.269  Sum_probs=109.3

Q ss_pred             CCceEEEEEcCcccccc-cc-CC--eeEeccEEEC--CeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCC-CCCcEEE
Q 024960           14 PPADYSLKIESFKLLSK-ST-VE--SFESGVFKSG--GYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHP-DGTWNVN   86 (260)
Q Consensus        14 ~~g~~~w~I~~fs~~~~-~~-~~--~~~S~~F~~g--g~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~-~~~w~v~   86 (260)
                      ..|+|+|+|+|||.+++ .+ |+  .++||+|.+|  ||+|+|++||+|+. .+..+|||+||.+.+++.++ .+ |+++
T Consensus        38 ~~g~~~w~I~~fS~~~~~~~~g~~~~i~S~~F~vg~~Gykw~i~~yPnG~~-~~~~~~lSlyL~l~~~~~d~~l~-wp~~  115 (192)
T 2gkw_A           38 YNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDG-MGKGTHLSLFFVIMRGEYDALLP-WPFK  115 (192)
T ss_dssp             CSSEEEEEEECHHHHHHHHHHTSCSCEECCCEESSTTSCEEEEEEETTCCG-GGTTTEEEEEEEEECCTTGGGSC-SSCC
T ss_pred             cCcEEEEEECCHHHHHHHhhcCCCceEEcccEEECCCCcEEEEEEEeCCCC-CCCCCEEEEEEEEecCCCCccCC-CcEE
Confidence            78999999999999974 22 45  5999999999  99999999999976 24568999999998765432 35 9999


Q ss_pred             EEEEEEEEeCcCCceeEEec--cCCCceeccC----CCCCcccccccccccccCCCCCceeCCEEEEEEEEEEec
Q 024960           87 VYYKLFVYDQVSNQYLVVQD--AKAPMRRFDR----RKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVK  155 (260)
Q Consensus        87 ~~~~~~l~n~~~~~~~~~~~--~~~~~~~F~~----~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~v~~  155 (260)
                      |+|+|+|+||.+........  .....+.|..    .+.+|||.+||++++|+  ++|||+||+|+|+|+|.|..
T Consensus       116 a~~~l~lldq~~~~~~~~~~~~~~~~~~~F~~~~~~~~~~wG~~~Fi~~~~L~--~~gyl~dD~l~I~~~V~v~~  188 (192)
T 2gkw_A          116 QKVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMNIASGCPVFVAQTVLE--NGTYIKDDTIFIKVIVDTSD  188 (192)
T ss_dssp             CCEEEEECCCSTTCCCEEEEECCCTTCTTSSCCSSSBCCCEEEEEEEEHHHHH--HTTSCBTTEEEEEEEECCTT
T ss_pred             EEEEEEEECCCCCccceEEEEecCCCcccccCCCCCCcCCCChHHEeEHHHhC--cCCCeeCCEEEEEEEEEcCC
Confidence            99999999999875432211  0112356753    24689999999999999  46999999999999997644

>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=99.93  E-value=4.4e-27  Score=194.91  Aligned_cols=140  Identities=22%  Similarity=0.245  Sum_probs=110.7

Q ss_pred             CCCceEEEEEcCcccccc-cc-C--CeeEeccEEEC--CeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCC-CCCcEE
Q 024960           13 LPPADYSLKIESFKLLSK-ST-V--ESFESGVFKSG--GYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHP-DGTWNV   85 (260)
Q Consensus        13 ~~~g~~~w~I~~fs~~~~-~~-~--~~~~S~~F~~g--g~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~-~~~w~v   85 (260)
                      ...|+|+|+|+|||.++. .+ |  ..++||+|.+|  ||+|+|++||+|.. .+..+|||+||.+.+++..+ .+ |++
T Consensus        73 ~~~g~~~wkI~nfS~~~~~~~~g~~~~i~S~~F~vg~~Gy~w~i~~yPnG~~-~~~~~~lSlyL~l~~~~~d~~l~-Wp~  150 (228)
T 1flk_A           73 SYNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDG-MGKGTHLSLFFVIMRGEYDALLP-WPF  150 (228)
T ss_dssp             CSSSEEEEEEECHHHHHHHHHTTSCCCEECCCEESSTTSCEECEEEETTCCG-GGTTTEEEEEECCBCCTTTTSSC-SSC
T ss_pred             CcCcEEEEEECCHHHHHHHhhcCCCeeEECceEEeCCCCcEEEEEEEcCCCC-CCCCCEEEEEEEEecCCccccCC-CcE
Confidence            478999999999999875 22 3  38999999999  99999999999986 34568999999998765432 35 999


Q ss_pred             EEEEEEEEEeCcCCceeEEec--cCCCceeccC----CCCCcccccccccccccCCCCCceeCCEEEEEEEEEEecC
Q 024960           86 NVYYKLFVYDQVSNQYLVVQD--AKAPMRRFDR----RKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKP  156 (260)
Q Consensus        86 ~~~~~~~l~n~~~~~~~~~~~--~~~~~~~F~~----~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~v~~~  156 (260)
                      .|+|+|+|+||.+........  .+.....|..    .+.+|||.+||++++|+  ++|||+||+|+|+|+|.|.+.
T Consensus       151 ~a~~~l~lldq~~~~~~~~~~~~~~~~~~~F~rp~~~~~~~wG~~~Fi~~~~L~--~~gyL~dD~l~I~~~V~v~~~  225 (228)
T 1flk_A          151 KQKVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMNIASGCPVFVAQTVLE--NGTYIKDDTIFIKVIVDTSDL  225 (228)
T ss_dssp             CCCEEEEECCCSSSCCCEEEEECCCTTCTTSSSCSSSBCCCCSEEEEEEHHHHS--SSTTCCSSEEEEEEECCCTTS
T ss_pred             EEEEEEEEEcCCCCccceeeeecCCCccccccCCccCCCCCcCHHHeeEHHHHc--cCCCccCCEEEEEEEEEcccc
Confidence            999999999999875432210  0112335642    34689999999999999  489999999999999987653

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

Probab=99.92  E-value=2.4e-25  Score=205.79  Aligned_cols=136  Identities=19%  Similarity=0.388  Sum_probs=110.9

Q ss_pred             CCCceEEEEEcCccccccccCCeeEeccEEECCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEEEEEEEEE
Q 024960           13 LPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVYYKLF   92 (260)
Q Consensus        13 ~~~g~~~w~I~~fs~~~~~~~~~~~S~~F~~gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v~~~~~~~   92 (260)
                      ...++|+|+|+|||.+++    .++|++|.+||++|+|.+||+|+...+..+|||+||.|.+. ..+.+ |.++|+|+|.
T Consensus        28 ~~~~~~~w~I~nfS~~~~----~~~S~~F~vgg~~W~i~~yP~G~~~~~~~~~lSlyL~~~~~-~~~~~-w~v~a~f~l~  101 (522)
T 2f1z_A           28 RSEATFQFTVERFSRLSE----SVLSPPCFVRNLPWKIMVMPRFYPDRPHQKSVGFFLQCNAE-SDSTS-WSCHAQAVLK  101 (522)
T ss_dssp             CSEEEEEEEESSCTTCCS----CEECCCEEETTEEEEEEECBC--------CBBCEEEEESTT-CCCSS-CBEEEEEEEE
T ss_pred             cCCcEEEEEECChhhcCC----ceeCCCEEECCEeeEEEEEeCCCCCCCCCCeEEEEEEecCC-CCCCC-ceEEEEEEEE
Confidence            568999999999999864    79999999999999999999997522256899999999876 34556 9999999999


Q ss_pred             EEeCcCCceeEEeccCCCceeccCCCCCcccccccccccccCCCCCceeCCEEEEEEEEEEecCC
Q 024960           93 VYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPT  157 (260)
Q Consensus        93 l~n~~~~~~~~~~~~~~~~~~F~~~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~v~~~~  157 (260)
                      |+|+.++.....+.   ..++|.....+|||.+||++++|.++++|||+||+++|+|+|+|..++
T Consensus       102 l~n~~~~~~~~~~~---~~~~F~~~~~~wG~~~Fi~~~~L~~~~~g~L~nD~l~i~~~V~v~~p~  163 (522)
T 2f1z_A          102 IINYRDDEKSFSRR---ISHLFFHKENDWGFSNFMAWSEVTDPEKGFIDDDKVTFEVFVQADAPH  163 (522)
T ss_dssp             ECCTTCGGGCEEEE---CCEEECGGGCEEEESSSSBHHHHSCGGGSSCBTTBEEEEEEEEECCCB
T ss_pred             EEcCCCCccceecc---ceeEecCCCCCcchhheeEhhHhcCcccCcccCCcEEEEEEeeccccc
Confidence            99998765443322   567887666789999999999998778999999999999999997543

>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=99.68  E-value=1.6e-16  Score=123.78  Aligned_cols=82  Identities=16%  Similarity=0.179  Sum_probs=67.5

Q ss_pred             CCCCcceEEEeCCccCcCCceeecCceEeCCeEEEEEEEcCCCCC-CCCCeEEEEEEecCCccCCCCCcEEEEEEEEEec
Q 024960          168 DPADGNYRFNIPAFGSVGDTVQRSSEFTVGERNWQLVVYPAGSGA-DRGNFLTVSLKLADYQTVSRKKPVYAEFKFKIPN  246 (260)
Q Consensus       168 ~p~~~~~~~~i~~fs~l~~~~~~s~~f~vgg~~w~l~~~p~G~~~-~~~~~~s~yL~~~~~~~~~~~~~~~~~f~l~l~~  246 (260)
                      .++...|+|+|.||+.+. +.+.|++|.+||++|+|.+||+|+.. +.++|||+||+|.. +.++.+|+++|+|+|+|+|
T Consensus        15 ~~~~~~~~w~I~nfS~~~-~~~~S~~f~~gg~~W~i~~yP~G~~~~~~~~~lSlyL~~~~-~~~~~~w~v~a~~~l~l~~   92 (155)
T 2foj_A           15 WRSEATFQFTVERFSRLS-ESVLSPPCFVRNLPWKIMVMPRFYPDRPHQKSVGFFLQCNA-ESDSTSWSCHAQAVLKIIN   92 (155)
T ss_dssp             TCSEEEEEEEESSGGGCC-SCEECCCEEETTEEEEEEEEEEC------CBEEEEEEEEST-TCCCSSCEEEEEEEEEECC
T ss_pred             cCCCcEEEEEECChhhcC-CceEcCCEEECCccEEEEEEECCCCCCCCCCEEEEEEEeCC-CCCCCCCEEEEEEEEEEEc
Confidence            345688999999999995 77889999999999999999999865 35789999999853 4556689999999999999


Q ss_pred             CCCCC
Q 024960          247 QYSRN  251 (260)
Q Consensus       247 q~~~~  251 (260)
                      |.++.
T Consensus        93 ~~~~~   97 (155)
T 2foj_A           93 YRDDE   97 (155)
T ss_dssp             SSCGG
T ss_pred             CCCCc
Confidence            98764

>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=99.67  E-value=2.7e-16  Score=121.15  Aligned_cols=80  Identities=30%  Similarity=0.483  Sum_probs=69.6

Q ss_pred             CCcceEEEeCCccCcCC---ceeecCceEeCCe---EEEEEEEcCCCCCCCCCeEEEEEEecCCccCCCCCcEEEEEEEE
Q 024960          170 ADGNYRFNIPAFGSVGD---TVQRSSEFTVGER---NWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFK  243 (260)
Q Consensus       170 ~~~~~~~~i~~fs~l~~---~~~~s~~f~vgg~---~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~~~~~~~~~f~l~  243 (260)
                      ....|+|+|.||+.+++   +.+.|++|.+|||   +|+|.+||+|+..+.++|||+||++.+.    +.|+++|+|+|+
T Consensus         9 ~~~~~~w~I~~fs~~~~~~g~~~~S~~F~~gg~~g~~W~i~~yP~G~~~~~~~~lSlyL~l~~~----~~w~v~a~f~l~   84 (145)
T 3ivv_A            9 VKFSYMWTINNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGLDEESKDYLSLYLLLVSC----PKSEVRAKFKFS   84 (145)
T ss_dssp             CEEEEEEEESSGGGCCCCTTCCEECCCEEESGGGCEEEEEEEETTCSSGGGTTEEEEEEEEEEC----SSSEEEEEEEEE
T ss_pred             EEEEEEEEEcCchHHhhcCCCEEECCCcCCCCcCCceEEEEEEcCCCCCCCCCeEEEEEEEcCC----CCCcEEEEEEEE
Confidence            34779999999999873   5788999999996   9999999999887667899999999864    479999999999


Q ss_pred             EecCCCCCcc
Q 024960          244 IPNQYSRNRA  253 (260)
Q Consensus       244 l~~q~~~~~~  253 (260)
                      |+||.+.++.
T Consensus        85 llnq~~~~~~   94 (145)
T 3ivv_A           85 ILNAKGEETK   94 (145)
T ss_dssp             EECTTSCEEE
T ss_pred             EEecCCCcee
Confidence            9999877654

>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=99.66  E-value=3.6e-17  Score=131.95  Aligned_cols=85  Identities=19%  Similarity=0.279  Sum_probs=73.7

Q ss_pred             CCCcceEEEeCCccCcCCc-------eeecCceEe--CCeEEEEEEEcCCCCCCCCCeEEEEEEecCCccCC-CCCcEEE
Q 024960          169 PADGNYRFNIPAFGSVGDT-------VQRSSEFTV--GERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVS-RKKPVYA  238 (260)
Q Consensus       169 p~~~~~~~~i~~fs~l~~~-------~~~s~~f~v--gg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~-~~~~~~~  238 (260)
                      +..+.|+|+|.+|+.++++       .+.|++|.+  ||++|+|.+||+|++.+.++|+|+||++.+++..+ .+|+++|
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            4568899999999998632       388999999  99999999999998876678999999998876554 6899999


Q ss_pred             EEEEEEecCCCCCcc
Q 024960          239 EFKFKIPNQYSRNRA  253 (260)
Q Consensus       239 ~f~l~l~~q~~~~~~  253 (260)
                      +|+|+|+||.+.++.
T Consensus       120 ~~~l~lldq~~~~~~  134 (192)
T 1ca9_A          120 KVTLMLLDQNNREHV  134 (192)
T ss_dssp             CEEEEECCTTSSCCE
T ss_pred             EEEEEEECCCCCcee
Confidence            999999999887654

>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=99.64  E-value=8.9e-17  Score=129.98  Aligned_cols=81  Identities=17%  Similarity=0.181  Sum_probs=70.5

Q ss_pred             CCcceEEEeCCccCcCC-------ceeecCceEeC--CeEEEEEEEcCCCCCCCCCeEEEEEEecCCccC-CCCCcEEEE
Q 024960          170 ADGNYRFNIPAFGSVGD-------TVQRSSEFTVG--ERNWQLVVYPAGSGADRGNFLTVSLKLADYQTV-SRKKPVYAE  239 (260)
Q Consensus       170 ~~~~~~~~i~~fs~l~~-------~~~~s~~f~vg--g~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~-~~~~~~~~~  239 (260)
                      ..+.|+|+|.+|+.+++       +.+.|++|.+|  |++|+|.+||+|++.+.++|||+||++.+++.. ...|+++|+
T Consensus        38 ~~g~~~w~I~nfS~~~~~~~~~~g~~i~S~~F~vg~~Gy~W~i~~yPnG~~~~~~~~lSlyL~l~~g~~D~~l~wp~~a~  117 (198)
T 4ghu_A           38 YNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDGMGKGTHLSLFFVIMRGEYDALLPWPFKQK  117 (198)
T ss_dssp             SSSEEEEEECCHHHHHHHHHTTSSCCEECCCEESSTTSCEEEEEEETTCCGGGTTTEEEEEEEEECCTTGGGSCSSCCCC
T ss_pred             cccEEEEEECCHHHHHhhhccCCCcEEECCCeEECCCCcEEEEEEEeCCCCCCCCCeEEEEEEecCCccCCCCCceEEEE
Confidence            46889999999998863       36899999999  999999999999987778999999999876543 348999999


Q ss_pred             EEEEEecCCCC
Q 024960          240 FKFKIPNQYSR  250 (260)
Q Consensus       240 f~l~l~~q~~~  250 (260)
                      |+|+|+||.+.
T Consensus       118 ~~l~Lldq~~~  128 (198)
T 4ghu_A          118 VTLMLMDQGSS  128 (198)
T ss_dssp             EEEEECCCSTT
T ss_pred             EEEEEEcCCCC
Confidence            99999999754

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

Probab=99.64  E-value=1.5e-16  Score=126.71  Aligned_cols=83  Identities=12%  Similarity=0.160  Sum_probs=70.6

Q ss_pred             CCCcceEEEeCCccCcCCc-------eeecCceEeC--CeEEEEEEEcCCCCCCCCCeEEEEEEecCCcc-CCCCCcEEE
Q 024960          169 PADGNYRFNIPAFGSVGDT-------VQRSSEFTVG--ERNWQLVVYPAGSGADRGNFLTVSLKLADYQT-VSRKKPVYA  238 (260)
Q Consensus       169 p~~~~~~~~i~~fs~l~~~-------~~~s~~f~vg--g~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~-~~~~~~~~~  238 (260)
                      ...+.|+|+|.+|+.++++       .+.|++|.||  ||+|+|.+||+|++.+.++|+|+||++.+++. ....|+++|
T Consensus        21 ~~~g~~~w~I~~fS~~~~~~~~g~~~~i~S~~F~~g~~G~~W~i~~yP~G~~~~~~~~lSlyL~l~~~~~d~~l~W~v~a  100 (178)
T 4gjh_A           21 CYSGKLIWKVTDYRVKKREAVEGHTVSVFSQPFYTSRCGYRLCARAYLNGDGSGKGTHLSLYFVVMRGEFDSLLQWPFRQ  100 (178)
T ss_dssp             CSSSEEEEEECCHHHHHHHHHTTSCCCEECCCEESSTTSCEEEEEEETTCCGGGTTTEEEEEEEEBCCTTGGGSCSSCCC
T ss_pred             ccceEEEEEECCHHHHHhhhhcCCCcEEECCCeEeCCCCeEEEEEEEECCCCCCCCCEEEEEEEEecCCCCcccCCceEE
Confidence            3467899999999988631       6899999999  99999999999998777799999999977653 235799999


Q ss_pred             EEEEEEecCCCCC
Q 024960          239 EFKFKIPNQYSRN  251 (260)
Q Consensus       239 ~f~l~l~~q~~~~  251 (260)
                      +|+|+|+||.+..
T Consensus       101 ~~~l~Lldq~~~~  113 (178)
T 4gjh_A          101 RVTLMLLDQSGKK  113 (178)
T ss_dssp             EEEEEECCTTSSC
T ss_pred             EEEEEEEcCCCCc
Confidence            9999999998643

>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=99.64  E-value=1.8e-16  Score=124.10  Aligned_cols=80  Identities=19%  Similarity=0.219  Sum_probs=68.2

Q ss_pred             CcceEEEeCCccCcCCc-------eeecCceEeC--CeEEEEEEEcCCCCCCC-CCeEEEEEEecCCccC-CCCCcEEEE
Q 024960          171 DGNYRFNIPAFGSVGDT-------VQRSSEFTVG--ERNWQLVVYPAGSGADR-GNFLTVSLKLADYQTV-SRKKPVYAE  239 (260)
Q Consensus       171 ~~~~~~~i~~fs~l~~~-------~~~s~~f~vg--g~~w~l~~~p~G~~~~~-~~~~s~yL~~~~~~~~-~~~~~~~~~  239 (260)
                      .+.|+|+|.+|+.++++       .+.|++|.+|  ||+|+|.+||+|++.+. ++|+|+||++.+++.. ..+|+++|+
T Consensus         4 ~g~~~w~I~~fS~~~~~~~~g~~~~i~S~~F~vg~~Gy~w~i~~yP~G~~~~~~~~~lSlyL~l~~~~~d~~l~wp~~a~   83 (160)
T 1lb6_A            4 NGIYIWKIGNFGMHLKCQEEEKPVVIHSPGFYTGKPGYKLCMRLHLQLPTAQRCANYISLFVHTMQGEYDSHLPWPFQGT   83 (160)
T ss_dssp             CEEEEEEECCHHHHHHHHHTTCCEEEECCCEESSSSCCEEEEEEEECCTTCTTTTTEEEEEEEEECCTTGGGSCSSCCSE
T ss_pred             CcEEEEEECCHHHHHHhhhcCCCeEEECcCeecCCCCeeEEEEEEecCCCCCCCCCEEEEEEEEeecCCCccCCCceeee
Confidence            46799999999988632       6889999999  99999999999987653 7899999999876544 347999999


Q ss_pred             EEEEEecCCCC
Q 024960          240 FKFKIPNQYSR  250 (260)
Q Consensus       240 f~l~l~~q~~~  250 (260)
                      |+|+|+||.+.
T Consensus        84 ~~l~lldq~~~   94 (160)
T 1lb6_A           84 IRLTILDQSEA   94 (160)
T ss_dssp             EEEEECCCSCT
T ss_pred             EEEEEEcCCCc
Confidence            99999999764

>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=99.63  E-value=9.8e-17  Score=126.62  Aligned_cols=84  Identities=19%  Similarity=0.274  Sum_probs=71.8

Q ss_pred             CCcceEEEeCCccCcCCc-------eeecCceE--eCCeEEEEEEEcCCCCCCCCCeEEEEEEecCCccCC-CCCcEEEE
Q 024960          170 ADGNYRFNIPAFGSVGDT-------VQRSSEFT--VGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVS-RKKPVYAE  239 (260)
Q Consensus       170 ~~~~~~~~i~~fs~l~~~-------~~~s~~f~--vgg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~-~~~~~~~~  239 (260)
                      ..+.|+|+|.+|+.+++.       .+.|++|.  +||++|+|.+||+|++.+.++|+|+||++.+++..+ .+|+++|+
T Consensus        17 ~~g~~~w~I~nfS~~~~~~~~g~~~~i~S~~F~~~~gG~~W~i~~yP~G~~~~~~~~lSlyL~l~~~~~~~~~~w~~~~~   96 (168)
T 1d00_A           17 YDGVFIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGTGRGTHLSLFFVVMKGPNDALLRWPFNQK   96 (168)
T ss_dssp             SSSEEEEEEESHHHHHHHHHTTSSCCEECCCEESSTTSCEEEEEEETTCCGGGTTTEEEEEEEEECCTTGGGSCSSCCCC
T ss_pred             cCCEEEEEECCHHHHHHHhhcCCCeEEECCCeecCCCCEEEEEEEEeCCCCCCCCcEEEEEEEEecCCCCccCCCceEEE
Confidence            457899999999998631       27899996  899999999999998876678999999998876554 68999999


Q ss_pred             EEEEEecCCCCCcc
Q 024960          240 FKFKIPNQYSRNRA  253 (260)
Q Consensus       240 f~l~l~~q~~~~~~  253 (260)
                      |+|+|+||.+.+++
T Consensus        97 ~~l~ll~q~~~~~~  110 (168)
T 1d00_A           97 VTLMLLDQNNREHV  110 (168)
T ss_dssp             EEEEECCTTSSCCE
T ss_pred             EEEEEECCCCCccc
Confidence            99999999887654

>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=99.62  E-value=1.6e-16  Score=128.08  Aligned_cols=81  Identities=17%  Similarity=0.199  Sum_probs=70.3

Q ss_pred             CCcceEEEeCCccCcCCc-------eeecCceEeC--CeEEEEEEEcCCCCCCCCCeEEEEEEecCCccCC-CCCcEEEE
Q 024960          170 ADGNYRFNIPAFGSVGDT-------VQRSSEFTVG--ERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVS-RKKPVYAE  239 (260)
Q Consensus       170 ~~~~~~~~i~~fs~l~~~-------~~~s~~f~vg--g~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~-~~~~~~~~  239 (260)
                      ..+.|+|+|.+||.++++       .+.|++|.||  ||+|+|.+||+|++.+.++|+|+||++.+++.++ .+|+++|+
T Consensus        38 ~~g~~~w~I~~fS~~~~~~~~g~~~~i~S~~F~vg~~Gykw~i~~yPnG~~~~~~~~lSlyL~l~~~~~d~~l~wp~~a~  117 (192)
T 2gkw_A           38 YNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDGMGKGTHLSLFFVIMRGEYDALLPWPFKQK  117 (192)
T ss_dssp             CSSEEEEEEECHHHHHHHHHHTSCSCEECCCEESSTTSCEEEEEEETTCCGGGTTTEEEEEEEEECCTTGGGSCSSCCCC
T ss_pred             cCcEEEEEECCHHHHHHHhhcCCCceEEcccEEECCCCcEEEEEEEeCCCCCCCCCEEEEEEEEecCCCCccCCCcEEEE
Confidence            357899999999998621       4889999999  9999999999999876789999999998776543 47999999


Q ss_pred             EEEEEecCCCC
Q 024960          240 FKFKIPNQYSR  250 (260)
Q Consensus       240 f~l~l~~q~~~  250 (260)
                      |+|+|+||.+.
T Consensus       118 ~~l~lldq~~~  128 (192)
T 2gkw_A          118 VTLMLMDQGSS  128 (192)
T ss_dssp             EEEEECCCSTT
T ss_pred             EEEEEECCCCC
Confidence            99999999876

>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=99.59  E-value=3.8e-16  Score=129.14  Aligned_cols=82  Identities=17%  Similarity=0.193  Sum_probs=71.3

Q ss_pred             CCcceEEEeCCccCcCC-------ceeecCceEeC--CeEEEEEEEcCCCCCCCCCeEEEEEEecCCccCC-CCCcEEEE
Q 024960          170 ADGNYRFNIPAFGSVGD-------TVQRSSEFTVG--ERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVS-RKKPVYAE  239 (260)
Q Consensus       170 ~~~~~~~~i~~fs~l~~-------~~~~s~~f~vg--g~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~-~~~~~~~~  239 (260)
                      ..+.|+|+|.+||.++.       ..+.|++|.||  ||+|+|.+||+|++.+.++|+|+||++.+++..+ ..|++.|+
T Consensus        74 ~~g~~~wkI~nfS~~~~~~~~g~~~~i~S~~F~vg~~Gy~w~i~~yPnG~~~~~~~~lSlyL~l~~~~~d~~l~Wp~~a~  153 (228)
T 1flk_A           74 YNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDGMGKGTHLSLFFVIMRGEYDALLPWPFKQK  153 (228)
T ss_dssp             SSSEEEEEEECHHHHHHHHHTTSCCCEECCCEESSTTSCEECEEEETTCCGGGTTTEEEEEECCBCCTTTTSSCSSCCCC
T ss_pred             cCcEEEEEECCHHHHHHHhhcCCCeeEECceEEeCCCCcEEEEEEEcCCCCCCCCCEEEEEEEEecCCccccCCCcEEEE
Confidence            45789999999998863       16889999999  9999999999999877789999999998776553 48999999


Q ss_pred             EEEEEecCCCCC
Q 024960          240 FKFKIPNQYSRN  251 (260)
Q Consensus       240 f~l~l~~q~~~~  251 (260)
                      |+|+|+||.+.+
T Consensus       154 ~~l~lldq~~~~  165 (228)
T 1flk_A          154 VTLMLMDQGSSR  165 (228)
T ss_dssp             EEEEECCCSSSC
T ss_pred             EEEEEEcCCCCc
Confidence            999999998765

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

Probab=99.51  E-value=3.2e-14  Score=131.27  Aligned_cols=82  Identities=16%  Similarity=0.195  Sum_probs=66.3

Q ss_pred             CCCcceEEEeCCccCcCCceeecCceEeCCeEEEEEEEcCCCCCC-CCCeEEEEEEecCCccCCCCCcEEEEEEEEEecC
Q 024960          169 PADGNYRFNIPAFGSVGDTVQRSSEFTVGERNWQLVVYPAGSGAD-RGNFLTVSLKLADYQTVSRKKPVYAEFKFKIPNQ  247 (260)
Q Consensus       169 p~~~~~~~~i~~fs~l~~~~~~s~~f~vgg~~w~l~~~p~G~~~~-~~~~~s~yL~~~~~~~~~~~~~~~~~f~l~l~~q  247 (260)
                      ++...|+|+|.|||.++ +.+.|++|.|||++|+|.+||+|+..+ .++|||+||++.+. ..+.+|.++|+|+|+|+||
T Consensus        28 ~~~~~~~w~I~nfS~~~-~~~~S~~F~vgg~~W~i~~yP~G~~~~~~~~~lSlyL~~~~~-~~~~~w~v~a~f~l~l~n~  105 (522)
T 2f1z_A           28 RSEATFQFTVERFSRLS-ESVLSPPCFVRNLPWKIMVMPRFYPDRPHQKSVGFFLQCNAE-SDSTSWSCHAQAVLKIINY  105 (522)
T ss_dssp             CSEEEEEEEESSCTTCC-SCEECCCEEETTEEEEEEECBC--------CBBCEEEEESTT-CCCSSCBEEEEEEEEECCT
T ss_pred             cCCcEEEEEECChhhcC-CceeCCCEEECCEeeEEEEEeCCCCCCCCCCeEEEEEEecCC-CCCCCceEEEEEEEEEEcC
Confidence            34578999999999987 478899999999999999999997543 56899999999876 5567899999999999999


Q ss_pred             CCCCc
Q 024960          248 YSRNR  252 (260)
Q Consensus       248 ~~~~~  252 (260)
                      .+++.
T Consensus       106 ~~~~~  110 (522)
T 2f1z_A          106 RDDEK  110 (522)
T ss_dssp             TCGGG
T ss_pred             CCCcc
Confidence            87543

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

Probab=99.50  E-value=2.7e-14  Score=131.87  Aligned_cols=142  Identities=14%  Similarity=0.165  Sum_probs=107.5

Q ss_pred             cccCCCceEEEEEcCccccccccCCeeEeccEEE-CCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEE-EE
Q 024960           10 KRSLPPADYSLKIESFKLLSKSTVESFESGVFKS-GGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNV-NV   87 (260)
Q Consensus        10 ~~~~~~g~~~w~I~~fs~~~~~~~~~~~S~~F~~-gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v-~~   87 (260)
                      +++..|..+.|+|.||+++...++..++||+|.. .||+++|.+||++      ..|+|+|++|.+++....-.|++ .-
T Consensus       400 ~t~G~CP~~vw~i~nfs~~l~~~~~~~~Sp~Fys~~GY~~~v~l~~~~------~~~~~~~~~l~sG~~D~~L~WP~~~~  473 (592)
T 4gwm_A          400 LSETRCPHHIWHIRNFTQFIGSPNGTLYSPPFYSSKGYAFQIYLNLAH------VTNAGIYFHLISGANDDQLQWPCPWQ  473 (592)
T ss_dssp             EESSCCCSEEEEECSCGGGTTCTTCEEECCCEECTTSCEEEEEEECCS------SSEEEEEEEEECCTTGGGSCSSCCSE
T ss_pred             EeeCCCCCCceeecCHHHhhcCCCCceeCCCccCCCCeEEEEEEecCC------CceEEEEEEEecCCCCCCccCCCCCC
Confidence            4678899999999999998765567899999974 6999999999975      35899999999986533222999 57


Q ss_pred             EEEEEEEeCcCCceeEEe-----ccC------CCce------------eccC-----CCCCcccccccccccccCCCCCc
Q 024960           88 YYKLFVYDQVSNQYLVVQ-----DAK------APMR------------RFDR-----RKTDWGFGKFLDLATFNEPSNGY  139 (260)
Q Consensus        88 ~~~~~l~n~~~~~~~~~~-----~~~------~~~~------------~F~~-----~~~~~G~~~Fi~~~~L~~~~~~y  139 (260)
                      +++++|+||+......+.     .++      ....            .|..     ++.+|||..||+++.|.  +..|
T Consensus       474 q~t~~llDQ~pd~~~rms~~~s~ttdp~~~~~~~~~~w~~P~~~g~~~~~~~~~~~~r~~~~G~~~fish~~l~--~r~f  551 (592)
T 4gwm_A          474 QATMTLLDQNPDIRQRMSNQRSITTDPFMTTDNGNYFWDRPSKVGTVALFSNGTQFRRGGGYGTSAFITHERLK--SRDF  551 (592)
T ss_dssp             EEEEEECCCCSSGGGCCCEEEEEECCTTCBCTTSCBTTSCHHHHCEEEECTTCCEEEEEEEEEEEEEEEHHHHT--STTS
T ss_pred             EEEEEEeCCCCChHhcCceeEEEEcCCcccCcccccccCCcccccccccccCCcceeecCCcCccccccHHHHh--hcCc
Confidence            899999999865433221     000      0001            1221     13468999999999998  6789


Q ss_pred             eeCCEEEEEEEEEEecCCCc
Q 024960          140 LVDDTCAFGAEVYVVKPTDS  159 (260)
Q Consensus       140 l~dD~l~i~~~V~v~~~~~~  159 (260)
                      |+||.|.|.++|+-+.....
T Consensus       552 iK~d~~~i~~~~eD~~~l~~  571 (592)
T 4gwm_A          552 IKGDDVYILLTVEDISHLNS  571 (592)
T ss_dssp             SBTTBEEEEEEEEECGGGSS
T ss_pred             ccCCeEEEEEEEEeCccccc
Confidence            99999999999988876543

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

Probab=99.48  E-value=1e-13  Score=119.71  Aligned_cols=79  Identities=30%  Similarity=0.477  Sum_probs=64.2

Q ss_pred             cceEEEeCCccCcC---CceeecCceEeCCe---EEEEEEEcCCCCCCCCCeEEEEEEecCCccCCCCCcEEEEEEEEEe
Q 024960          172 GNYRFNIPAFGSVG---DTVQRSSEFTVGER---NWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKIP  245 (260)
Q Consensus       172 ~~~~~~i~~fs~l~---~~~~~s~~f~vgg~---~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~~~~~~~~~f~l~l~  245 (260)
                      ..|+|+|.||+.++   .+.+.|++|.+|||   +|+|.+||+|++...++|+|+||++.+.    +.|+++|+|+|+|+
T Consensus         7 ~~~~w~I~nfs~~~~~~~~~i~S~~F~~gg~~~~~W~i~~yP~G~~~~~~~~lslyL~~~~~----~~~~v~a~~~~~l~   82 (312)
T 3hqi_A            7 FSYMWTINNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGLDEESKDYLSLYLLLVSC----PKSEVRAKFKFSIL   82 (312)
T ss_dssp             EEEEEEETTGGGCCCCTTCCEECCCBCC--CCCCEEEEEEETTCCC--CTTEEEEEEEEEEC----CC-CEEEEEEEEEE
T ss_pred             EEEEEEEcCcchhhhcCCCeEeeCCcccCCCCCceEEEEEECCCCCccCCCcEEEEEEEcCC----CCCcEEEEEEEEEE
Confidence            56999999999986   35788999999996   9999999999887678999999999764    36889999999999


Q ss_pred             cCCCCCccc
Q 024960          246 NQYSRNRAG  254 (260)
Q Consensus       246 ~q~~~~~~~  254 (260)
                      ||.+..+..
T Consensus        83 ~~~~~~~~~   91 (312)
T 3hqi_A           83 NAKGEETKA   91 (312)
T ss_dssp             CTTSCEEEE
T ss_pred             eCCCCcccc
Confidence            998765443

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

Probab=98.32  E-value=1.5e-05  Score=73.77  Aligned_cols=76  Identities=12%  Similarity=0.053  Sum_probs=62.7

Q ss_pred             CCCcceEEEeCCccCcCC---ceeecCceEe-CCeEEEEEEEcCCCCCCCCCeEEEEEEecCCccCC-CCCcE-EEEEEE
Q 024960          169 PADGNYRFNIPAFGSVGD---TVQRSSEFTV-GERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVS-RKKPV-YAEFKF  242 (260)
Q Consensus       169 p~~~~~~~~i~~fs~l~~---~~~~s~~f~v-gg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~-~~~~~-~~~f~l  242 (260)
                      -+++.+.|+|+||+++++   ..+.|+.|.- .|++|.|.+||+|     +.|+|||++|..++.+. ..|++ +-+++|
T Consensus       403 G~CP~~vw~i~nfs~~l~~~~~~~~Sp~Fys~~GY~~~v~l~~~~-----~~~~~~~~~l~sG~~D~~L~WP~~~~q~t~  477 (592)
T 4gwm_A          403 TRCPHHIWHIRNFTQFIGSPNGTLYSPPFYSSKGYAFQIYLNLAH-----VTNAGIYFHLISGANDDQLQWPCPWQQATM  477 (592)
T ss_dssp             SCCCSEEEEECSCGGGTTCTTCEEECCCEECTTSCEEEEEEECCS-----SSEEEEEEEEECCTTGGGSCSSCCSEEEEE
T ss_pred             CCCCCCceeecCHHHhhcCCCCceeCCCccCCCCeEEEEEEecCC-----CceEEEEEEEecCCCCCCccCCCCCCEEEE
Confidence            356779999999999984   4678888875 6999999999976     46899999999887554 58998 578999


Q ss_pred             EEecCCC
Q 024960          243 KIPNQYS  249 (260)
Q Consensus       243 ~l~~q~~  249 (260)
                      .||||..
T Consensus       478 ~llDQ~p  484 (592)
T 4gwm_A          478 TLLDQNP  484 (592)
T ss_dssp             EECCCCS
T ss_pred             EEeCCCC
Confidence            9999953

---

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	260
d2cr2a1	146	b.8.1.1 (A:8-153) Speckle-type poz protein SPOP {H	5e-23
d1czya1	152	b.8.1.1 (A:350-501) TNF receptor associated factor	4e-19
d1czya1	152	b.8.1.1 (A:350-501) TNF receptor associated factor	4e-04
d1lb6a_	155	b.8.1.1 (A:) TNF receptor associated factor 6 (TRA	7e-18
d1lb6a_	155	b.8.1.1 (A:) TNF receptor associated factor 6 (TRA	0.004
d1l0aa1	155	b.8.1.1 (A:350-504) TNF receptor associated factor	3e-16

>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 = 89.5 bits (221), Expect = 5e-23
 Identities = 36/143 (25%), Positives = 55/143 (38%), Gaps = 12/143 (8%)

Query: 18  YSLKIESFKLLSKSTVESFESGVFKSGG---YNWKLVFYPNGKKNDGGKDHLSLYLKIDD 74
           Y   I +F    +   E  +S  F SG      W L   P G  ++  KD+LSLYL +  
Sbjct: 7   YMWTINNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGL-DEESKDYLSLYLLLVS 65

Query: 75  SNPHPDGTWNVNVYYKLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNE 134
                     V   +K  + +    +   ++           +  DWGF KF+      +
Sbjct: 66  CPK-----SEVRAKFKFSILNAKGEETKAMESQ---RAYRFVQGKDWGFKKFIRRDFLLD 117

Query: 135 PSNGYLVDDTCAFGAEVYVVKPT 157
            +NG L DD      EV VV+ +
Sbjct: 118 EANGLLPDDKLTLFCEVSVVQDS 140

>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 = 79.4 bits (195), Expect = 4e-19
 Identities = 32/148 (21%), Positives = 51/148 (34%), Gaps = 13/148 (8%)

Query: 18  YSLKIESFKLLSKSTVE----SFESGVFKSG--GYNWKLVFYPNGKKNDGGKDHLSLYLK 71
           +  KI  F    +  V     +  S  F +   GY   L  Y NG    G   HLSL+  
Sbjct: 5   FIWKISDFPRKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGD-GTGRGTHLSLFFV 63

Query: 72  IDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLV-----VQDAKAPMRRFDRRKTDWGFGKF 126
           +          W  N    L + DQ + ++++        + +  R  +      G   F
Sbjct: 64  VMKGPNDALLRWPFNQKVTLMLLDQNNREHVIDAFRPDVTSSSFQRPVNDMNIASGCPLF 123

Query: 127 LDLATFNEPSNGYLVDDTCAFGAEVYVV 154
             ++   E  N Y+ DD     A V + 
Sbjct: 124 CPVSKM-EAKNSYVRDDAIFIKAIVDLT 150

>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 = 37.8 bits (87), Expect = 4e-04
 Identities = 16/90 (17%), Positives = 28/90 (31%), Gaps = 10/90 (11%)

Query: 171 DGNYRFNIPAFGSVGDTVQ-------RSSEFTVGER--NWQLVVYPAGSGADRGNFLTVS 221
           DG + + I  F                S  F          L +Y  G G  RG  L++ 
Sbjct: 2   DGVFIWKISDFPRKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGTGRGTHLSLF 61

Query: 222 LKLADYQTVSR-KKPVYAEFKFKIPNQYSR 250
             +      +  + P   +    + +Q +R
Sbjct: 62  FVVMKGPNDALLRWPFNQKVTLMLLDQNNR 91

>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 = 76.0 bits (186), Expect = 7e-18
 Identities = 30/149 (20%), Positives = 50/149 (33%), Gaps = 17/149 (11%)

Query: 18  YSLKIESFKLLSKSTV----ESFESGVFKSG--GYNWKLVFYPNGKKNDGGKDHLSLYLK 71
           Y  KI +F +  K           S  F +G  GY   +  +          +++SL++ 
Sbjct: 7   YIWKIGNFGMHLKCQEEEKPVVIHSPGFYTGKPGYKLCMRLHLQLPTAQRCANYISLFVH 66

Query: 72  IDDSNPHPDGTWNVNVYYKLFVYDQ----VSNQYLVVQDAKAPMRRFDRRKTD-----WG 122
                      W      +L + DQ    V   +  + DAK  +  F R         +G
Sbjct: 67  TMQGEYDSHLPWPFQGTIRLTILDQSEAPVRQNHEEIMDAKPELLAFQRPTIPRNPKGFG 126

Query: 123 FGKFLDLATFNEPSNGYLVDDTCAFGAEV 151
           +  F+ L         ++ DDT     EV
Sbjct: 127 YVTFMHLEALR--QRTFIKDDTLLVRCEV 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 = 0.004
 Identities = 14/89 (15%), Positives = 29/89 (32%), Gaps = 11/89 (12%)

Query: 170 ADGNYRFNIPAFGSVGDTVQ-------RSSEFTVGER--NWQLVVYPAGSGADR-GNFLT 219
            +G Y + I  FG      +        S  F  G+      + ++     A R  N+++
Sbjct: 3   CNGIYIWKIGNFGMHLKCQEEEKPVVIHSPGFYTGKPGYKLCMRLHLQLPTAQRCANYIS 62

Query: 220 VSLKLADYQT-VSRKKPVYAEFKFKIPNQ 247
           + +     +       P     +  I +Q
Sbjct: 63  LFVHTMQGEYDSHLPWPFQGTIRLTILDQ 91

>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 = 71.8 bits (175), Expect = 3e-16
 Identities = 31/148 (20%), Positives = 46/148 (31%), Gaps = 15/148 (10%)

Query: 18  YSLKIESFKLLSKSTV----ESFESGVFKSG--GYNWKLVFYPNGKKNDGGKDHLSLYLK 71
              KI  +K   +  V     S  S  F +G  GY      Y NG    G   HLSL+  
Sbjct: 5   LIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGD-GMGKGTHLSLFFV 63

Query: 72  IDDSNPHPDGTWNVNVYYKLFVYDQVSNQYLVV------QDAKAPMRRFDRRKTDWGFGK 125
           I          W       L + DQ S++  +        ++ +  +         G   
Sbjct: 64  IMRGEYDALLPWPFKQKVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMNIASGCPV 123

Query: 126 FLDLATFNEPSNGYLVDDTCAFGAEVYV 153
           F+        +  Y+ DDT      V  
Sbjct: 124 FVAQTVLE--NGTYIKDDTIFIKVIVDT 149

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	260
d2cr2a1	146	Speckle-type poz protein SPOP {Human (Homo sapiens	99.96
d1czya1	152	TNF receptor associated factor 2 (TRAF2) {Human (H	99.95
d1l0aa1	155	TNF receptor associated factor 3 (TRAF3) {Human (H	99.95
d1lb6a_	155	TNF receptor associated factor 6 (TRAF6) {Human (H	99.94
d1czya1	152	TNF receptor associated factor 2 (TRAF2) {Human (H	99.65
d1l0aa1	155	TNF receptor associated factor 3 (TRAF3) {Human (H	99.64
d1lb6a_	155	TNF receptor associated factor 6 (TRAF6) {Human (H	99.55
d2cr2a1	146	Speckle-type poz protein SPOP {Human (Homo sapiens	99.52

>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=99.96  E-value=4.2e-30  Score=197.35  Aligned_cols=136  Identities=26%  Similarity=0.391  Sum_probs=115.9

Q ss_pred             CCceEEEEEcCccccccccCCeeEeccEEECCe---eeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEEEEEEE
Q 024960           14 PPADYSLKIESFKLLSKSTVESFESGVFKSGGY---NWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVYYK   90 (260)
Q Consensus        14 ~~g~~~w~I~~fs~~~~~~~~~~~S~~F~~gg~---~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v~~~~~   90 (260)
                      ...+|+|+|+|||.+++..++.++||.|.+||+   +|+|.+||+|.. ++..+||||||.+.+...     |++.++|+
T Consensus         3 ~~~~~~W~I~nfs~~~~~~~~~~~Sp~F~~~~~~~~~W~l~lyp~G~~-~~~~~~lSv~L~~~~~~~-----~~v~~~~~   76 (146)
T d2cr2a1           3 VKFSYMWTINNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGLD-EESKDYLSLYLLLVSCPK-----SEVRAKFK   76 (146)
T ss_dssp             EEEEEEEEEETGGGCCCCSSCCEECCCBCSSSCCSCCBEEEECTTCSS-SSSSSBCCEEEECCCCSS-----SEEEEECE
T ss_pred             eEEEEEEEECCchHHhhcCCCEEECCCEEeCCcCCeEEEEEEEECCCC-CCCCCEEEEEEEeccCCC-----ceEEEEEE
Confidence            357899999999998776678999999998874   899999999987 456789999999987653     99999999


Q ss_pred             EEEEeCcCCceeEEeccCCCceeccCCCCCcccccccccccccCCCCCceeCCEEEEEEEEEEecCCC
Q 024960           91 LFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTD  158 (260)
Q Consensus        91 ~~l~n~~~~~~~~~~~~~~~~~~F~~~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~v~~~~~  158 (260)
                      |.|+|+.++.......   ....+.....+|||.+||++++|+++.+|||+||+|+|+|+|+|++++.
T Consensus        77 ~~l~n~~~~~~~~~~~---~~~~~~~~~~~~G~~~fi~~~~l~~~~~g~l~~d~l~I~~~I~v~~e~~  141 (146)
T d2cr2a1          77 FSILNAKGEETKAMES---QRAYRFVQGKDWGFKKFIRRDFLLDEANGLLPDDKLTLFCEVSVVQDSV  141 (146)
T ss_dssp             EEEECTTSCEEEEEEC---SCCEEEETTCEEEESCCSBHHHHSCTTTTSCTTSEEEEEEEEEEECCSC
T ss_pred             EEEEcCCCCcccceEe---cceEeCCCCCeeeccEEEEHHHhcCcccCceeCCEEEEEEEEEEEeCCC
Confidence            9999999887666543   3334444468899999999999999899999999999999999998864

>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=99.95  E-value=6.9e-29  Score=191.72  Aligned_cols=137  Identities=21%  Similarity=0.297  Sum_probs=107.3

Q ss_pred             CceEEEEEcCccccccc----cCCeeEeccEEEC--CeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCC-CCCcEEEE
Q 024960           15 PADYSLKIESFKLLSKS----TVESFESGVFKSG--GYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHP-DGTWNVNV   87 (260)
Q Consensus        15 ~g~~~w~I~~fs~~~~~----~~~~~~S~~F~~g--g~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~-~~~w~v~~   87 (260)
                      .|+|+|+|+|||.+++.    .+..++||+|.+|  ||+|+|++||+|.. ++..+|+||||++.++...+ .. |++++
T Consensus         2 ~g~f~W~I~nFs~l~~~~~~~~~~~~~Sp~F~~g~~Gy~w~l~~yP~G~~-~~~~~~lSlyL~l~~~~~d~~~~-~~~~~   79 (152)
T d1czya1           2 DGVFIWKISDFPRKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDG-TGRGTHLSLFFVVMKGPNDALLR-WPFNQ   79 (152)
T ss_dssp             SSEEEEEECSHHHHHHHHHTTSCCCEECCCEESSTTSCEEEEEEETTCCG-GGTTTEEEEEEEEECCTTGGGSC-SSCCC
T ss_pred             CCEEEEEECCcHHHHHhhhcCCCceEECcCEEcCCCCeEEEEEEEeCCCC-CCCCCEEEEEEEEccCCcCcccc-cceee
Confidence            58999999999998653    2467999999998  99999999999986 34578999999998775433 24 99999


Q ss_pred             EEEEEEEeCcCCceeEEecc-CCCcee----ccCCCCCcccccccccccccCCCCCceeCCEEEEEEEEEEe
Q 024960           88 YYKLFVYDQVSNQYLVVQDA-KAPMRR----FDRRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVV  154 (260)
Q Consensus        88 ~~~~~l~n~~~~~~~~~~~~-~~~~~~----F~~~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~v~  154 (260)
                      +|+|.|+||.+......... ......    +.....+|||.+||++++|+ +++|||+||+|+|+|+|.|.
T Consensus        80 ~~~~~l~d~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~G~~~fi~~~~L~-~~~gfl~dD~l~I~~~V~v~  150 (152)
T d1czya1          80 KVTLMLLDQNNREHVIDAFRPDVTSSSFQRPVNDMNIASGCPLFCPVSKME-AKNSYVRDDAIFIKAIVDLT  150 (152)
T ss_dssp             CEEEEECCTTSSCCEEEEECCCTTSGGGSCCSSSBCCCEEEEEEEETCCCC-CSTTTSCSSCEEEEEEECCT
T ss_pred             EEEEEEEcCCCCccceeeeccccccccccCCCcccccccchhhEEEHHHhc-ccCCcEeCCEEEEEEEEEec
Confidence            99999999987654432110 011122    33345789999999999996 45799999999999999764

>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=99.95  E-value=2e-28  Score=189.63  Aligned_cols=136  Identities=22%  Similarity=0.234  Sum_probs=107.2

Q ss_pred             CceEEEEEcCccccccc----cCCeeEeccEEEC--CeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEEEEE
Q 024960           15 PADYSLKIESFKLLSKS----TVESFESGVFKSG--GYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVY   88 (260)
Q Consensus        15 ~g~~~w~I~~fs~~~~~----~~~~~~S~~F~~g--g~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v~~~   88 (260)
                      +|+|+|+|+|||.+++.    .+..++||+|.+|  ||+|+|++||+|.. ++..+|+||||++.+++..+...|+++++
T Consensus         2 ~g~f~W~I~nfs~~~~~~~~~~~~~~~S~~F~~~~~Gy~w~l~~yp~G~~-~~~~~~lSlyL~l~~~~~d~~~~~~~~~~   80 (155)
T d1l0aa1           2 NGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDG-MGKGTHLSLFFVIMRGEYDALLPWPFKQK   80 (155)
T ss_dssp             SSEEEEEEECHHHHHHHHHTTSCSEEECCCEESSTTSCEEEEEEETTCCG-GGTTTEEEEEEEEECCTTTTTSCSSCCCC
T ss_pred             CCEEEEEECCcHHHHHhhhcCCCcEEECcCEEeCCCCcEEEEEEEeCCCC-CCCCCEEEEEEEEccCCcCcccCCcEEEE
Confidence            69999999999998653    2468999999998  99999999999987 34578999999998775433223999999


Q ss_pred             EEEEEEeCcCCceeEEecc--CC----CceeccCCCCCcccccccccccccCCCCCceeCCEEEEEEEEEE
Q 024960           89 YKLFVYDQVSNQYLVVQDA--KA----PMRRFDRRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYV  153 (260)
Q Consensus        89 ~~~~l~n~~~~~~~~~~~~--~~----~~~~F~~~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~v  153 (260)
                      |+|.|+||.+.........  ..    ..+.+.....+|||.+||++++|+  ++|||+||+|+|+|+|.+
T Consensus        81 ~~~~l~~q~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~G~~~fi~~~~L~--~~gfl~dD~l~I~~~V~~  149 (155)
T d1l0aa1          81 VTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMNIASGCPVFVAQTVLE--NGTYIKDDTIFIKVIVDT  149 (155)
T ss_dssp             EEEEECCCSSSCCCEEEEECCCTTSTTSSCCSSSBCCCEEEEEEEEHHHHH--TTTTCBTTEEEEEEEECC
T ss_pred             EEEEEecCCCCccceeEEEeeccccccccccccccccCcChhheeEHHHhh--hCCCEECCEEEEEEEEEe
Confidence            9999999987754432110  01    122333445789999999999998  589999999999999854

>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=99.94  E-value=6.3e-28  Score=186.74  Aligned_cols=137  Identities=20%  Similarity=0.260  Sum_probs=107.2

Q ss_pred             CCCceEEEEEcCccccccc----cCCeeEeccEEEC--CeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCC-CCCcEE
Q 024960           13 LPPADYSLKIESFKLLSKS----TVESFESGVFKSG--GYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHP-DGTWNV   85 (260)
Q Consensus        13 ~~~g~~~w~I~~fs~~~~~----~~~~~~S~~F~~g--g~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~-~~~w~v   85 (260)
                      ...|+|+|+|+|||.+++.    .+..++||+|.+|  ||+|+|.+||+|...+...+|+|+||.+.+++..+ .+ |++
T Consensus         2 ~~~G~f~W~I~nfs~~~~~~~~~~~~~i~Sp~F~~g~~Gy~wrl~~yp~g~~~~~~~~~lsvyL~l~~~~~d~~~~-~~~   80 (155)
T d1lb6a_           2 QCNGIYIWKIGNFGMHLKCQEEEKPVVIHSPGFYTGKPGYKLCMRLHLQLPTAQRCANYISLFVHTMQGEYDSHLP-WPF   80 (155)
T ss_dssp             CCCEEEEEEECCHHHHHHHHHTTCCEEEECCCEESSSSCCEEEEEEEECCTTCTTTTTEEEEEEEEECCTTGGGSC-SSC
T ss_pred             ccccEEEEEECChHHHHHhhhcCCCcEEECcCEEeCCCCcEEEEEEEeCCCCCCCCCCEEEEEEEEecCcccccCC-CcE
Confidence            4579999999999998653    2467999999999  99999999999977444568999999998775422 34 999


Q ss_pred             EEEEEEEEEeCcCCceeEEe----ccCCC-----ceeccCCCCCcccccccccccccCCCCCceeCCEEEEEEEEE
Q 024960           86 NVYYKLFVYDQVSNQYLVVQ----DAKAP-----MRRFDRRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVY  152 (260)
Q Consensus        86 ~~~~~~~l~n~~~~~~~~~~----~~~~~-----~~~F~~~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~  152 (260)
                      .++++|.|+||.+.......    .....     ...+.....+|||.+||++++|+  ++|||+||+|+|+|+|+
T Consensus        81 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~fi~~~~L~--~~gyl~dD~l~I~~~V~  154 (155)
T d1lb6a_          81 QGTIRLTILDQSEAPVRQNHEEIMDAKPELLAFQRPTIPRNPKGFGYVTFMHLEALR--QRTFIKDDTLLVRCEVS  154 (155)
T ss_dssp             CSEEEEEECCCSCTTSCCCEEEEEECCTTSGGGSCCSSSBCSEEEEEEEEEEGGGGG--TSCCCBTTBEEEEEEEE
T ss_pred             EEEEEEEEECCCCCccceeeEEeeecCCccccccCCcccCCcCCcChHHeeEHHHhc--cCCCEECCEEEEEEEEE
Confidence            99999999999876543211    00001     12334445689999999999998  58999999999999986

>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=99.65  E-value=5.7e-17  Score=124.02  Aligned_cols=84  Identities=19%  Similarity=0.270  Sum_probs=71.5

Q ss_pred             CcceEEEeCCccCcCC-------ceeecCceEeC--CeEEEEEEEcCCCCCCCCCeEEEEEEecCCccC-CCCCcEEEEE
Q 024960          171 DGNYRFNIPAFGSVGD-------TVQRSSEFTVG--ERNWQLVVYPAGSGADRGNFLTVSLKLADYQTV-SRKKPVYAEF  240 (260)
Q Consensus       171 ~~~~~~~i~~fs~l~~-------~~~~s~~f~vg--g~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~-~~~~~~~~~f  240 (260)
                      ++.|+|+|.||+.+++       ..+.|++|.+|  |++|+|.+||+|++.+.++|+||||++.+++.. +..|+++++|
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            3679999999998852       24789999999  999999999999987778999999999887654 3589999999


Q ss_pred             EEEEecCCCCCccc
Q 024960          241 KFKIPNQYSRNRAG  254 (260)
Q Consensus       241 ~l~l~~q~~~~~~~  254 (260)
                      +|+|+||.++++..
T Consensus        82 ~~~l~d~~~~~~~~   95 (152)
T d1czya1          82 TLMLLDQNNREHVI   95 (152)
T ss_dssp             EEEECCTTSSCCEE
T ss_pred             EEEEEcCCCCccce
Confidence            99999998776543

>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=99.64  E-value=5.8e-17  Score=124.31  Aligned_cols=82  Identities=18%  Similarity=0.208  Sum_probs=70.6

Q ss_pred             CcceEEEeCCccCcCC-------ceeecCceEeC--CeEEEEEEEcCCCCCCCCCeEEEEEEecCCccC-CCCCcEEEEE
Q 024960          171 DGNYRFNIPAFGSVGD-------TVQRSSEFTVG--ERNWQLVVYPAGSGADRGNFLTVSLKLADYQTV-SRKKPVYAEF  240 (260)
Q Consensus       171 ~~~~~~~i~~fs~l~~-------~~~~s~~f~vg--g~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~-~~~~~~~~~f  240 (260)
                      +++|+|+|.||+.+++       ..+.|+.|.+|  |++|+|.+||+|++.+.++|+||||++.+++.. ...|+++++|
T Consensus         2 ~g~f~W~I~nfs~~~~~~~~~~~~~~~S~~F~~~~~Gy~w~l~~yp~G~~~~~~~~lSlyL~l~~~~~d~~~~~~~~~~~   81 (155)
T d1l0aa1           2 NGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDGMGKGTHLSLFFVIMRGEYDALLPWPFKQKV   81 (155)
T ss_dssp             SSEEEEEEECHHHHHHHHHTTSCSEEECCCEESSTTSCEEEEEEETTCCGGGTTTEEEEEEEEECCTTTTTSCSSCCCCE
T ss_pred             CCEEEEEECCcHHHHHhhhcCCCcEEECcCEEeCCCCcEEEEEEEeCCCCCCCCCEEEEEEEEccCCcCcccCCcEEEEE
Confidence            3679999999998752       36789999999  899999999999988778999999999887644 3589999999


Q ss_pred             EEEEecCCCCCc
Q 024960          241 KFKIPNQYSRNR  252 (260)
Q Consensus       241 ~l~l~~q~~~~~  252 (260)
                      +|+|+||.++.+
T Consensus        82 ~~~l~~q~~~~~   93 (155)
T d1l0aa1          82 TLMLMDQGSSRR   93 (155)
T ss_dssp             EEEECCCSSSCC
T ss_pred             EEEEecCCCCcc
Confidence            999999977654

>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=99.55  E-value=3.9e-15  Score=113.79  Aligned_cols=81  Identities=19%  Similarity=0.215  Sum_probs=69.0

Q ss_pred             CcceEEEeCCccCcCC-------ceeecCceEeC--CeEEEEEEEcCCCCCCC-CCeEEEEEEecCCccC-CCCCcEEEE
Q 024960          171 DGNYRFNIPAFGSVGD-------TVQRSSEFTVG--ERNWQLVVYPAGSGADR-GNFLTVSLKLADYQTV-SRKKPVYAE  239 (260)
Q Consensus       171 ~~~~~~~i~~fs~l~~-------~~~~s~~f~vg--g~~w~l~~~p~G~~~~~-~~~~s~yL~~~~~~~~-~~~~~~~~~  239 (260)
                      ++.|+|+|.||+.+++       ..+.|+.|.+|  |++|+|.+||+|++.+. ++|+|+||++.++... ..+|+++++
T Consensus         4 ~G~f~W~I~nfs~~~~~~~~~~~~~i~Sp~F~~g~~Gy~wrl~~yp~g~~~~~~~~~lsvyL~l~~~~~d~~~~~~~~~~   83 (155)
T d1lb6a_           4 NGIYIWKIGNFGMHLKCQEEEKPVVIHSPGFYTGKPGYKLCMRLHLQLPTAQRCANYISLFVHTMQGEYDSHLPWPFQGT   83 (155)
T ss_dssp             CEEEEEEECCHHHHHHHHHTTCCEEEECCCEESSSSCCEEEEEEEECCTTCTTTTTEEEEEEEEECCTTGGGSCSSCCSE
T ss_pred             ccEEEEEECChHHHHHhhhcCCCcEEECcCEEeCCCCcEEEEEEEeCCCCCCCCCCEEEEEEEEecCcccccCCCcEEEE
Confidence            4779999999998752       35889999999  99999999999987654 6899999999887643 458999999


Q ss_pred             EEEEEecCCCCC
Q 024960          240 FKFKIPNQYSRN  251 (260)
Q Consensus       240 f~l~l~~q~~~~  251 (260)
                      |+|+|+||.+..
T Consensus        84 ~~~~l~~~~~~~   95 (155)
T d1lb6a_          84 IRLTILDQSEAP   95 (155)
T ss_dssp             EEEEECCCSCTT
T ss_pred             EEEEEECCCCCc
Confidence            999999997654

>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=99.52  E-value=5.6e-15  Score=111.92  Aligned_cols=77  Identities=31%  Similarity=0.500  Sum_probs=66.4

Q ss_pred             cceEEEeCCccCcCC---ceeecCceEeCCe---EEEEEEEcCCCCCCCCCeEEEEEEecCCccCCCCCcEEEEEEEEEe
Q 024960          172 GNYRFNIPAFGSVGD---TVQRSSEFTVGER---NWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKIP  245 (260)
Q Consensus       172 ~~~~~~i~~fs~l~~---~~~~s~~f~vgg~---~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~~~~~~~~~f~l~l~  245 (260)
                      -+|+|+|.||+.+++   +.+.|+.|.+||+   +|+|.+||+|++...++||||||.+.+.    ..|+++++|+|+|+
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            359999999998874   4678999999986   8999999999988878999999998875    36889999999999


Q ss_pred             cCCCCCc
Q 024960          246 NQYSRNR  252 (260)
Q Consensus       246 ~q~~~~~  252 (260)
                      ||.+...
T Consensus        81 n~~~~~~   87 (146)
T d2cr2a1          81 NAKGEET   87 (146)
T ss_dssp             CTTSCEE
T ss_pred             cCCCCcc
Confidence            9976543