Citrus Sinensis ID: 041773

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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-----
Protein Sequence
RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTGKGEALSIVKVPAQAGNILRWKIPNFSDLRDPEYYSSEFNAGGREW
Secondary Structure (PSIPRED)
cEEEEcccccccccccEEEEEEEEccccccccccEEEEEEEEEEEEEcccccEEEEEEccccEEEEcccccccccccEEEccccccccccEEEccEEEEEEEEEEEEcccccccEEEEEccccccccEEEEccccccccccccccccEEEccccc
Secondary Structure Prediction (SSPRO)
cEEEEEccccccccccEEEEEEEEcccccccccccEEEEEEEEEEEEcccccEEEEEEcccEEEEcccccccccccccccHHHcccccccEEEccEEEEEEEEEEEEcccccEEEEEEEcccccccEEEEEEEcHHHHccccccccEEEEccccc
Coil and Loop (DISEMBL)
rlilypngnkkgqgtGHISLYLaldestyfpnnpwevfVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKrecgidkliplqafkepsngylvddscvfgaeifvikptgkgealSIVKVPaqagnilrwkipnfsdlrdpeyyssefnaggrew
Flexible Loop (DISEMBL)
rlilypngnkkgqgtGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTGKGEALSIVKVPaqagnilrwkipnfsdlrdpeyyssefnaggrew
Low Complexity Region (SEG)
RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTGKGEALSIVKVPAQAGNILRWKIPNFSDLRDPEYYSSEFNAGGREW
Disordered region (IsUnstruct)
*************GTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTGKGEALSIVKVPAQAGNILRWKIPNFSDLR****************
Disordered Region (DISOPRED)
RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTGKGEA***VKVPAQAGNILRWKIPNFSDLRDPEYYSSEFNAGGREW
Disordered Region (DISEMBL)
RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTGKGEALSIVKVPAQAGNILRWKIPNFSDLRDPEYYSS*********
Disordered Region (DISPRO)
RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTGKGEALSIVKVPAQAGNILRWKIPNFSDLRDPEYYSSEFNAG****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTGKGEALSIVKVPAQAGNILRWKIPNFSDLRDPEYYSSEFNAGGREW
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	155	2.2.26 [Sep-21-2011]
Q84WU2	1115	Ubiquitin carboxyl-termin	no	no	0.638	0.088	0.280	1e-06
Q9FPT1	1116	Ubiquitin carboxyl-termin	no	no	0.638	0.088	0.271	4e-06

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

 Score = 52.0 bits (123), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 30/107 (28%), Positives = 57/107 (53%), Gaps = 8/107 (7%)

Query: 1   RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDD 60
           R++++P GN       H+S+YL + ++   P   W  +  F+  V +++ N Y +IR + 
Sbjct: 84  RILIFPKGN----NVDHLSMYLDVADAANLPYG-WSRYSQFSLAVVNQVNNRY-SIRKET 137

Query: 61  GAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIK 107
               + ++ + + G    +PL    EP+ GYLV+D+ +  AE+ V K
Sbjct: 138 QH--QFNARESDWGFTSFMPLSELYEPTRGYLVNDTVLIEAEVAVRK 182

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 = 50.4 bits (119), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 29/107 (27%), Positives = 55/107 (51%), Gaps = 8/107 (7%)

Query: 1   RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDD 60
           R++++P GN       H+S+YL + ++   P   W  +  F+  V ++I   Y  +R + 
Sbjct: 85  RILIFPKGN----NVDHLSMYLDVSDAASLPYG-WSRYAQFSLAVVNQIHTRY-TVRKET 138

Query: 61  GAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIK 107
               + ++ + + G    +PL    +PS GYLV+D+ +  AE+ V K
Sbjct: 139 QH--QFNARESDWGFTSFMPLSELYDPSRGYLVNDTVLVEAEVAVRK 183

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

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	155
224074494	321	predicted protein [Populus trichocarpa]	0.980	0.473	0.554	9e-40
224139110	324	predicted protein [Populus trichocarpa]	0.980	0.469	0.503	3e-35
296083023	389	unnamed protein product [Vitis vinifera]	0.980	0.390	0.477	2e-34
225429037	261	PREDICTED: uncharacterized protein LOC10	0.980	0.582	0.477	3e-34
225429033	331	PREDICTED: uncharacterized protein LOC10	0.980	0.459	0.470	3e-32
359475437	314	PREDICTED: uncharacterized protein LOC10	0.980	0.484	0.470	3e-32
296083026	672	unnamed protein product [Vitis vinifera]	0.980	0.226	0.470	4e-32
225429035	330	PREDICTED: MATH domain-containing protei	0.974	0.457	0.467	5e-32
356503299	322	PREDICTED: uncharacterized protein LOC10	0.980	0.472	0.470	5e-32
225429031	364	PREDICTED: uncharacterized protein LOC10	0.980	0.417	0.445	4e-31

>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 =  168 bits (425), Expect = 9e-40,   Method: Compositional matrix adjust.
 Identities = 86/155 (55%), Positives = 101/155 (65%), Gaps = 3/155 (1%)

Query: 1   RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDD 60
           RL LYPNGNKK  G GHISLYLA   S   P   WEV VNF  FV ++I+++YL I+Y  
Sbjct: 63  RLRLYPNGNKKNNGDGHISLYLAFSNSNALPFG-WEVNVNFRLFVYNQIQDKYLTIQYAK 121

Query: 61  GAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTGKGEALSIVKV 120
           G V R H MK E G D+LIPL  F + S GYL+DD C+FGAEIFVIKPTGKGE L++V  
Sbjct: 122 GRVRRFHGMKTELGFDQLIPLTIFNDESKGYLIDDRCIFGAEIFVIKPTGKGECLTLVNQ 181

Query: 121 PAQAGNILRWKIPNFSDLRDPEYYSSEFNAGGREW 155
           P    +   WKI NFS L    Y S  F+ GG +W
Sbjct: 182 P--VSDTFTWKIQNFSALDQESYKSQVFSFGGYKW 214

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  153 bits (386), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 78/155 (50%), Positives = 96/155 (61%), Gaps = 3/155 (1%)

Query: 1   RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDD 60
           RL L+PNGNKK  G GHISLYLA  +S   P   WEV V+F  FV ++I ++YL I+  +
Sbjct: 56  RLCLHPNGNKKSNGDGHISLYLAFSKSNA-PPLGWEVNVDFKLFVYNQIHDKYLTIQNAN 114

Query: 61  GAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTGKGEALSIVKV 120
           G V R H MK E G D+L+PL  F + S GYL+DD C FGAEIFVIK T KGE LS++K 
Sbjct: 115 GRVRRFHGMKTEMGFDQLLPLTLFNDESKGYLIDDCCTFGAEIFVIKHTSKGECLSLMKQ 174

Query: 121 PAQAGNILRWKIPNFSDLRDPEYYSSEFNAGGREW 155
           P+ +     W I  FS L      S  F  GG +W
Sbjct: 175 PSHSS--FTWSIQKFSALDQESCKSQVFATGGHKW 207

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  150 bits (378), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 74/155 (47%), Positives = 94/155 (60%), Gaps = 3/155 (1%)

Query: 1   RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDD 60
           RL LYPNGNKK  G GHISLYL + ++   P   WEV V+F  FV + I  EYL ++  D
Sbjct: 127 RLCLYPNGNKKSDGDGHISLYLVISDTQNLPLG-WEVTVSFKLFVFNHIHEEYLTVQDTD 185

Query: 61  GAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTGKGEALSIVKV 120
           G V   + MK +CG  + +PL    +P NGYL+DDSC+FGAE+FVIK +GKGE LS++K 
Sbjct: 186 GKVRHFNVMKTQCGFAQFLPLDVLTDPCNGYLMDDSCIFGAEVFVIKYSGKGECLSMIKE 245

Query: 121 PAQAGNILRWKIPNFSDLRDPEYYSSEFNAGGREW 155
           P        W I NFS L+    YS  F     +W
Sbjct: 246 PDDG--TFTWMIENFSRLKQEAIYSEIFTVKDFKW 278

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225429037|ref|XP_002265732.1| PREDICTED: uncharacterized protein LOC100258339 [Vitis vinifera]

 Score =  150 bits (378), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 74/155 (47%), Positives = 94/155 (60%), Gaps = 3/155 (1%)

Query: 1   RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDD 60
           RL LYPNGNKK  G GHISLYL + ++   P   WEV V+F  FV + I  EYL ++  D
Sbjct: 52  RLCLYPNGNKKSDGDGHISLYLVISDTQNLPLG-WEVTVSFKLFVFNHIHEEYLTVQDTD 110

Query: 61  GAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTGKGEALSIVKV 120
           G V   + MK +CG  + +PL    +P NGYL+DDSC+FGAE+FVIK +GKGE LS++K 
Sbjct: 111 GKVRHFNVMKTQCGFAQFLPLDVLTDPCNGYLMDDSCIFGAEVFVIKYSGKGECLSMIKE 170

Query: 121 PAQAGNILRWKIPNFSDLRDPEYYSSEFNAGGREW 155
           P        W I NFS L+    YS  F     +W
Sbjct: 171 PDDG--TFTWMIENFSRLKQEAIYSEIFTVKDFKW 203

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 =  143 bits (360), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 73/155 (47%), Positives = 92/155 (59%), Gaps = 3/155 (1%)

Query: 1   RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDD 60
           RL LYPNGNKK  G  HISLYL + ++   P   WEV VNF  FV + I  +YL ++  D
Sbjct: 69  RLCLYPNGNKKSGGEDHISLYLEISDAQKLPVG-WEVTVNFKLFVFNHIHEKYLTVQDAD 127

Query: 61  GAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTGKGEALSIVKV 120
           G V   + MK  CG  + + L   K+P NGYL+DDSC+FGAE+FVIK +GKGE LS++K 
Sbjct: 128 GKVRDFNVMKSRCGFAQFLSLDVLKDPCNGYLMDDSCIFGAEVFVIKYSGKGECLSMIKD 187

Query: 121 PAQAGNILRWKIPNFSDLRDPEYYSSEFNAGGREW 155
           P        W I NFS L +   YS  F     +W
Sbjct: 188 PDDG--TFTWVIENFSTLNEEVLYSETFTIKEIKW 220

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  142 bits (359), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 73/155 (47%), Positives = 92/155 (59%), Gaps = 3/155 (1%)

Query: 1   RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDD 60
           RL LYPNGNKK  G  HISLYL + ++   P   WEV VNF  FV + I  +YL ++  D
Sbjct: 52  RLCLYPNGNKKSGGEDHISLYLEISDAQKLPVG-WEVTVNFKLFVFNHIHEKYLTVQDAD 110

Query: 61  GAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTGKGEALSIVKV 120
           G V   + MK  CG  + + L   K+P NGYL+DDSC+FGAE+FVIK +GKGE LS++K 
Sbjct: 111 GKVRDFNVMKSRCGFAQFLSLDVLKDPCNGYLMDDSCIFGAEVFVIKYSGKGECLSMIKD 170

Query: 121 PAQAGNILRWKIPNFSDLRDPEYYSSEFNAGGREW 155
           P        W I NFS L +   YS  F     +W
Sbjct: 171 PDDG--TFTWVIENFSTLNEEVLYSETFTIKEIKW 203

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 =  142 bits (359), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 73/155 (47%), Positives = 92/155 (59%), Gaps = 3/155 (1%)

Query: 1   RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDD 60
           RL LYPNGNKK  G  HISLYL + ++   P   WEV VNF  FV + I  +YL ++  D
Sbjct: 410 RLCLYPNGNKKSGGEDHISLYLEISDAQKLPVG-WEVTVNFKLFVFNHIHEKYLTVQDAD 468

Query: 61  GAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTGKGEALSIVKV 120
           G V   + MK  CG  + + L   K+P NGYL+DDSC+FGAE+FVIK +GKGE LS++K 
Sbjct: 469 GKVRDFNVMKSRCGFAQFLSLDVLKDPCNGYLMDDSCIFGAEVFVIKYSGKGECLSMIKD 528

Query: 121 PAQAGNILRWKIPNFSDLRDPEYYSSEFNAGGREW 155
           P        W I NFS L +   YS  F     +W
Sbjct: 529 PDDG--TFTWVIENFSTLNEEVLYSETFTIKEIKW 561

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 =  142 bits (358), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 72/154 (46%), Positives = 92/154 (59%), Gaps = 3/154 (1%)

Query: 2   LILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDG 61
           L +YPNGNKK  G GHISLYL + E+   P   WEV VNF  FV + I  +YL ++  DG
Sbjct: 69  LCIYPNGNKKSDGEGHISLYLEISEAQNLPLG-WEVTVNFKLFVFNHIHEKYLTVQDADG 127

Query: 62  AVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTGKGEALSIVKVP 121
            V   ++MK  CG  + + L   K+P NGYL+DDSC+FGAE+FVIK +GKGE+LS++K P
Sbjct: 128 KVRHFNAMKTRCGFAQFLSLDVLKDPRNGYLMDDSCIFGAEVFVIKYSGKGESLSMIKDP 187

Query: 122 AQAGNILRWKIPNFSDLRDPEYYSSEFNAGGREW 155
                   W I NFS L      S  F     +W
Sbjct: 188 VDG--TFTWTIENFSALNQEVLDSEIFTVKELKW 219

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  142 bits (358), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 73/155 (47%), Positives = 97/155 (62%), Gaps = 3/155 (1%)

Query: 1   RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDD 60
           RLILYP+GN K  G G++SLYLA+ ++    +  WEV VNF  FV ++  N YL I+  D
Sbjct: 64  RLILYPSGNIKSNGNGYVSLYLAIADTEKLSSG-WEVDVNFKLFVFNQKNNNYLTIQDAD 122

Query: 61  GAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTGKGEALSIVKV 120
           G V +   MK E G ++LI L+   + SNGY V+DSC+FGAE+FVI  +GK E+LS+VK 
Sbjct: 123 GTVRKFQEMKTEWGFEQLISLETLLDSSNGYHVEDSCLFGAEVFVISRSGKWESLSMVKE 182

Query: 121 PAQAGNILRWKIPNFSDLRDPEYYSSEFNAGGREW 155
           P        WKI  FS L +  Y+S  F  G R+W
Sbjct: 183 PPHG--TFTWKIGKFSTLEETYYHSKSFTVGERDW 215

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  139 bits (350), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 69/155 (44%), Positives = 94/155 (60%), Gaps = 3/155 (1%)

Query: 1   RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDD 60
           RL LYPNGN K  G G+ISLYLA+ ++   P   WEV VNF  FV +   ++YL ++   
Sbjct: 80  RLCLYPNGNIKSNGKGYISLYLAIADTKMLPLG-WEVNVNFKLFVFNHKHDQYLTVQDAG 138

Query: 61  GAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTGKGEALSIVKV 120
           G + R + MK +CG  + + L    +P NGYL++DSC+FGAE+FVIK +GKGE LS++K 
Sbjct: 139 GKLTRFNVMKTQCGFPQFLSLDVLNDPCNGYLMEDSCIFGAEVFVIKYSGKGECLSMIKE 198

Query: 121 PAQAGNILRWKIPNFSDLRDPEYYSSEFNAGGREW 155
           P        W I NFS L++   YS  F     +W
Sbjct: 199 PVDG--TFTWVIENFSTLKEKVMYSDVFTVEDFKW 231

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	155
TAIR|locus:2089045	309	AT3G17380 "AT3G17380" [Arabido	0.954	0.478	0.443	2.3e-30
TAIR|locus:2179744	351	AT5G26260 "AT5G26260" [Arabido	0.967	0.427	0.425	1.3e-27
TAIR|locus:2179699	350	AT5G26280 "AT5G26280" [Arabido	0.967	0.428	0.406	1.4e-25
TAIR|locus:2151054	349	AT5G26300 "AT5G26300" [Arabido	0.961	0.426	0.406	7.6e-25
TAIR|locus:2055998	420	AT2G04170 "AT2G04170" [Arabido	0.967	0.357	0.4	4.3e-24
TAIR|locus:2151049	333	AT5G26290 "AT5G26290" [Arabido	0.948	0.441	0.380	4.8e-23
TAIR|locus:2151064	352	AT5G26320 "AT5G26320" [Arabido	0.967	0.426	0.363	1.3e-22
TAIR|locus:2056008	411	AT2G04190 "AT2G04190" [Arabido	0.954	0.360	0.388	1e-21
TAIR|locus:2053674	365	AT2G15710 "AT2G15710" [Arabido	0.961	0.408	0.335	1.1e-21
TAIR|locus:2092329	363	AT3G20360 "AT3G20360" [Arabido	0.948	0.404	0.384	1.5e-21

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

 Score = 335 (123.0 bits), Expect = 2.3e-30, P = 2.3e-30
 Identities = 70/158 (44%), Positives = 100/158 (63%)

Query:     1 RLILYPNGNKKGQGTGHISLYLAL-DESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYD 59
             +L+LYPNGNK      H+S+YL+L D S+  P   WEV+  F  ++ D+ K+ YL ++  
Sbjct:    53 KLVLYPNGNKSKNTKDHVSVYLSLADSSSLSPG--WEVYAVFRLYLLDQNKDNYLILQ-- 108

Query:    60 DGAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKP--TGKGEALSI 117
              G   R HS+KRE G DK IP   F + SNGYL++D+C+FGA++FV K   +G+GE LS+
Sbjct:   109 -GNERRFHSVKREWGFDKFIPTGTFSDASNGYLMEDTCMFGADVFVSKERRSGRGECLSM 167

Query:   118 VKVPAQAGNILRWKIPNFSDLRDPEYYSSEFNAGGREW 155
             +K    + ++  WKI NFS L    Y S+ F AG R+W
Sbjct:   168 IKDATSSKHV--WKIENFSKLDKESYDSNAFFAGDRKW 203

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 309 (113.8 bits), Expect = 1.3e-27, P = 1.3e-27
 Identities = 66/155 (42%), Positives = 87/155 (56%)

Query:     1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDD 60
             RL+LY  GN KG    HISLY  ++E+   P   WEV V+   FV +R   +YL++   D
Sbjct:    93 RLVLYVKGNPKGGINNHISLYARIEETETLPRG-WEVNVDLKLFVHNRKLKKYLSVT--D 149

Query:    61 GAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTGKGEALSIVKV 120
             G V R +  K+E G  +LI L  F   + GYLV D+  FGAEIF++ PT K E ++ +  
Sbjct:   150 GTVKRYNDAKKEWGFTQLISLPTFYNANEGYLVQDTASFGAEIFIVNPTEKQEKVTFISN 209

Query:   121 PAQAGNILRWKIPNFSDLRDPEYYSSEFNAGGREW 155
             P    N+  WKI  FS L D  YYS +F  G R W
Sbjct:   210 PPD--NVFTWKILRFSTLEDKFYYSDDFLVGDRYW 242

GO:0003674 "molecular_function" evidence=ND

GO:0005576 "extracellular region" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

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

 Score = 290 (107.1 bits), Expect = 1.4e-25, P = 1.4e-25
 Identities = 63/155 (40%), Positives = 86/155 (55%)

Query:     1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDD 60
             RL+LY NGNK   G  HISLY  ++E+   P   WEV V+   FV +   ++YL +   D
Sbjct:    92 RLVLYVNGNKNDGGNDHISLYARIEETNSLPLG-WEVNVDLKLFVHNGKLHKYLTVT--D 148

Query:    61 GAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTGKGEALSIVKV 120
             G V R ++ K+E G  +LIP   F   + GYL  D+  FGAEIF++KP  + E ++ +  
Sbjct:   149 GLVKRYNNAKKEWGFGQLIPRSTFYNANEGYLDQDTGSFGAEIFIVKPAQQQEKVTFISN 208

Query:   121 PAQAGNILRWKIPNFSDLRDPEYYSSEFNAGGREW 155
             P    N+  WKI  FS L D  YYS +F    R W
Sbjct:   209 PPN--NVFTWKILRFSTLEDKFYYSDDFLVEDRYW 241

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

 Score = 283 (104.7 bits), Expect = 7.6e-25, P = 7.6e-25
 Identities = 63/155 (40%), Positives = 86/155 (55%)

Query:     1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDD 60
             RL+LY NGN    G  HISLY+ ++E+ Y P   WEV V+   F+ +   N+YLAI   D
Sbjct:    92 RLVLYVNGNPNDSGNDHISLYVRIEETEYLPRG-WEVNVDLKLFIHNGKLNKYLAI--SD 148

Query:    61 GAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTGKGEALSIVKV 120
             G +   +  KRE G  +LIP   F   + GY+  D   FGAEIF++KP  + E ++ +  
Sbjct:   149 GTLKLYNDAKREWGFGQLIPHVTFYN-TYGYIEQDIGSFGAEIFIVKPAQQQEKVTFISN 207

Query:   121 PAQAGNILRWKIPNFSDLRDPEYYSSEFNAGGREW 155
             P    N+  WKI +FS L D  YYS +F    R W
Sbjct:   208 PPT--NVFTWKILHFSILEDKFYYSDDFLVEDRYW 240

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

 Score = 277 (102.6 bits), Expect = 4.3e-24, P = 4.3e-24
 Identities = 62/155 (40%), Positives = 84/155 (54%)

Query:     1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDD 60
             RL+LY NGN+   G  HISLY+ ++E+   P   WEV V    FV +  + +YL ++  D
Sbjct:   162 RLVLYVNGNQNDGGNNHISLYVRIEETESLPKG-WEVNVELKLFVYNGKQRKYLIVK--D 218

Query:    61 GAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTGKGEALSIVKV 120
             G V R +  K+E G  KLIPL  F + + GYL  D   FGAEIF        E ++ +  
Sbjct:   219 GIVKRYNDAKKEWGYGKLIPLTTFLDTNEGYLEQDIASFGAEIFSGTAVQVQEKVTFISN 278

Query:   121 PAQAGNILRWKIPNFSDLRDPEYYSSEFNAGGREW 155
             P    N+  WKI +FS+L D  YYS +F    R W
Sbjct:   279 PPN--NVFTWKILHFSNLEDKFYYSDDFLVEDRYW 311

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 = 266 (98.7 bits), Expect = 4.8e-23, P = 4.8e-23
 Identities = 59/155 (38%), Positives = 86/155 (55%)

Query:     1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDD 60
             RL+LY NGN+K  G  H+SLY  + E+   P   WEV V+   FV +   N+YL +    
Sbjct:    85 RLVLYVNGNEKDGGKDHVSLYAKIVETESLPVG-WEVNVDLKLFVYNGKLNKYLIV---- 139

Query:    61 GAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTGKGEALSIVKV 120
               V R ++  +E G  +LIP   F + ++GY   D+  FGAEI+++KP  + E ++ +  
Sbjct:   140 -TVKRYNNATKELGYGQLIPQSTFYDGNDGYREQDTGTFGAEIYIVKPAQQKEKVTFISN 198

Query:   121 PAQAGNILRWKIPNFSDLRDPEYYSSEFNAGGREW 155
             P    N+  WKI +FS L D  Y S+EF  G R W
Sbjct:   199 PPD--NVFTWKILHFSTLEDKVYQSNEFLVGDRYW 231

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0031225 "anchored to membrane" evidence=TAS

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

 Score = 262 (97.3 bits), Expect = 1.3e-22, P = 1.3e-22
 Identities = 57/157 (36%), Positives = 83/157 (52%)

Query:     1 RLILYPNGNKKGQGTGH--ISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRY 58
             R +L+ NGN+     GH  ++LY+ + E+  FP   WEV V+   FV +   ++YL +  
Sbjct:    92 RFMLFVNGNQNDPDGGHENMALYVGIKETESFPRG-WEVNVDLKLFVHNEKLHKYLTV-- 148

Query:    59 DDGAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTGKGEALSIV 118
              DG V R  + K   G   LIP     +P+ GY++ D+  FGAEI ++ P  K E ++ +
Sbjct:   149 SDGTVKRYEAAKTYWGFGNLIPRTTLLDPNEGYILHDTLSFGAEISIVNPAEKQEKITFI 208

Query:   119 KVPAQAGNILRWKIPNFSDLRDPEYYSSEFNAGGREW 155
               P    N+  WKI  FS L +  YYS EF  G R W
Sbjct:   209 SNPPD--NVFTWKILRFSTLENKFYYSDEFLVGDRYW 243

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

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

 Score = 256 (95.2 bits), Expect = 1.0e-21, P = 1.0e-21
 Identities = 61/157 (38%), Positives = 85/157 (54%)

Query:     1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTF--FVQDRIKNEYLAIRY 58
             RLILY NGN+   G+ HISLYL  +E+ +     ++  +NF    FV +  +++YL +  
Sbjct:   153 RLILYVNGNQNDGGSNHISLYLRSEETDHLT---YDGSINFVLKLFVYNGKQDKYLTVT- 208

Query:    59 DDGAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTGKGEALSIV 118
              DG   R +   +E G  KLIPL  F + S GYL  D+  FGAEIF+  P    E ++ +
Sbjct:   209 -DGIQKRYNYKNKEWGYGKLIPLSTFLDTSQGYLEQDTASFGAEIFLCPPIQVQEKVTFI 267

Query:   119 KVPAQAGNILRWKIPNFSDLRDPEYYSSEFNAGGREW 155
               P    N+  WKI +FS L D  YYS +F    R W
Sbjct:   268 SNPPN--NVFTWKILHFSTLEDIVYYSDDFLVEDRYW 302

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 = 253 (94.1 bits), Expect = 1.1e-21, P = 1.1e-21
 Identities = 53/158 (33%), Positives = 90/158 (56%)

Query:     1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDD 60
             RL++YP GN+K +G+G IS+Y+  D +     +P EVF    FFV ++ +N+Y  I+  D
Sbjct:   129 RLVIYPKGNEKDKGSGFISMYVEFDNTKVSSTSPMEVFAYIIFFVYNKKENKYFTIQ--D 186

Query:    61 GAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVD-DSCVFGAEIFVIKPTGKGEALSIVK 119
               V R ++++   G+ +++ L+ F +  NGY  + + C FG ++ V  P  K E +S   
Sbjct:   187 VEVKRFNALRTVWGLSQVLSLETFNDLENGYTFEGEQCEFGVDVMVASPITKWEVVSF-- 244

Query:   120 VPAQAGNILR--WKIPNFSDLRDPEYYSSEFNAGGREW 155
                +  +IL+  W + +FS L++  Y S  F+ GGR W
Sbjct:   245 --DEKLDILKFSWSVKDFSVLKEEFYVSERFSMGGRLW 280

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

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

 Score = 252 (93.8 bits), Expect = 1.5e-21, P = 1.5e-21
 Identities = 60/156 (38%), Positives = 83/156 (53%)

Query:     2 LILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDG 61
             L++YP GNK   GTGHISLY+ LD ST    +  EV V+  F+V ++ + +Y  I+  D 
Sbjct:   102 LVVYPKGNKNDNGTGHISLYVVLDNSTLTSQSE-EVHVDLRFYVFNKKETKYFTIQDTD- 159

Query:    62 AVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVD-DSCVFGAEIFVIKPTGKGEALSIVK- 119
              V R  ++KR  G  K++PL  F    NGYL D D C FG ++ +     K E  S+ K 
Sbjct:   160 -VWRFSAIKRMWGFSKVLPLITFNNLKNGYLYDVDHCEFGVDVIIPPFYEKSEVFSVTKS 218

Query:   120 VPAQAGNILRWKIPNFSDLRDPEYYSSEFNAGGREW 155
              P+       W I  +S L   +Y S EF  GG+ W
Sbjct:   219 FPSPR---FTWYIQGYSTL-PTDYLSEEFIIGGKSW 250

GO:0003674 "molecular_function" evidence=ND

GO:0005576 "extracellular region" evidence=ISM

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	155
cd00121	126	cd00121, MATH, MATH (meprin and TRAF-C homology) d	3e-11
pfam00917	116	pfam00917, MATH, MATH domain	4e-05
cd03779	147	cd03779, MATH_TRAF1, Tumor Necrosis Factor Recepto	1e-04

>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 = 57.0 bits (138), Expect = 3e-11
 Identities = 26/103 (25%), Positives = 43/103 (41%), Gaps = 8/103 (7%)

Query: 1   RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDD 60
           R+ +YPNG+ +     ++SLYL LD+        W V   FT  + ++   + L+  +  
Sbjct: 31  RIRIYPNGDGESGD--YLSLYLELDKGESDLEK-WSVRAEFTLKLVNQNGGKSLSKSFTH 87

Query: 61  GAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEI 103
              +         G  K I     ++    YLVDDS     E+
Sbjct: 88  ---VFFSEKGSGWGFPKFISWDDLEDS--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|216189 pfam00917, MATH, MATH domain

 Score = 40.4 bits (95), Expect = 4e-05
 Identities = 25/111 (22%), Positives = 40/111 (36%), Gaps = 27/111 (24%)

Query: 1   RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDD 60
           RL +Y NG       G + LYL  ++        W +   FT  +             D+
Sbjct: 27  RLRIYRNG-------GFLGLYLHCEKGEKDELLGWSIETEFTLKLVS-----------DN 68

Query: 61  GAVIR----LHSMKRE--CGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFV 105
           G  +      H   +    G  K I     +   N Y+VDD+ +  AE+ +
Sbjct: 69  GKSLTKRNKSHVFTKPTGYGWGKFISWDDLE---NDYVVDDTIIIEAEVKI 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|239748 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

 Score = 39.5 bits (92), Expect = 1e-04
 Identities = 30/100 (30%), Positives = 45/100 (45%), Gaps = 6/100 (6%)

Query: 2   LILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYL--AIRYD 59
           L LY NG+  G+GT HISL+  + +  Y    PW      TF + D+   E++  A R D
Sbjct: 41  LRLYLNGDGAGKGT-HISLFFVIMKGEYDALLPWPFRHKVTFMLLDQNNREHVIDAFRPD 99

Query: 60  DGAVI---RLHSMKRECGIDKLIPLQAFKEPSNGYLVDDS 96
             +      +  M    G     PL+  + P + Y  DD+
Sbjct: 100 LSSASFQRPVSDMNVASGCPLFFPLKKLQSPKHAYCKDDT 139

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-mediated signaling events. TRAF1 contains one zinc finger and one TRAF domain. The TRAF domain can be divided into a more divergent N-terminal alpha helical region (TRAF-N), and a highly conserved C-terminal MATH subdomain (TRAF-C) with an eight-stranded beta-sandwich structure. TRAF-N mediates trimerization while TRAF-C interacts with receptors. Length = 147

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	155
cd03772	137	MATH_HAUSP Herpesvirus-associated ubiquitin-specif	99.89
cd03774	139	MATH_SPOP Speckle-type POZ protein (SPOP) family,	99.88
cd03775	134	MATH_Ubp21p Ubiquitin-specific protease 21 (Ubp21p	99.87
cd03779	147	MATH_TRAF1 Tumor Necrosis Factor Receptor (TNFR) A	99.83
cd03780	148	MATH_TRAF5 Tumor Necrosis Factor Receptor (TNFR)-A	99.82
cd03776	147	MATH_TRAF6 Tumor Necrosis Factor Receptor (TNFR)-A	99.8
cd00270	149	MATH_TRAF_C Tumor Necrosis Factor Receptor (TNFR)-	99.79
cd03781	154	MATH_TRAF4 Tumor Necrosis Factor Receptor (TNFR)-A	99.78
cd03773	132	MATH_TRIM37 Tripartite motif containing protein 37	99.78
cd03777	186	MATH_TRAF3 Tumor Necrosis Factor Receptor (TNFR)-A	99.77
cd03778	164	MATH_TRAF2 Tumor Necrosis Factor Receptor (TNFR) A	99.76
PF00917	119	MATH: MATH domain; InterPro: IPR002083 Although ap	99.75
cd00121	126	MATH MATH (meprin and TRAF-C homology) domain; an	99.74
cd03771	167	MATH_Meprin Meprin family, MATH domain; Meprins ar	99.67
cd03783	167	MATH_Meprin_Alpha Meprin family, Alpha subunit, MA	99.52
cd03782	167	MATH_Meprin_Beta Meprin family, Beta subunit, MATH	99.49
smart00061	95	MATH meprin and TRAF homology.	99.3
COG5077	1089	Ubiquitin carboxyl-terminal hydrolase [Posttransla	99.12
KOG1987	297	consensus Speckle-type POZ protein SPOP and relate	99.0
KOG1863	1093	consensus Ubiquitin carboxyl-terminal hydrolase [P	98.2
KOG0297	391	consensus TNF receptor-associated factor [Signal t	91.79
COG5077	1089	Ubiquitin carboxyl-terminal hydrolase [Posttransla	88.46
cd03777	186	MATH_TRAF3 Tumor Necrosis Factor Receptor (TNFR)-A	87.0

>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=99.89  E-value=3.3e-22  Score=140.87  Aligned_cols=103  Identities=12%  Similarity=0.276  Sum_probs=81.1

Q ss_pred             CeEEecCCCCCC-CCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCceeEEecCCCceEEecCCcccccccccc
Q 041773            1 RLILYPNGNKKG-QGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGIDKLI   79 (155)
Q Consensus         1 rl~~yP~G~~~~-~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~~~~~~~~~~~~F~~~~~~wG~~~Fi   79 (155)
                      ||++||+|+... ...+||||||+|.+....+ . |++.|+|+|+|+||++........   ..+.|.....+|||.+||
T Consensus        32 ~i~~~P~g~~~~~~~~~~lsvyL~~~~~~~~~-~-w~i~a~~~~~l~~~~~~~~~~~~~---~~~~f~~~~~~~G~~~fi  106 (137)
T cd03772          32 KIMVMPRNYPDRNPHQKSVGFFLQCNAESDST-S-WSCHAQAVLRIINYKDDEPSFSRR---ISHLFFSKENDWGFSNFM  106 (137)
T ss_pred             EEEEEeCCCCCCCCCCCeEEEEEeeCCcCCCC-C-CeEEEEEEEEEEcCCCCcccEEEe---eeeEEcCCCCCccchhee
Confidence            689999997532 1237999999997654333 5 999999999999998543322222   346787666799999999


Q ss_pred             cccccccCCCCeeeCCEEEEEEEEEEeCC
Q 041773           80 PLQAFKEPSNGYLVDDSCVFGAEIFVIKP  108 (155)
Q Consensus        80 ~~~~L~~~~~gyl~dD~l~i~~~V~v~~~  108 (155)
                      +|++|+++++|||+||+|+|+|+|+|-.+
T Consensus       107 ~~~~L~~~~sgyl~~D~l~Ie~~V~~~~~  135 (137)
T cd03772         107 TWSEVTDPEKGFIEDDTITLEVYVQADAP  135 (137)
T ss_pred             EHHHhcCCCCCcEECCEEEEEEEEEeeCC
Confidence            99999877899999999999999988653

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=99.88  E-value=5.3e-22  Score=140.06  Aligned_cols=98  Identities=26%  Similarity=0.346  Sum_probs=78.9

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCceeEEecCCCceEEecCCccccccccccc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGIDKLIP   80 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~~~~~~~~~~~~F~~~~~~wG~~~Fi~   80 (155)
                      ||++||+|+..+ ..+|+||||++++.+    . +++.|+|+|+|+||++........  ...+.|.. ..+|||.+||+
T Consensus        41 ~l~~yP~G~~~~-~~~~iSlyL~l~~~~----~-~~v~a~f~~~l~n~~~~~~~~~~~--~~~~~f~~-~~~wG~~~fi~  111 (139)
T cd03774          41 CLRVNPKGLDEE-SKDYLSLYLLLVSCP----K-SEVRAKFKFSILNAKGEETKAMES--QRAYRFVQ-GKDWGFKKFIR  111 (139)
T ss_pred             EEEEeCCCCCCC-CCCeEEEEEEEccCC----C-CcEEEEEEEEEEecCCCeeeeecc--cCcEeCCC-CCccCHHHeee
Confidence            589999998643 357999999997632    2 679999999999999865432211  23567764 46899999999


Q ss_pred             ccccccCCCCeeeCCEEEEEEEEEEeC
Q 041773           81 LQAFKEPSNGYLVDDSCVFGAEIFVIK  107 (155)
Q Consensus        81 ~~~L~~~~~gyl~dD~l~i~~~V~v~~  107 (155)
                      +++|+++.+|||+||+|+|+|+|+|++
T Consensus       112 ~~~L~~~~~g~l~dD~l~I~c~I~V~~  138 (139)
T cd03774         112 RDFLLDEANGLLPDDKLTLFCEVSVVQ  138 (139)
T ss_pred             HHHhhhhhcccccCCEEEEEEEEEEEc
Confidence            999987778999999999999999986

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=99.87  E-value=8.9e-22  Score=138.23  Aligned_cols=97  Identities=20%  Similarity=0.424  Sum_probs=78.9

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCC----CCCCCceEEEEEEEEEEeCCCCceeEEecCCCceEEecCCccccccc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTY----FPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGID   76 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~----~~~~~w~~~a~f~l~l~n~~~~~~~~~~~~~~~~~~F~~~~~~wG~~   76 (155)
                      ||++||+|+..   .+||||||++++.+.    .+++ |.+.|+|+|+|+||.++.......   ..+.|+....+|||.
T Consensus        30 ~l~~yP~G~~~---~~~iSlyL~l~~~~~~~~~~~~~-~~v~a~f~~~l~n~~~~~~~~~~~---~~~~F~~~~~~wG~~  102 (134)
T cd03775          30 RILLFPQGNSQ---TGGVSIYLEPHPEEEEKAPLDED-WSVCAQFALVISNPGDPSIQLSNV---AHHRFNAEDKDWGFT  102 (134)
T ss_pred             EEEEeCCCCCC---CCeEEEEEEecCcccccccCCCC-CeEEEEEEEEEEcCCCCccceEcc---ceeEeCCCCCCCChh
Confidence            68999999864   479999999977543    2445 999999999999998655433222   478998766799999


Q ss_pred             ccccccccccC----CCCeeeCCEEEEEEEEE
Q 041773           77 KLIPLQAFKEP----SNGYLVDDSCVFGAEIF  104 (155)
Q Consensus        77 ~Fi~~~~L~~~----~~gyl~dD~l~i~~~V~  104 (155)
                      +||++++|++|    ++|||+||+|+|+|+|.
T Consensus       103 ~fi~~~~L~~~~~~~~~g~l~nD~l~I~~~~~  134 (134)
T cd03775         103 RFIELRKLAHRTPDKPSPFLENGELNITVYVR  134 (134)
T ss_pred             HcccHHHHcccccCCCCceeECCEEEEEEEEC
Confidence            99999999965    57999999999999874

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.

>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=99.83  E-value=4.7e-20  Score=131.11  Aligned_cols=103  Identities=24%  Similarity=0.411  Sum_probs=76.7

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCceeEEecCC-CceEEec----CCcccccc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDD-GAVIRLH----SMKRECGI   75 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~~~~~~~-~~~~~F~----~~~~~wG~   75 (155)
                      +|.+||||++.+. .+|+||||+++..+.+...+|++.++++|+|+||.+.......... ...+.|+    ..+.+||+
T Consensus        40 ~i~~ypnG~~~~~-~~~iSv~l~l~~g~~D~~l~wpv~~~~tfsLlDq~~~~~~~~~~~~~~~~~~F~rP~~~~n~~~G~  118 (147)
T cd03779          40 CLRLYLNGDGAGK-GTHISLFFVIMKGEYDALLPWPFRHKVTFMLLDQNNREHVIDAFRPDLSSASFQRPVSDMNVASGC  118 (147)
T ss_pred             EEEEEcCCCCCCC-CCEEEEEEEEecCCcccccCcceEEEEEEEEECCCCCCCCcEeecCCcccccccCcccCCCCCcch
Confidence            4889999998653 4699999999986554322499999999999999875442211110 0135686    33458999


Q ss_pred             cccccccccccCCCCeeeCCEEEEEEEEE
Q 041773           76 DKLIPLQAFKEPSNGYLVDDSCVFGAEIF  104 (155)
Q Consensus        76 ~~Fi~~~~L~~~~~gyl~dD~l~i~~~V~  104 (155)
                      .+||++++|+.+..+||.||+++|+|+|.
T Consensus       119 ~~Fi~~~~Le~s~~~ylkDD~~~Irc~V~  147 (147)
T cd03779         119 PLFFPLKKLQSPKHAYCKDDTIYIKCVVD  147 (147)
T ss_pred             hheeEHHHhcccCCCcEeCCEEEEEEEEC
Confidence            99999999983224899999999999873

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

>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=99.82  E-value=1.1e-19  Score=129.52  Aligned_cols=102  Identities=18%  Similarity=0.332  Sum_probs=77.7

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCcee-EEec-CCCceEEecCC----ccccc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYL-AIRY-DDGAVIRLHSM----KRECG   74 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~-~~~~-~~~~~~~F~~~----~~~wG   74 (155)
                      +|++||||.+.+.+ +||||||+++..+.+...+|++.++++|.|+||.+.... .... +....+.|+..    +.+||
T Consensus        40 ~i~~ypnG~~~~~~-~~iSv~l~l~~g~~D~~l~wp~~~~~tfsLlDq~~~~~~~~~~~~~~~~~~~F~rp~~~~n~~~G  118 (148)
T cd03780          40 CARAYLNGDGSGKG-THLSLYFVVMRGEFDSLLQWPFRQRVTLMLLDQSGKKNHIMETFKADPNSSSFKRPDGEMNIASG  118 (148)
T ss_pred             EEEEEcCCCCCCCC-CEEEEEEEEecCccccccCcceEEEEEEEEECCCCCCCCcceeeecCCccccccCCCCCCCCCcC
Confidence            47899999986543 599999999987666543599999999999999865332 1111 00123567544    45799


Q ss_pred             ccccccccccccCCCCeeeCCEEEEEEEE
Q 041773           75 IDKLIPLQAFKEPSNGYLVDDSCVFGAEI  103 (155)
Q Consensus        75 ~~~Fi~~~~L~~~~~gyl~dD~l~i~~~V  103 (155)
                      +.+||++++|+.++.+||.||+++|+|.|
T Consensus       119 ~~~Fi~~~~Le~s~~~ylkdD~~~Ik~~v  147 (148)
T cd03780         119 CPRFVAHSVLENAKNTYIKDDTLFLKVAV  147 (148)
T ss_pred             hhheeEHHHhhcccCCcCcCCEEEEEEEE
Confidence            99999999998544599999999999987

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=99.80  E-value=1.3e-19  Score=129.14  Aligned_cols=100  Identities=12%  Similarity=0.137  Sum_probs=74.8

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCC-CCCCceEEEEEEEEEEeCCCCceeEE-e-cCCCceEEecC-----Cccc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYF-PNNPWEVFVNFTFFVQDRIKNEYLAI-R-YDDGAVIRLHS-----MKRE   72 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~-~~~~w~~~a~f~l~l~n~~~~~~~~~-~-~~~~~~~~F~~-----~~~~   72 (155)
                      +|++||||...+ ..+||||||+|++...+ .. +|++.|+|+|+|+||.++..... . .+......|..     ...+
T Consensus        40 ~i~~yP~G~~~~-~~~~lS~~L~l~~~~~d~~l-~wpv~a~~~~~lldq~~~~~~~~~~~~~~~~~~~F~~p~~~~~~~~  117 (147)
T cd03776          40 CARLNLSLPEAR-CPNYISLFVHLMQGENDSHL-DWPFQGTITLTLLDQSEPRQNIHETMMSKPELLAFQRPTTDRNPKG  117 (147)
T ss_pred             EEEEEeCCCCCC-CCCEEEEEEEEeccCCCccc-CCcccceeEEEEECCCcccCccEEEEEcCCChHhhcCCCcCCCCCC
Confidence            589999998764 34799999999876543 23 39999999999999987432210 0 10112345652     2357


Q ss_pred             ccccccccccccccCCCCeeeCCEEEEEEEEE
Q 041773           73 CGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIF  104 (155)
Q Consensus        73 wG~~~Fi~~~~L~~~~~gyl~dD~l~i~~~V~  104 (155)
                      |||.+||++++|+  +.+||.||+|+|+|+|.
T Consensus       118 ~G~~~fi~~~~Le--~~~yl~dD~l~I~c~V~  147 (147)
T cd03776         118 FGYVEFAHIEDLL--QRGFVKNDTLLIKIEVN  147 (147)
T ss_pred             eeEceeeEHHHhh--hCCCccCCEEEEEEEEC
Confidence            9999999999998  56899999999999984

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

>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=99.79  E-value=7.4e-19  Score=125.19  Aligned_cols=100  Identities=23%  Similarity=0.393  Sum_probs=73.4

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCC-CCCCceEEEEEEEEEEeCCCC---ceeEEe-cCCCceEEec-----CCc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYF-PNNPWEVFVNFTFFVQDRIKN---EYLAIR-YDDGAVIRLH-----SMK   70 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~-~~~~w~~~a~f~l~l~n~~~~---~~~~~~-~~~~~~~~F~-----~~~   70 (155)
                      ||++||||+..+. .+||||||++++.+.+ ... |++.|+|+|+|+||.++   ++.... .+....+.|.     ...
T Consensus        40 ~i~~yP~G~~~~~-~~~lsl~L~l~~~~~d~~~~-w~~~~~~~~~l~d~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~  117 (149)
T cd00270          40 CLRLYLNGDGTGK-GTHLSLFVHVMKGEYDALLE-WPFRGKITLTLLDQSDDSKRKHITETFMPDPNSSAFQRPPTGENN  117 (149)
T ss_pred             EEEEEeCCCCCCC-CCEEEEEEEEeccCCCcccc-CCccceEEEEEECCCCccccCceEEEEEcCCchHhhcCCCcccCC
Confidence            5899999986543 3699999999887544 234 99999999999999874   221111 0000123454     134


Q ss_pred             ccccccccccccccccCCCCeeeCCEEEEEEEEE
Q 041773           71 RECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIF  104 (155)
Q Consensus        71 ~~wG~~~Fi~~~~L~~~~~gyl~dD~l~i~~~V~  104 (155)
                      .+|||.+||++++|+  +.|||+||+|+|+|+|.
T Consensus       118 ~~~G~~~fi~~~~L~--~~gfl~dD~l~I~~~v~  149 (149)
T cd00270         118 IGFGYPEFVPLEKLE--SRGYVKDDTLFIKVEVD  149 (149)
T ss_pred             CCcCcceEeEHHHhc--cCCCEeCCEEEEEEEEC
Confidence            689999999999998  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

>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=99.78  E-value=9.7e-19  Score=125.60  Aligned_cols=100  Identities=21%  Similarity=0.342  Sum_probs=73.9

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCCC-CCCceEEEEEEEEEEeCCCCc--e--eE-Eec-CCCceEEecC-----
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYFP-NNPWEVFVNFTFFVQDRIKNE--Y--LA-IRY-DDGAVIRLHS-----   68 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~-~~~w~~~a~f~l~l~n~~~~~--~--~~-~~~-~~~~~~~F~~-----   68 (155)
                      +|++||||...+. .+|||+||++++.+.+. .. |++.++|+|+|+||.+..  .  .. ... +......|+.     
T Consensus        40 ~i~~yPnG~~~~~-~~~vs~~l~l~~ge~d~~l~-wp~~a~~~~~llDq~~~~~~~~~~~~~~~~~~~~~~~F~rp~~~~  117 (154)
T cd03781          40 QVSAFLNGNGSGE-GSHLSVYIRVLPGEYDNLLE-WPFSHRITFTLLDQSDPSLSKPQHITETFTPDPTWKNFQKPSASR  117 (154)
T ss_pred             EEEEECCCCCCCC-CCEEEEEEEEecCCcccccC-CceeeEEEEEEECCCCCccccCcceEEEEEcCCchhhhcCCcccc
Confidence            4789999987654 46999999999865543 24 999999999999998741  1  11 000 0011234542     


Q ss_pred             ---CcccccccccccccccccCCCCeeeCCEEEEEEEEE
Q 041773           69 ---MKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIF  104 (155)
Q Consensus        69 ---~~~~wG~~~Fi~~~~L~~~~~gyl~dD~l~i~~~V~  104 (155)
                         .+.+||+.+||++++|+  +++||.||+++|+|+|.
T Consensus       118 ~~~~~~~~G~~~fi~~~~Le--~~~yl~dD~l~Irc~v~  154 (154)
T cd03781         118 LDESTLGFGYPKFISHEDLK--KRNYIKDDAIFLRASVE  154 (154)
T ss_pred             cCCCCCccchhHeeEHHHHh--hCCcccCCEEEEEEEeC
Confidence               33579999999999998  57899999999999873

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

>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=99.78  E-value=1.1e-18  Score=121.94  Aligned_cols=92  Identities=17%  Similarity=0.271  Sum_probs=72.0

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCceeEEecCCCceEEecCCccccccccccc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGIDKLIP   80 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~~~~~~~~~~~~F~~~~~~wG~~~Fi~   80 (155)
                      ||++||+|+..+. .+||||||.+.+..    . |.+.++|+|+|+||.++.......   ..+.|.. ..+|||.+||+
T Consensus        37 ~i~~yP~G~~~~~-~~~lSl~L~l~~~~----~-~~~~~~~~l~llnq~~~~~~~~~~---~~~~f~~-~~~wG~~~Fi~  106 (132)
T cd03773          37 RLKVYPDGNGEVR-GNFLSVFLELCSGL----G-EASKYEYRVEMVHQANPTKNIKRE---FASDFEV-GECWGYNRFFR  106 (132)
T ss_pred             EEEEECCCCCCCC-CCEEEEEEEeecCC----C-CceeEEEEEEEEcCCCCccceEEe---ccccccC-CCCcCHHHhcc
Confidence            6899999987543 46999999987632    2 678899999999995443333222   3567765 35799999999


Q ss_pred             ccccccCCCCeeeC--CEEEEEEEEE
Q 041773           81 LQAFKEPSNGYLVD--DSCVFGAEIF  104 (155)
Q Consensus        81 ~~~L~~~~~gyl~d--D~l~i~~~V~  104 (155)
                      +++|+  ++|||.|  |+|+|+|.|+
T Consensus       107 ~~~L~--~~gfl~~~~D~l~i~~~v~  130 (132)
T cd03773         107 LDLLI--NEGYLLPENDTLILRFSVR  130 (132)
T ss_pred             HHHHh--hCCCcCCCCCEEEEEEEEe
Confidence            99998  4899999  9999999985

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

>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=99.77  E-value=2.7e-18  Score=126.51  Aligned_cols=102  Identities=18%  Similarity=0.285  Sum_probs=76.4

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCceeE-Ee-cCCCceEEec-CC---ccccc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLA-IR-YDDGAVIRLH-SM---KRECG   74 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~~-~~-~~~~~~~~F~-~~---~~~wG   74 (155)
                      +|.+||||++.+.+ +||||||+++.++.++..+|++.++|+|.|+||.+..... .. .+......|+ +.   +.+||
T Consensus        78 ~i~~ypnG~g~~~~-~~iSvyl~L~~ge~D~~L~WP~~~~~tfsLlDQ~~~~~~~~~~~~p~p~~~~F~rp~~~~n~~~G  156 (186)
T cd03777          78 CARVYLNGDGMGKG-THLSLFFVIMRGEYDALLPWPFKQKVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMNIASG  156 (186)
T ss_pred             EEEEEcCCCCCCCC-CEEEEEEEEecCCcccccCCceeEEEEEEEEcCCCccccccceeccCCccccccCCccCCCCCCC
Confidence            47899999986544 6999999999876654335999999999999997532111 00 0011235575 33   45899


Q ss_pred             ccccccccccccCCCCeeeCCEEEEEEEEEE
Q 041773           75 IDKLIPLQAFKEPSNGYLVDDSCVFGAEIFV  105 (155)
Q Consensus        75 ~~~Fi~~~~L~~~~~gyl~dD~l~i~~~V~v  105 (155)
                      +++||++++|+  +.+||.||+++|+|.|..
T Consensus       157 ~~~Fi~~~~Le--~~~ylkdD~l~Irv~v~~  185 (186)
T cd03777         157 CPVFVAQTVLE--NGTYIKDDTIFIKVIVDT  185 (186)
T ss_pred             chheeEHHHhc--cCCcEeCCEEEEEEEEec
Confidence            99999999998  688999999999998863

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

>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=99.76  E-value=4.2e-18  Score=122.69  Aligned_cols=101  Identities=23%  Similarity=0.375  Sum_probs=77.5

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCceeEEec-CCCceEEec----CCcccccc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRY-DDGAVIRLH----SMKRECGI   75 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~~~~~-~~~~~~~F~----~~~~~wG~   75 (155)
                      +|++||||++.+.++ ||||||++++++.+...+|++..+++|+|+||++.++..... ++.....|+    ..+.+||+
T Consensus        58 ~l~~ylnG~g~~~g~-~LSly~~l~~Ge~D~~L~WPf~~~itl~llDQ~~r~hi~~~~~pd~~~~~f~RP~~~~n~~~G~  136 (164)
T cd03778          58 CLRIYLNGDGTGRGT-HLSLFFVVMKGPNDALLRWPFNQKVTLMLLDQNNREHVIDAFRPDVTSSSFQRPVNDMNIASGC  136 (164)
T ss_pred             EEEEEeCCCCCCCCC-EEEEEEEEecCCcCcccCCceeeEEEEEEECCCCCCcceeEEEcCcchHhcCCCCcccccCcCc
Confidence            478999999876654 999999999998887324999999999999998755533211 011112352    23468999


Q ss_pred             cccccccccccCCCCeeeCCEEEEEEEE
Q 041773           76 DKLIPLQAFKEPSNGYLVDDSCVFGAEI  103 (155)
Q Consensus        76 ~~Fi~~~~L~~~~~gyl~dD~l~i~~~V  103 (155)
                      +.||++++|+.+ .|||.||+|.|+|.|
T Consensus       137 ~~Fv~l~~l~~~-~~Yv~dDtlfIk~~V  163 (164)
T cd03778         137 PLFCPVSKXEAK-NSYVRDDAIFIKAIV  163 (164)
T ss_pred             ceEEEhhHcccc-CCcccCCeEEEEEEE
Confidence            999999999843 699999999999977

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

>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=99.75  E-value=9.5e-18  Score=114.20  Aligned_cols=92  Identities=24%  Similarity=0.413  Sum_probs=74.9

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCCC-CCCceEEEEEEEEEEeCCCCceeEEecCCCceEEecCCcccccccccc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYFP-NNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGIDKLI   79 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~-~~~w~~~a~f~l~l~n~~~~~~~~~~~~~~~~~~F~~~~~~wG~~~Fi   79 (155)
                      +|.+||+|+     .+|||+||+|...+... .. |++.|++++.|+++.++..... .   ..+.|... .+|||.+||
T Consensus        27 ~l~~~~~~~-----~~~l~~~L~~~~~~~~~~~~-w~~~~~~~~~~~~~~~~~~~~~-~---~~~~F~~~-~~~g~~~fi   95 (119)
T PF00917_consen   27 RLKVYPKGN-----GKYLSVYLHCDKGENDSDLE-WSIEAEFRFRLLNQNGKSISKR-I---KSHSFNNP-SSWGWSSFI   95 (119)
T ss_dssp             EEEEETTES-----TTEEEEEEEEECSTTGGGSS-SSEEEEEEEEEE-TTSCEEEEE-E---ECEEECTT-SEEEEEEEE
T ss_pred             EEEEEeCCC-----cCcEEEEEEEeecccccccc-eeeeEEEEEEEecCCCCcceee-e---eeeEEeee-cccchhhee
Confidence            589999998     26999999999886553 44 9999999999999998763322 1   14788754 689999999


Q ss_pred             cccccccCCCCeeeCCEEEEEEEEEE
Q 041773           80 PLQAFKEPSNGYLVDDSCVFGAEIFV  105 (155)
Q Consensus        80 ~~~~L~~~~~gyl~dD~l~i~~~V~v  105 (155)
                      ++++|+++  .||.||+|+|+|+|+|
T Consensus        96 ~~~~l~~~--~fl~dd~l~ie~~v~I  119 (119)
T PF00917_consen   96 SWEDLEDP--YFLVDDSLTIEVEVKI  119 (119)
T ss_dssp             EHHHHTTC--TTSBTTEEEEEEEEEE
T ss_pred             EHHHhCcc--CCeECCEEEEEEEEEC
Confidence            99999954  3899999999999987

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 ....

>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=99.74  E-value=1.6e-17  Score=113.35  Aligned_cols=95  Identities=27%  Similarity=0.458  Sum_probs=73.1

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCceeEEecCCCceEEe-cCCcccccccccc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRL-HSMKRECGIDKLI   79 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~~~~~~~~~~~~F-~~~~~~wG~~~Fi   79 (155)
                      ||++||+|...  ..+||||||+|.+....... |.+.|+|+|.|+|+++.+......    .+.| .....+|||.+||
T Consensus        31 ~l~~~p~~~~~--~~~~lsv~L~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~~----~~~~~~~~~~~~G~~~fi  103 (126)
T cd00121          31 RIRIYPNGDGE--SGDYLSLYLELDKGESDLEK-WSVRAEFTLKLVNQNGGKSLSKSF----THVFFSEKGSGWGFPKFI  103 (126)
T ss_pred             EEEEEcCCCCC--CCCEEEEEEEecCCCCCCCC-CcEEEEEEEEEECCCCCccceEec----cCCcCCCCCCCCChHHee
Confidence            68999999865  34699999999876554444 999999999999998444433222    2334 2445799999999


Q ss_pred             cccccccCCCCeeeCCEEEEEEEEE
Q 041773           80 PLQAFKEPSNGYLVDDSCVFGAEIF  104 (155)
Q Consensus        80 ~~~~L~~~~~gyl~dD~l~i~~~V~  104 (155)
                      ++++|++  .++++||+|+|+|+|.
T Consensus       104 ~~~~l~~--~~~~~~d~l~i~~~v~  126 (126)
T cd00121         104 SWDDLED--SYYLVDDSLTIEVEVK  126 (126)
T ss_pred             EHHHhcc--CCcEECCEEEEEEEEC
Confidence            9999994  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

>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=99.67  E-value=4.5e-16  Score=112.74  Aligned_cols=100  Identities=16%  Similarity=0.136  Sum_probs=70.3

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCce-EEEEEEEEEEeCCC---C-ceeEE---ecCCCc-----eEEec
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWE-VFVNFTFFVQDRIK---N-EYLAI---RYDDGA-----VIRLH   67 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~-~~a~f~l~l~n~~~---~-~~~~~---~~~~~~-----~~~F~   67 (155)
                      +|++||||+.. .+ +||||||++++.+.+...+|+ +.|+++|+|+||..   . .+...   .+....     ...|+
T Consensus        38 ~I~~YPnG~~~-~~-~~lSlyL~L~~g~~d~~L~WP~v~a~~t~~LlDQ~~~~~~r~~~~~~~~~dp~~~~~~~~~~~~~  115 (167)
T cd03771          38 QVGLYPNGTES-YP-GYTGLYFHLCSGENDDVLEWPCPNRQATMTLLDQDPDIQQRMSNQRSFTTDPSMTSSDNGEYFWD  115 (167)
T ss_pred             EEEEEeCCCCC-CC-CcceEEEEEecCCccccccCcceeEEEEEEEECCCCcccccCcceEEEecCCccccccccccccc
Confidence            58999999976 44 699999999987655333499 58999999999972   1 11111   010000     01122


Q ss_pred             C-----------------CcccccccccccccccccCCCCeeeCCEEEEEEEEE
Q 041773           68 S-----------------MKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIF  104 (155)
Q Consensus        68 ~-----------------~~~~wG~~~Fi~~~~L~~~~~gyl~dD~l~i~~~V~  104 (155)
                      .                 ...+|||..||++++|+  +.+||.||+|.|+++++
T Consensus       116 rP~~~~~~~~~~~~~~~~~~~g~G~~~Fis~~~L~--~r~ylk~dtl~i~~~~~  167 (167)
T cd03771         116 RPSKVGSYDTDTNGCTCYRGPGYGWSTFISHSRLR--RRDFLKGDDLIILLDFE  167 (167)
T ss_pred             CCccccccccccccccccccCccccccceeHHHhc--cCCCCcCCEEEEEEEeC
Confidence            1                 22489999999999999  56799999999999873

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

>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=99.52  E-value=4.7e-14  Score=101.57  Aligned_cols=101  Identities=17%  Similarity=0.219  Sum_probs=72.2

Q ss_pred             CeEEecCCCCC-CCCCCeEEEEEEEccCCCCCCCCceE-EEEEEEEEEeCCC---Cc-eeEEecC-CC--c------eEE
Q 041773            1 RLILYPNGNKK-GQGTGHISLYLALDESTYFPNNPWEV-FVNFTFFVQDRIK---NE-YLAIRYD-DG--A------VIR   65 (155)
Q Consensus         1 rl~~yP~G~~~-~~~~~~lSlyL~l~~~~~~~~~~w~~-~a~f~l~l~n~~~---~~-~~~~~~~-~~--~------~~~   65 (155)
                      .|.+||||++. +.+ .|+|||++++.++++..-+|++ .-+.+|.|+||+.   .+ +.....+ ..  .      ...
T Consensus        38 ~l~~~lng~~~~~~g-~~lSl~~~lm~Ge~D~~L~WP~~~~~itl~llDQ~~~~~~r~~~~~sf~~d~~~~~~~~~~~~~  116 (167)
T cd03783          38 GVSLYPLSNESDYSG-NYTGLYFHLCSGENDAVLEWPALNRQAIITVLDQDPDVRLRMSSSRSFTTDKSQTSSAINGTLR  116 (167)
T ss_pred             EEEEEecCCCCCCCC-CEEEEEEEEecccCCCcccCCCcCCEEEEEEEcCCcchhhccccceeeecCCCccccccccccc
Confidence            37899999864 334 4999999999998886546995 5699999999963   11 1111000 00  0      012


Q ss_pred             ecC--------------CcccccccccccccccccCCCCeeeCCEEEEEEEEE
Q 041773           66 LHS--------------MKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIF  104 (155)
Q Consensus        66 F~~--------------~~~~wG~~~Fi~~~~L~~~~~gyl~dD~l~i~~~V~  104 (155)
                      |+.              ...++||..||++++|+  +.+||.||+|.|.++++
T Consensus       117 f~rP~~~~~~~~~~~~~~~~gfG~~~Fish~~L~--~r~yikdDtlfI~~~~~  167 (167)
T cd03783         117 WDRPSRVGTYDTSCDCFRGIDFGWSTFISHSQLR--RRSFLKNDDLIIFVDFE  167 (167)
T ss_pred             ccCCcccccccccccccCCcccccccceeHHHHh--hCCcccCCeEEEEEecC
Confidence            432              23589999999999999  68899999999998763

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=99.49  E-value=1.7e-13  Score=98.33  Aligned_cols=99  Identities=16%  Similarity=0.225  Sum_probs=73.2

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEE-EEEEEEEEeCCC---C-ceeEE---ecCCCceE---Ee--c
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVF-VNFTFFVQDRIK---N-EYLAI---RYDDGAVI---RL--H   67 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~-a~f~l~l~n~~~---~-~~~~~---~~~~~~~~---~F--~   67 (155)
                      +|.+||||++.+ + .|||||++++.++++..-+|++. -+++|.|+||+.   . .+...   ..+.....   .|  +
T Consensus        38 ~l~~ylnG~g~~-~-~~lsl~~~lm~Ge~D~~L~WPf~~~qit~~LlDQ~~d~~~r~~~~~~~t~~P~~~s~~n~~f~w~  115 (167)
T cd03782          38 QVGLYLNGTDDY-P-GNLAIYLHLTSGPNDDQLQWPCPWQQATMMLLDQHPDIRQRMSNQRSVTTDPNMTSTDSDEYFWD  115 (167)
T ss_pred             EEEEEecCCCCC-C-CEEEEEEEEeccCCCccccCCCcCCeEEEEEEcCCCchhhccceeeeEEecCCcccccCccceec
Confidence            478999999864 3 59999999999988864469999 899999999963   2 22111   01000011   33  2


Q ss_pred             CC-----------------cccccccccccccccccCCCCeeeCCEEEEEEEE
Q 041773           68 SM-----------------KRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEI  103 (155)
Q Consensus        68 ~~-----------------~~~wG~~~Fi~~~~L~~~~~gyl~dD~l~i~~~V  103 (155)
                      ..                 +.++||+.||++++|+  +..||.||.+.|-+++
T Consensus       116 rP~kvg~~~~~~~~~~~~r~~~~G~~~Fish~~L~--~r~yikdD~ifi~~~~  166 (167)
T cd03782         116 DPRKVGSEVTDTDGSTFYRGPGYGTSAFITHLRLR--SRDFIKGDDVIFLLTM  166 (167)
T ss_pred             CCcccCcccccccccccccccccCccceeeHHHHh--hcCcccCCeEEEEEec
Confidence            22                 4689999999999999  6889999999998775

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=99.30  E-value=2e-11  Score=79.53  Aligned_cols=65  Identities=22%  Similarity=0.368  Sum_probs=52.1

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCceeEEecCCCceEEecCCcccccccccc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGIDKLI   79 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~~~~~~~~~~~~F~~~~~~wG~~~Fi   79 (155)
                      ||.+||++       +|||+||.|.+....+.. |++.|+|+|+|+||+++....  .   ..+.|.. ..+|||.+||
T Consensus        31 ~i~~~p~~-------~~lsl~L~~~~~~~~~~~-w~v~a~~~~~l~~~~~~~~~~--~---~~~~F~~-~~~~G~~~fi   95 (95)
T smart00061       31 RLKIYRKN-------GFLSLYLHCEKEECDSRK-WSIEAEFTLKLVSQNGKSLSK--K---DKHVFEK-PSGWGFSKFI   95 (95)
T ss_pred             EEEEEEcC-------CEEEEEEEeCCCcCCCCC-eEEEEEEEEEEEeCCCCEEee--e---eeEEEcC-CCccceeeEC
Confidence            68999991       599999999887655545 999999999999999865522  1   4688876 6789999986

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

Probab=99.12  E-value=8.4e-11  Score=100.30  Aligned_cols=101  Identities=23%  Similarity=0.427  Sum_probs=80.7

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCC---CCCCceEEEEEEEEEEeCCCCceeEEecCCCceEEecCCcccccccc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYF---PNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGIDK   77 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~---~~~~w~~~a~f~l~l~n~~~~~~~~~~~~~~~~~~F~~~~~~wG~~~   77 (155)
                      +|.++|+|+..   . -.||||+....+..   ... |.|+|+|.|.|-|+..+.....   ..++|+|+....+|||.+
T Consensus        68 ki~lfPqG~nq---~-~~sVyLe~~pqe~e~~~gk~-~~ccaqFaf~Is~p~~pti~~i---N~sHhrFs~~~tDwGFt~  139 (1089)
T COG5077          68 KIILFPQGNNQ---C-NVSVYLEYEPQELEETGGKY-YDCCAQFAFDISNPKYPTIEYI---NKSHHRFSMESTDWGFTN  139 (1089)
T ss_pred             EEEEecccCCc---c-ccEEEEEeccchhhhhcCcc-hhhhhheeeecCCCCCCchhhh---hcccccccccccccchhh
Confidence            58899999863   2 39999998764311   123 9999999999999877543222   125899998889999999


Q ss_pred             cccccccccCCCC---eeeCCEEEEEEEEEEeCCC
Q 041773           78 LIPLQAFKEPSNG---YLVDDSCVFGAEIFVIKPT  109 (155)
Q Consensus        78 Fi~~~~L~~~~~g---yl~dD~l~i~~~V~v~~~~  109 (155)
                      ||.+..|..|+.|   |+.+|++.|.|.|.|++.+
T Consensus       140 f~dL~kl~~psp~~Ppfleeg~l~ItvyVRvlkdP  174 (1089)
T COG5077         140 FIDLNKLIEPSPGRPPFLEEGTLVITVYVRVLKDP  174 (1089)
T ss_pred             hhhhhhhcCCCCCCCCcccCCeEEEEEEEEEEeCC
Confidence            9999999887766   7999999999999999874

>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=99.00  E-value=2.2e-09  Score=84.22  Aligned_cols=129  Identities=22%  Similarity=0.341  Sum_probs=96.1

Q ss_pred             eEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCce-eEEecCCCceEEecC--CcccccccccccccccccCCCCeee
Q 041773           17 HISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEY-LAIRYDDGAVIRLHS--MKRECGIDKLIPLQAFKEPSNGYLV   93 (155)
Q Consensus        17 ~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~-~~~~~~~~~~~~F~~--~~~~wG~~~Fi~~~~L~~~~~gyl~   93 (155)
                      |+|.|+.+....    + |.+.+.+.|.+.|+...++ .....   ....|..  ....||+..+++...+.++..||+.
T Consensus        42 ~~~~~~~~~~~~----~-~~~~~~~~l~v~n~~~~~~~~~~~~---~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~g~~~  113 (297)
T KOG1987|consen   42 YLSLTLSVSDSP----G-WERYAKLRLTVVNQKSEKYLSTVEE---GFSWFRFNKVLKEWGFGKMLPLTLLIDCSNGFLV  113 (297)
T ss_pred             EEEEEEEeccCC----C-cceeEEEEEEEccCCCcceeeeeee---eEEeccccccccccCcccccChHHhhcccCcEEE
Confidence            456666665432    4 9999999999999988754 43311   2344433  2568999999999999988899999


Q ss_pred             CCEEEEEEEEEEeCCCCCceeeEE--------eecccCCC----CeeEEEeCCccCCCCC----cccCCceeeCCccC
Q 041773           94 DDSCVFGAEIFVIKPTGKGEALSI--------VKVPAQAG----NILRWKIPNFSDLRDP----EYYSSEFNAGGREW  155 (155)
Q Consensus        94 dD~l~i~~~V~v~~~~~~~~~~~~--------~~~p~~~~----~~~~~~~~~fs~~~~~----~~~s~~F~~~g~~w  155 (155)
                      ++.+.+-+.+.|.+..++.+....        ++.|+  .    ..|+|.+.+++.++..    .+.+..|.++++.|
T Consensus       114 ~~~~~~~a~~~V~~~~~~~d~~~~~~~~~~~~d~~~~--~~~~~~~F~~~~s~~~~~~~~~~~~~~~a~~f~~~~~~l  189 (297)
T KOG1987|consen  114 AHKLVLVARSEVFEAMGKSDVFKESSKLITLLEEKPE--VLEALNGFQVLPSQVSSVERIFEKHPDLAAAFKYKNRHL  189 (297)
T ss_pred             cCceEEEeeecceeeecccccchhccccccccccchh--hHhhhceEEEeccchHHHHHhhcCChhhhhccccccHHH
Confidence            999999999888888777665533        43344  3    7899999999999643    45667899888876

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

Probab=98.20  E-value=1.9e-06  Score=78.45  Aligned_cols=102  Identities=16%  Similarity=0.217  Sum_probs=84.0

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCceeEEecCCCceEEecCCccccccccccc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGIDKLIP   80 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~~~~~~~~~~~~F~~~~~~wG~~~Fi~   80 (155)
                      ++.+.|+|+..    ..+++|+.+...... .. |.+++++.+.++|..+........   .+|.|.....+||+.+|+.
T Consensus        56 ~~~~~~~~~~~----~~~~~~~~~~~~~~~-~~-~s~~~~~~~~v~~~~~~~~~~~~~---~~h~~~~~~~dwg~~~~~~  126 (1093)
T KOG1863|consen   56 KILIAPKVNSL----QSTRKKLEVMPSQSL-KS-WSCGAQAVLRVKNTIDNLPDPEKA---IHHVFTADERDWGFSCFST  126 (1093)
T ss_pred             eeeeccccCcc----cceeEEeeeccCCCC-cc-eEecchhhhccccCCCCchhhhhh---hhhcccccccchhhccchh
Confidence            47788999842    479999999987666 44 999999999999944433322222   5889988889999999999


Q ss_pred             ccccccCCCCeeeCCEEEEEEEEEEeCCCCC
Q 041773           81 LQAFKEPSNGYLVDDSCVFGAEIFVIKPTGK  111 (155)
Q Consensus        81 ~~~L~~~~~gyl~dD~l~i~~~V~v~~~~~~  111 (155)
                      ++++.+|..||+.+|++.++++|.+...++.
T Consensus       127 ~~~~~~~~~~~~~~~~~~~~~~v~v~~~~~~  157 (1093)
T KOG1863|consen  127 SSDIRKPEDGYVRNGLEKLEKRVRVEQPTSL  157 (1093)
T ss_pred             HhhccCcccccccccceeeeeeeeeecCCcc
Confidence            9999999999999999999999999887654

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

Probab=91.79  E-value=0.13  Score=42.37  Aligned_cols=45  Identities=33%  Similarity=0.643  Sum_probs=37.8

Q ss_pred             EEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeC
Q 041773            3 ILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDR   48 (155)
Q Consensus         3 ~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~   48 (155)
                      .+|-||++.+++. ++|+|+.++.+++++.-.|++.-..+|.+++|
T Consensus       321 ~~~lng~g~~~~~-~~s~~~~~~~ge~d~~l~wpf~~~v~~~l~dq  365 (391)
T KOG0297|consen  321 RIYLNGDGTGKGT-HLSLYFVVMRGEYDALLPWPFRQKVTLMLLDQ  365 (391)
T ss_pred             HhhhcCCCCCCcc-eeeeeeeecccCcccccccCCCCceEEEEecc
Confidence            4677888776665 99999999999887644599999999999999

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

Probab=88.46  E-value=0.16  Score=44.88  Aligned_cols=31  Identities=29%  Similarity=0.686  Sum_probs=28.0

Q ss_pred             CCCeeEEEeCCccCCCCCcccCCceeeCCccC
Q 041773          124 AGNILRWKIPNFSDLRDPEYYSSEFNAGGREW  155 (155)
Q Consensus       124 ~~~~~~~~~~~fs~~~~~~~~s~~F~~~g~~w  155 (155)
                      ..+.|||.+++++++.+ .+.|+.|.|||+.|
T Consensus        37 ~~~sftW~vk~wsel~~-k~~Sp~F~vg~~tw   67 (1089)
T COG5077          37 LEMSFTWKVKRWSELAK-KVESPPFSVGGHTW   67 (1089)
T ss_pred             hhcccceecCChhhhhh-hccCCcccccCeeE
Confidence            36789999999999987 56999999999998

>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=87.00  E-value=0.29  Score=36.20  Aligned_cols=32  Identities=28%  Similarity=0.619  Sum_probs=27.4

Q ss_pred             CCCeeEEEeCCccCCCC-----C--cccCCceeeC--CccC
Q 041773          124 AGNILRWKIPNFSDLRD-----P--EYYSSEFNAG--GREW  155 (155)
Q Consensus       124 ~~~~~~~~~~~fs~~~~-----~--~~~s~~F~~~--g~~w  155 (155)
                      .++.+.|+|.+||...+     +  ...|+.|.+|  |.+|
T Consensus        37 ~~G~hvwkI~~yS~~~~~~~~g~~~~i~S~~Fyvg~~GY~w   77 (186)
T cd03777          37 YNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKM   77 (186)
T ss_pred             cceEEEEEECChhHHHHhhccCCCcEEECCCeEeCCCCeeE
Confidence            47899999999998732     3  6899999999  9998

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

---

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	155
2foj_A	155	Ubiquitin carboxyl-terminal hydrolase 7; MATH doma	8e-21
2foj_A	155	Ubiquitin carboxyl-terminal hydrolase 7; MATH doma	1e-04
3ivv_A	145	Speckle-type POZ protein; protein binding, nucleus	4e-16
1lb6_A	160	TNF receptor-associated factor 6; TRAF6-CD40 compl	6e-11
1ca9_A	192	TRAF2, protein (TNF receptor associated factor 2);	3e-10
1d00_A	168	Tumor necrosis factor receptor associated protein	3e-09
3hqi_A	312	Speckle-type POZ protein; SPOP, ubiquitin, puckere	4e-09
1flk_A	228	TNF receptor associated factor 3; TNF signaling, T	8e-09
2gkw_A	192	TNF receptor-associated factor 3; CD40, NF-KB sign	1e-08
2f1z_A	522	Ubiquitin carboxyl-terminal hydrolase 7; hausp, US	1e-04

>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 = 82.2 bits (203), Expect = 8e-21
 Identities = 13/110 (11%), Positives = 32/110 (29%), Gaps = 5/110 (4%)

Query: 1   RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDD 60
           ++++ P           +  +L  +  +   +  W         + +   +E    R   
Sbjct: 48  KIMVMPRFYPDRPHQKSVGFFLQCNAESDSTS--WSCHAQAVLKIINYRDDEKSFSRRIS 105

Query: 61  GAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTG 110
                    + + G    +      +P  G++ DD   F   +    P G
Sbjct: 106 H---LFFHKENDWGFSNFMAWSEVTDPEKGFIDDDKVTFEVFVQADAPHG 152

>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 = 39.1 bits (91), Expect = 1e-04
 Identities = 5/35 (14%), Positives = 11/35 (31%), Gaps = 1/35 (2%)

Query: 121 PAQAGNILRWKIPNFSDLRDPEYYSSEFNAGGREW 155
             ++    ++ +  FS L +    S         W
Sbjct: 14  SWRSEATFQFTVERFSRLSES-VLSPPCFVRNLPW 47

>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 = 69.6 bits (170), Expect = 4e-16
 Identities = 24/107 (22%), Positives = 38/107 (35%), Gaps = 9/107 (8%)

Query: 1   RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDD 60
            L + P G  +     ++SLYL L           EV   F F + +    E  A+    
Sbjct: 47  CLRVNPKGLDEESK-DYLSLYLLL-----VSCPKSEVRAKFKFSILNAKGEETKAMES-- 98

Query: 61  GAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIK 107
                     ++ G  K I      + +NG L DD      E+ V++
Sbjct: 99  -QRAYRFVQGKDWGFKKFIRRDFLLDEANGLLPDDKLTLFCEVSVVQ 144

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

 Score = 56.5 bits (136), Expect = 6e-11
 Identities = 15/116 (12%), Positives = 37/116 (31%), Gaps = 11/116 (9%)

Query: 1   RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQD----RIKNEYLAI 56
            + L+       +   +ISL++   +  Y  + PW         + D     ++  +  I
Sbjct: 44  CMRLHLQLPTAQRCANYISLFVHTMQGEYDSHLPWPFQGTIRLTILDQSEAPVRQNHEEI 103

Query: 57  RYDDGAVIRLHSMKRE-----CGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIK 107
                 ++              G    + L+A +     ++ DD+ +   E+    
Sbjct: 104 MDAKPELLAFQRPTIPRNPKGFGYVTFMHLEALR--QRTFIKDDTLLVRCEVSTRF 157

>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 = 55.0 bits (132), Expect = 3e-10
 Identities = 25/108 (23%), Positives = 43/108 (39%), Gaps = 7/108 (6%)

Query: 1   RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFV--QDRIKNEYLAIRY 58
            L +Y NG+  G+GT H+SL+  + +        W      T  +  Q+  ++   A R 
Sbjct: 82  CLRIYLNGDGTGRGT-HLSLFFVVMKGPNDALLRWPFNQKVTLMLLDQNNREHVIDAFRP 140

Query: 59  DDGAVI---RLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEI 103
           D  +      ++ M    G     P+    E  N Y+ DD+    A +
Sbjct: 141 DVTSSSFQRPVNDMNIASGCPLFCPVSKM-EAKNSYVRDDAIFIKAIV 187

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

 Score = 51.9 bits (124), Expect = 3e-09
 Identities = 25/108 (23%), Positives = 43/108 (39%), Gaps = 7/108 (6%)

Query: 1   RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFV--QDRIKNEYLAIRY 58
            L +Y NG+  G+GT H+SL+  + +        W      T  +  Q+  ++   A R 
Sbjct: 58  CLRIYLNGDGTGRGT-HLSLFFVVMKGPNDALLRWPFNQKVTLMLLDQNNREHVIDAFRP 116

Query: 59  DDGAVI---RLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEI 103
           D  +      ++ M    G     P+    E  N Y+ DD+    A +
Sbjct: 117 DVTSSSFQRPVNDMNIASGCPLFCPVSKM-EAKNSYVRDDAIFIKAIV 163

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

 Score = 53.0 bits (127), Expect = 4e-09
 Identities = 31/158 (19%), Positives = 54/158 (34%), Gaps = 19/158 (12%)

Query: 1   RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDD 60
            L + P G  +     ++SLYL L           EV   F F + +    E  A+    
Sbjct: 43  CLRVNPKGLDEESK-DYLSLYLLLVS-----CPKSEVRAKFKFSILNAKGEETKAMESQ- 95

Query: 61  GAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTGKGE---ALSI 117
                     ++ G  K I      + +NG L DD      E+ V++ +        +++
Sbjct: 96  --RAYRFVQGKDWGFKKFIRRGFLLDEANGLLPDDKLTLFCEVSVVQDSVNISGQNTMNM 153

Query: 118 VKVPAQAGNILRWKIPNFSDLRDPEYYS-SEFNAGGRE 154
           VKVP     +          L +   ++       G+E
Sbjct: 154 VKVPEC--RLAD----ELGGLWENSRFTDCCLCVAGQE 185

>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 = 51.6 bits (123), Expect = 8e-09
 Identities = 19/109 (17%), Positives = 35/109 (32%), Gaps = 9/109 (8%)

Query: 1   RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQD------RIKNEYL 54
              +Y NG+  G+GT H+SL+  +    Y    PW      T  + D       + + + 
Sbjct: 115 CARVYLNGDGMGKGT-HLSLFFVIMRGEYDALLPWPFKQKVTLMLMDQGSSRRHLGDAFK 173

Query: 55  AIRYDDGAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEI 103
                         M    G    +     +  +  Y+ DD+      +
Sbjct: 174 PDPNSSSFKKPTGEMNIASGCPVFVAQTVLE--NGTYIKDDTIFIKVIV 220

>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 = 50.8 bits (121), Expect = 1e-08
 Identities = 19/109 (17%), Positives = 34/109 (31%), Gaps = 9/109 (8%)

Query: 1   RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDD 60
              +Y NG+  G+GT H+SL+  +    Y    PW      T  + D+  +         
Sbjct: 79  CARVYLNGDGMGKGT-HLSLFFVIMRGEYDALLPWPFKQKVTLMLMDQGSSRRHLGDAFK 137

Query: 61  GAV------IRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEI 103
                         M    G    +     +  +  Y+ DD+      +
Sbjct: 138 PDPNSSSFKKPTGEMNIASGCPVFVAQTVLE--NGTYIKDDTIFIKVIV 184

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

 Score = 40.3 bits (94), Expect = 1e-04
 Identities = 13/110 (11%), Positives = 32/110 (29%), Gaps = 5/110 (4%)

Query: 1   RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDD 60
           ++++ P           +  +L  +  +   +  W         + +   +E    R   
Sbjct: 60  KIMVMPRFYPDRPHQKSVGFFLQCNAESDSTS--WSCHAQAVLKIINYRDDEKSFSR--- 114

Query: 61  GAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTG 110
                    + + G    +      +P  G++ DD   F   +    P G
Sbjct: 115 RISHLFFHKENDWGFSNFMAWSEVTDPEKGFIDDDKVTFEVFVQADAPHG 164

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	155
2foj_A	155	Ubiquitin carboxyl-terminal hydrolase 7; MATH doma	99.93
3ivv_A	145	Speckle-type POZ protein; protein binding, nucleus	99.91
3hqi_A	312	Speckle-type POZ protein; SPOP, ubiquitin, puckere	99.88
4gjh_A	178	TNF receptor-associated factor 5; TRAF domain, imm	99.87
1lb6_A	160	TNF receptor-associated factor 6; TRAF6-CD40 compl	99.85
1d00_A	168	Tumor necrosis factor receptor associated protein	99.85
1ca9_A	192	TRAF2, protein (TNF receptor associated factor 2);	99.84
4ghu_A	198	TNF receptor-associated factor 3; alpha/beta, inna	99.83
2gkw_A	192	TNF receptor-associated factor 3; CD40, NF-KB sign	99.82
2f1z_A	522	Ubiquitin carboxyl-terminal hydrolase 7; hausp, US	99.81
1flk_A	228	TNF receptor associated factor 3; TNF signaling, T	99.81
4gwm_A	592	Meprin A subunit beta; mulidomain structure, hydro	98.63
2f1z_A	522	Ubiquitin carboxyl-terminal hydrolase 7; hausp, US	95.99
4ghu_A	198	TNF receptor-associated factor 3; alpha/beta, inna	95.69
4gjh_A	178	TNF receptor-associated factor 5; TRAF domain, imm	95.45
1ca9_A	192	TRAF2, protein (TNF receptor associated factor 2);	95.02
2gkw_A	192	TNF receptor-associated factor 3; CD40, NF-KB sign	94.82
1flk_A	228	TNF receptor associated factor 3; TNF signaling, T	94.24

>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=99.93  E-value=1.1e-25  Score=160.39  Aligned_cols=106  Identities=12%  Similarity=0.264  Sum_probs=84.0

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCceeEEecCCCceEEecCCccccccccccc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGIDKLIP   80 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~~~~~~~~~~~~F~~~~~~wG~~~Fi~   80 (155)
                      ||++||+|+..++..+||||||+|... ..+.+ |++.|+|+|+|+||+++..+..+.   ..+.|.....+|||.+||+
T Consensus        48 ~i~~yP~G~~~~~~~~~lSlyL~~~~~-~~~~~-w~v~a~~~l~l~~~~~~~~~~~~~---~~~~F~~~~~~wG~~~Fi~  122 (155)
T 2foj_A           48 KIMVMPRFYPDRPHQKSVGFFLQCNAE-SDSTS-WSCHAQAVLKIINYRDDEKSFSRR---ISHLFFHKENDWGFSNFMA  122 (155)
T ss_dssp             EEEEEEEC------CBEEEEEEEESTT-CCCSS-CEEEEEEEEEECCSSCGGGCEEEE---EEEEEETTBCEEEEEEEEE
T ss_pred             EEEEEECCCCCCCCCCEEEEEEEeCCC-CCCCC-CEEEEEEEEEEEcCCCCcceEEec---cEEEeCCCCCCEeECCeEE
Confidence            689999998641134799999999654 44445 999999999999999875322222   3688877667999999999


Q ss_pred             ccccccCCCCeeeCCEEEEEEEEEEeCCCCC
Q 041773           81 LQAFKEPSNGYLVDDSCVFGAEIFVIKPTGK  111 (155)
Q Consensus        81 ~~~L~~~~~gyl~dD~l~i~~~V~v~~~~~~  111 (155)
                      |++|++|++|||+||+|+|+|+|+|.+++|.
T Consensus       123 ~~~L~~~~~~yl~dD~l~Ie~~V~V~~~tG~  153 (155)
T 2foj_A          123 WSEVTDPEKGFIDDDKVTFEVFVQADAPHGV  153 (155)
T ss_dssp             HHHHTCTTTSSCBTTBEEEEEEEEECCCBSS
T ss_pred             HHHhcCcCCCceECCEEEEEEEEEEeCcccc
Confidence            9999988899999999999999999888774

>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=99.91  E-value=6.9e-25  Score=154.65  Aligned_cols=99  Identities=25%  Similarity=0.337  Sum_probs=82.2

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCceeEEecCCCceEEecCCccccccccccc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGIDKLIP   80 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~~~~~~~~~~~~F~~~~~~wG~~~Fi~   80 (155)
                      ||++||||+..+ ..+||||||+|.+.    +. |+++|+|+|+|+||+++.+.....  ...++|.. ..+|||.+||+
T Consensus        47 ~i~~yP~G~~~~-~~~~lSlyL~l~~~----~~-w~v~a~f~l~llnq~~~~~~~~~~--~~~~~F~~-~~~wG~~~Fi~  117 (145)
T 3ivv_A           47 CLRVNPKGLDEE-SKDYLSLYLLLVSC----PK-SEVRAKFKFSILNAKGEETKAMES--QRAYRFVQ-GKDWGFKKFIR  117 (145)
T ss_dssp             EEEEETTCSSGG-GTTEEEEEEEEEEC----SS-SEEEEEEEEEEECTTSCEEEEEEC--SSCEEEET-TCEEEEEEEEE
T ss_pred             EEEEEcCCCCCC-CCCeEEEEEEEcCC----CC-CcEEEEEEEEEEecCCCceeeecc--cceEEecC-CCCcCHHHeEE
Confidence            589999998753 34799999999875    23 999999999999999877654332  24678874 56999999999


Q ss_pred             ccccccCCCCeeeCCEEEEEEEEEEeCC
Q 041773           81 LQAFKEPSNGYLVDDSCVFGAEIFVIKP  108 (155)
Q Consensus        81 ~~~L~~~~~gyl~dD~l~i~~~V~v~~~  108 (155)
                      +++|+++++|||+||+|+|+|+|+|+++
T Consensus       118 ~~~L~~~~~~yl~dD~l~I~~~V~V~~d  145 (145)
T 3ivv_A          118 RDFLLDEANGLLPDDKLTLFCEVSVVQD  145 (145)
T ss_dssp             HHHHHCGGGCSSGGGCEEEEEEEEECC-
T ss_pred             hhhhccccCCcEeCCEEEEEEEEEEEeC
Confidence            9999876799999999999999999863

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

Probab=99.88  E-value=2.9e-23  Score=162.51  Aligned_cols=139  Identities=23%  Similarity=0.320  Sum_probs=101.4

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCceeEEecCCCceEEecCCccccccccccc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGIDKLIP   80 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~~~~~~~~~~~~F~~~~~~wG~~~Fi~   80 (155)
                      ||.+||||++.+ ..+|||+||.|.+.+    . |++.|+|+|+|+||+++.......  ...+.|... .+|||.+||+
T Consensus        43 ~i~~yP~G~~~~-~~~~lslyL~~~~~~----~-~~v~a~~~~~l~~~~~~~~~~~~~--~~~~~F~~~-~~wG~~~Fi~  113 (312)
T 3hqi_A           43 CLRVNPKGLDEE-SKDYLSLYLLLVSCP----K-SEVRAKFKFSILNAKGEETKAMES--QRAYRFVQG-KDWGFKKFIR  113 (312)
T ss_dssp             EEEEETTCCC---CTTEEEEEEEEEECC----C--CEEEEEEEEEECTTSCEEEEEEC--SSCEEECTT-CEEEEEEEEE
T ss_pred             EEEEECCCCCcc-CCCcEEEEEEEcCCC----C-CcEEEEEEEEEEeCCCCccccccc--CCceeCCCC-CCcCHHHhcc
Confidence            589999998753 357999999998753    3 999999999999999876554432  246788754 4899999999


Q ss_pred             ccccccCCCCeeeCCEEEEEEEEEEeCCCCCce---eeEEeecccCCCCeeEEEeCCccCC-CCCcccCCceeeCCcc
Q 041773           81 LQAFKEPSNGYLVDDSCVFGAEIFVIKPTGKGE---ALSIVKVPAQAGNILRWKIPNFSDL-RDPEYYSSEFNAGGRE  154 (155)
Q Consensus        81 ~~~L~~~~~gyl~dD~l~i~~~V~v~~~~~~~~---~~~~~~~p~~~~~~~~~~~~~fs~~-~~~~~~s~~F~~~g~~  154 (155)
                      |++|+++++|||+||+|+|+|+|+|++......   ......+|+++      -..+|.++ ....+.+.+|.++|++
T Consensus       114 ~~~L~~~~~~yl~dD~l~i~~~v~v~~~~~~~~~~~~~~~~~~p~~~------l~~~l~~l~~~~~~~Dv~l~v~~~~  185 (312)
T 3hqi_A          114 RGFLLDEANGLLPDDKLTLFCEVSVVQDSVNISGQNTMNMVKVPECR------LADELGGLWENSRFTDCCLCVAGQE  185 (312)
T ss_dssp             HHHHTCGGGCCCGGGCEEEEEEEEEEEECCCEECCCCCSSCCCCCCC------HHHHHHHHHHTTCSCCEEEEETTEE
T ss_pred             HHHhhccccCeecCCEEEEEEEEEEEeccccccccccccccCCCCch------HHHHHHHHHhCCCCCceEEEECCEE
Confidence            999987778999999999999999996543211   11233456643      23334443 2345789999998864

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

Probab=99.87  E-value=2.7e-23  Score=151.36  Aligned_cols=106  Identities=17%  Similarity=0.304  Sum_probs=81.7

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCC-CCCCceEEEEEEEEEEeCCCCceeEEec--CCCceEEecC----Ccccc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYF-PNNPWEVFVNFTFFVQDRIKNEYLAIRY--DDGAVIRLHS----MKREC   73 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~-~~~~w~~~a~f~l~l~n~~~~~~~~~~~--~~~~~~~F~~----~~~~w   73 (155)
                      ||++||||++.+. .+||||||+|++.+.+ ... |++.|+|+|+|+||.++.......  +....+.|+.    ...+|
T Consensus        63 ~i~~yP~G~~~~~-~~~lSlyL~l~~~~~d~~l~-W~v~a~~~l~Lldq~~~~~~~~~~~~~~~~~~~F~~p~~~~~~~w  140 (178)
T 4gjh_A           63 CARAYLNGDGSGK-GTHLSLYFVVMRGEFDSLLQ-WPFRQRVTLMLLDQSGKKNHIVETFKADPNSSSFKRPDGEMNIAS  140 (178)
T ss_dssp             EEEEETTCCGGGT-TTEEEEEEEEBCCTTGGGSC-SSCCCEEEEEECCTTSSCCCEEEEEECCTTCGGGSCCSSSBCCCE
T ss_pred             EEEEEECCCCCCC-CCEEEEEEEEecCCCCcccC-CceEEEEEEEEEcCCCCcceeEEeeccCCccccccCCcccccCCc
Confidence            5899999987543 3799999999876543 233 999999999999998764322210  0112456753    24689


Q ss_pred             cccccccccccccCCCCeeeCCEEEEEEEEEEeCC
Q 041773           74 GIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKP  108 (155)
Q Consensus        74 G~~~Fi~~~~L~~~~~gyl~dD~l~i~~~V~v~~~  108 (155)
                      ||.+||++++|++|++|||+||+|+|+|+|.|.+.
T Consensus       141 G~~~Fi~~~~L~~~~~~yL~dD~l~I~~~V~i~~~  175 (178)
T 4gjh_A          141 GCPRFVSHSTLENSKNTYIKDDTLFLKVAVDLTDL  175 (178)
T ss_dssp             EEEEEEEHHHHHCTTCCSSBTTBEEEEEEECCTTC
T ss_pred             ChhheeEHHHhhccccCcCcCCEEEEEEEEEecCC
Confidence            99999999999987799999999999999988765

>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=99.85  E-value=7e-22  Score=141.37  Aligned_cols=106  Identities=13%  Similarity=0.183  Sum_probs=75.1

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCce---eEEec-CCCceEEecC-----Ccc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEY---LAIRY-DDGAVIRLHS-----MKR   71 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~---~~~~~-~~~~~~~F~~-----~~~   71 (155)
                      +|++||||++.+...+||||||++++.+.+...+|++.|+|+|+|+||.+...   ..... +......|..     ...
T Consensus        44 ~i~~yP~G~~~~~~~~~lSlyL~l~~~~~d~~l~wp~~a~~~l~lldq~~~~~~~~~~~~~~~~~~~~~f~~p~~~~~~~  123 (160)
T 1lb6_A           44 CMRLHLQLPTAQRCANYISLFVHTMQGEYDSHLPWPFQGTIRLTILDQSEAPVRQNHEEIMDAKPELLAFQRPTIPRNPK  123 (160)
T ss_dssp             EEEEEECCTTCTTTTTEEEEEEEEECCTTGGGSCSSCCSEEEEEECCCSCTTSCCCEEEEEECCTTSGGGSCCSSSBCSE
T ss_pred             EEEEEecCCCCCCCCCEEEEEEEEeecCCCccCCCceeeeEEEEEEcCCCccccccceEEeecCCcchhccCCcccCCCC
Confidence            58999999865332479999999987765432139999999999999987521   11100 0001123432     123


Q ss_pred             cccccccccccccccCCCCeeeCCEEEEEEEEEEeCC
Q 041773           72 ECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKP  108 (155)
Q Consensus        72 ~wG~~~Fi~~~~L~~~~~gyl~dD~l~i~~~V~v~~~  108 (155)
                      +|||.+||++++|+  ++|||+||+|+|+|+|+|+.+
T Consensus       124 ~~G~~~Fi~~~~L~--~~~yl~dD~l~I~~~V~v~~~  158 (160)
T 1lb6_A          124 GFGYVTFMHLEALR--QRTFIKDDTLLVRCEVSTRFD  158 (160)
T ss_dssp             EEEEEEEEEGGGGG--TSCCCBTTBEEEEEEEEC---
T ss_pred             CcCEeeEeEHHHhh--hCCCccCCEEEEEEEEEEeec
Confidence            79999999999999  689999999999999999864

>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=99.85  E-value=4.2e-22  Score=143.45  Aligned_cols=104  Identities=20%  Similarity=0.329  Sum_probs=78.9

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCCC-CCCceEEEEEEEEEEeCCCCceeEEec-CCCceEEecC----Cccccc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYFP-NNPWEVFVNFTFFVQDRIKNEYLAIRY-DDGAVIRLHS----MKRECG   74 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~-~~~w~~~a~f~l~l~n~~~~~~~~~~~-~~~~~~~F~~----~~~~wG   74 (155)
                      ||++||||++.+. .+||||||+|++.+.++ .+ |++.|+|+|+|+||++..+..... +....+.|..    ...+||
T Consensus        58 ~i~~yP~G~~~~~-~~~lSlyL~l~~~~~~~~~~-w~~~~~~~l~ll~q~~~~~~~~~~~~~~~~~~f~~p~~~~~~~~G  135 (168)
T 1d00_A           58 CLRIYLNGDGTGR-GTHLSLFFVVMKGPNDALLR-WPFNQKVTLMLLDQNNREHVIDAFRPDVTSSSFQRPVNDMNIASG  135 (168)
T ss_dssp             EEEEETTCCGGGT-TTEEEEEEEEECCTTGGGSC-SSCCCCEEEEECCTTSSCCEEEEECCCTTSGGGSCCSSSBCCCEE
T ss_pred             EEEEEeCCCCCCC-CcEEEEEEEEecCCCCccCC-CceEEEEEEEEECCCCCccceeccccCcchhhccCCCcCCCCCcC
Confidence            5899999987543 36999999998876553 44 999999999999999875433211 0001234542    346899


Q ss_pred             ccccccccccccCCCCeeeCCEEEEEEEEEEeC
Q 041773           75 IDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIK  107 (155)
Q Consensus        75 ~~~Fi~~~~L~~~~~gyl~dD~l~i~~~V~v~~  107 (155)
                      |.+||++++|+++ +|||+||+|+|+|+|+|.+
T Consensus       136 ~~~Fi~~~~L~~~-~gyl~dD~l~I~~~V~v~~  167 (168)
T 1d00_A          136 CPLFCPVSKMEAK-NSYVRDDAIFIKAIVDLTG  167 (168)
T ss_dssp             EEEEEETTTTTSS-SSSSBTTEEEEEEEECCTT
T ss_pred             cceEeEHHHhccc-CCceeCCEEEEEEEEEecC
Confidence            9999999999953 4999999999999998854

>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=99.84  E-value=8.2e-22  Score=145.04  Aligned_cols=104  Identities=20%  Similarity=0.335  Sum_probs=79.5

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCCC-CCCceEEEEEEEEEEeCCCCceeEEecC-CCceEEec----CCccccc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYFP-NNPWEVFVNFTFFVQDRIKNEYLAIRYD-DGAVIRLH----SMKRECG   74 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~-~~~w~~~a~f~l~l~n~~~~~~~~~~~~-~~~~~~F~----~~~~~wG   74 (155)
                      ||++||||++.+. .+||||||+|++.+.++ .+ |++.|+|+|+|+||+++++...... ......|.    ....+||
T Consensus        82 ~i~~yP~G~~~~~-~~~lSlyL~l~~~~~~~~~~-W~~~a~~~l~lldq~~~~~~~~~~~~~~~~~~f~rp~~~~~~~wG  159 (192)
T 1ca9_A           82 CLRIYLNGDGTGR-GTHLSLFFVVMKGPNDALLR-WPFNQKVTLMLLDQNNREHVIDAFRPDVTSSSFQRPVNDMNIASG  159 (192)
T ss_dssp             EEEEETTCCGGGT-TTEEEEEEEEECCTTGGGSC-SSCCCCEEEEECCTTSSCCEEEEECCCTTSGGGSCCSSSBCCCEE
T ss_pred             EEEEEeCCCCCCC-CCEEEEEEEEccCCCCCcCC-CceEEEEEEEEECCCCCceeeEeeccCCchhhhcCCccCCCCCcC
Confidence            5899999987543 46999999999876554 44 9999999999999998754322110 00122353    1245899


Q ss_pred             ccccccccccccCCCCeeeCCEEEEEEEEEEeC
Q 041773           75 IDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIK  107 (155)
Q Consensus        75 ~~~Fi~~~~L~~~~~gyl~dD~l~i~~~V~v~~  107 (155)
                      |.+||++++|++ ++|||+||+|+|+|+|+|++
T Consensus       160 ~~~Fi~~~~L~~-~~gyl~dD~l~I~~~V~V~~  191 (192)
T 1ca9_A          160 CPLFCPVSKMEA-KNSYVRDDAIFIKAIVDLTG  191 (192)
T ss_dssp             EEEEEETHHHHS-SCSSCBTTEEEEEEEECCTT
T ss_pred             hhheeEHHHhhh-ccCCEeCCEEEEEEEEEecC
Confidence            999999999986 47999999999999999865

>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=99.83  E-value=8.6e-22  Score=145.72  Aligned_cols=106  Identities=16%  Similarity=0.207  Sum_probs=79.4

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCCC-CCCceEEEEEEEEEEeCCCCceeEEec--CCC----ceEEecCCcccc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYFP-NNPWEVFVNFTFFVQDRIKNEYLAIRY--DDG----AVIRLHSMKREC   73 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~-~~~w~~~a~f~l~l~n~~~~~~~~~~~--~~~----~~~~F~~~~~~w   73 (155)
                      +|++||||++.+. .+||||||.+++++.+. .. |++.|+|+|+|+||.+........  +..    ..+.|...+.+|
T Consensus        79 ~i~~yPnG~~~~~-~~~lSlyL~l~~g~~D~~l~-wp~~a~~~l~Lldq~~~~~~~~~~~~~~~~~~~f~rp~~~~~~~w  156 (198)
T 4ghu_A           79 CARVYLNGDGMGK-GTHLSLFFVIMRGEYDALLP-WPFKQKVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMNIAS  156 (198)
T ss_dssp             EEEEETTCCGGGT-TTEEEEEEEEECCTTGGGSC-SSCCCCEEEEECCCSTTCCCEEEEECCCTTSGGGSCCSSSBCCCE
T ss_pred             EEEEEeCCCCCCC-CCeEEEEEEecCCccCCCCC-ceEEEEEEEEEEcCCCCccceEEEeecCcccceecCCcccCcCCc
Confidence            5899999987543 46999999999776543 34 999999999999998754322211  000    112233345689


Q ss_pred             cccccccccccccCCCCeeeCCEEEEEEEEEEeCCCC
Q 041773           74 GIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTG  110 (155)
Q Consensus        74 G~~~Fi~~~~L~~~~~gyl~dD~l~i~~~V~v~~~~~  110 (155)
                      ||.+||++++|+  ++|||+||+|+|+|+|+|+..+.
T Consensus       157 G~~~Fi~~~~L~--~~gyL~dD~l~I~~~V~v~~~~~  191 (198)
T 4ghu_A          157 GCPVFVAQTVLE--NGTYIKDDTIFIKVIVDTSDLPD  191 (198)
T ss_dssp             EEEEEEEHHHHH--HTTSCBTTBEEEEEEECCTTCC-
T ss_pred             CchhEeEHHHhh--hcCCeeCCEEEEEEEEEeccCCC
Confidence            999999999999  58999999999999999987653

>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=99.82  E-value=2.2e-21  Score=142.88  Aligned_cols=105  Identities=16%  Similarity=0.255  Sum_probs=78.7

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCceeEE-ec-CCCceEEecCC----ccccc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAI-RY-DDGAVIRLHSM----KRECG   74 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~~~-~~-~~~~~~~F~~~----~~~wG   74 (155)
                      +|++||||++.+. .+||||||++++.+.++..+|++.|+|+|+|+||.+...... .. +....+.|...    +.+||
T Consensus        79 ~i~~yPnG~~~~~-~~~lSlyL~l~~~~~d~~l~wp~~a~~~l~lldq~~~~~~~~~~~~~~~~~~~F~~~~~~~~~~wG  157 (192)
T 2gkw_A           79 CARVYLNGDGMGK-GTHLSLFFVIMRGEYDALLPWPFKQKVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMNIASG  157 (192)
T ss_dssp             EEEEETTCCGGGT-TTEEEEEEEEECCTTGGGSCSSCCCCEEEEECCCSTTCCCEEEEECCCTTCTTSSCCSSSBCCCEE
T ss_pred             EEEEEeCCCCCCC-CCEEEEEEEEecCCCCccCCCcEEEEEEEEEECCCCCccceEEEEecCCCcccccCCCCCCcCCCC
Confidence            5899999987543 469999999997765432139999999999999998643221 11 01122456432    36899


Q ss_pred             ccccccccccccCCCCeeeCCEEEEEEEEEEeCC
Q 041773           75 IDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKP  108 (155)
Q Consensus        75 ~~~Fi~~~~L~~~~~gyl~dD~l~i~~~V~v~~~  108 (155)
                      |.+||++++|++  +|||+||+|+|+|+|.|..-
T Consensus       158 ~~~Fi~~~~L~~--~gyl~dD~l~I~~~V~v~~~  189 (192)
T 2gkw_A          158 CPVFVAQTVLEN--GTYIKDDTIFIKVIVDTSDL  189 (192)
T ss_dssp             EEEEEEHHHHHH--TTSCBTTEEEEEEEECCTTS
T ss_pred             hHHEeEHHHhCc--CCCeeCCEEEEEEEEEcCCC
Confidence            999999999994  69999999999999987553

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

Probab=99.81  E-value=1.9e-20  Score=155.94  Aligned_cols=105  Identities=12%  Similarity=0.271  Sum_probs=81.6

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCceeEEecCCCceEEecCCccccccccccc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGIDKLIP   80 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~~~~~~~~~~~~F~~~~~~wG~~~Fi~   80 (155)
                      ||++||+|+..+...+||||||+|.+. ..+.+ |.++|+|+|.|+|+.++..+..+.   ..+.|.....+|||.+||+
T Consensus        60 ~i~~yP~G~~~~~~~~~lSlyL~~~~~-~~~~~-w~v~a~f~l~l~n~~~~~~~~~~~---~~~~F~~~~~~wG~~~Fi~  134 (522)
T 2f1z_A           60 KIMVMPRFYPDRPHQKSVGFFLQCNAE-SDSTS-WSCHAQAVLKIINYRDDEKSFSRR---ISHLFFHKENDWGFSNFMA  134 (522)
T ss_dssp             EEEECBC--------CBBCEEEEESTT-CCCSS-CBEEEEEEEEECCTTCGGGCEEEE---CCEEECGGGCEEEESSSSB
T ss_pred             EEEEEeCCCCCCCCCCeEEEEEEecCC-CCCCC-ceEEEEEEEEEEcCCCCccceecc---ceeEecCCCCCcchhheeE
Confidence            689999997543245799999999876 44555 999999999999998765433333   3688876667899999999


Q ss_pred             ccccccCCCCeeeCCEEEEEEEEEEeCCCC
Q 041773           81 LQAFKEPSNGYLVDDSCVFGAEIFVIKPTG  110 (155)
Q Consensus        81 ~~~L~~~~~gyl~dD~l~i~~~V~v~~~~~  110 (155)
                      +++|.++++|||+||+++|+|+|+|..+++
T Consensus       135 ~~~L~~~~~g~L~nD~l~i~~~V~v~~p~g  164 (522)
T 2f1z_A          135 WSEVTDPEKGFIDDDKVTFEVFVQADAPHG  164 (522)
T ss_dssp             HHHHSCGGGSSCBTTBEEEEEEEEECCCBS
T ss_pred             hhHhcCcccCcccCCcEEEEEEeecccccc
Confidence            999977789999999999999999976654

>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=99.81  E-value=8.6e-21  Score=143.12  Aligned_cols=106  Identities=17%  Similarity=0.274  Sum_probs=80.0

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCceeEE-ec-CCCceEEecC----Cccccc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAI-RY-DDGAVIRLHS----MKRECG   74 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~~~-~~-~~~~~~~F~~----~~~~wG   74 (155)
                      +|++||||++.+. .+||||||.+++++.++..+|++.|+|+|+|+||.+.+.+.. .. +....+.|..    ...+||
T Consensus       115 ~i~~yPnG~~~~~-~~~lSlyL~l~~~~~d~~l~Wp~~a~~~l~lldq~~~~~~~~~~~~~~~~~~~F~rp~~~~~~~wG  193 (228)
T 1flk_A          115 CARVYLNGDGMGK-GTHLSLFFVIMRGEYDALLPWPFKQKVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMNIASG  193 (228)
T ss_dssp             CEEEETTCCGGGT-TTEEEEEECCBCCTTTTSSCSSCCCCEEEEECCCSSSCCCEEEEECCCTTCTTSSSCSSSBCCCCS
T ss_pred             EEEEEcCCCCCCC-CCEEEEEEEEecCCccccCCCcEEEEEEEEEEcCCCCccceeeeecCCCccccccCCccCCCCCcC
Confidence            6899999987543 469999999998765542239999999999999998753221 11 0112234642    245899


Q ss_pred             ccccccccccccCCCCeeeCCEEEEEEEEEEeCCC
Q 041773           75 IDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPT  109 (155)
Q Consensus        75 ~~~Fi~~~~L~~~~~gyl~dD~l~i~~~V~v~~~~  109 (155)
                      |.+||++++|+  ++|||+||+|+|+|+|.|.+..
T Consensus       194 ~~~Fi~~~~L~--~~gyL~dD~l~I~~~V~v~~~~  226 (228)
T 1flk_A          194 CPVFVAQTVLE--NGTYIKDDTIFIKVIVDTSDLP  226 (228)
T ss_dssp             EEEEEEHHHHS--SSTTCCSSEEEEEEECCCTTSC
T ss_pred             HHHeeEHHHHc--cCCCccCCEEEEEEEEEccccc
Confidence            99999999999  4899999999999999987643

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

Probab=98.63  E-value=2.4e-08  Score=84.08  Aligned_cols=102  Identities=14%  Similarity=0.108  Sum_probs=69.5

Q ss_pred             eEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceE-EEEEEEEEEeCCCCc----eeEEecC-C-----------C---
Q 041773            2 LILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEV-FVNFTFFVQDRIKNE----YLAIRYD-D-----------G---   61 (155)
Q Consensus         2 l~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~-~a~f~l~l~n~~~~~----~~~~~~~-~-----------~---   61 (155)
                      |.+||+|     + .|+|||++|+.++.+..-+|++ .-++++.|+||+..-    +..+.-+ .           +   
T Consensus       441 v~l~~~~-----~-~~~~~~~~l~sG~~D~~L~WP~~~~q~t~~llDQ~pd~~~rms~~~s~ttdp~~~~~~~~~~w~~P  514 (592)
T 4gwm_A          441 IYLNLAH-----V-TNAGIYFHLISGANDDQLQWPCPWQQATMTLLDQNPDIRQRMSNQRSITTDPFMTTDNGNYFWDRP  514 (592)
T ss_dssp             EEEECCS-----S-SEEEEEEEEECCTTGGGSCSSCCSEEEEEEECCCCSSGGGCCCEEEEEECCTTCBCTTSCBTTSCH
T ss_pred             EEEecCC-----C-ceEEEEEEEecCCCCCCccCCCCCCEEEEEEeCCCCChHhcCceeEEEEcCCcccCcccccccCCc
Confidence            4556654     2 4999999999987765335999 478999999996321    1111100 0           0   


Q ss_pred             ----ceEEecCC-----cccccccccccccccccCCCCeeeCCEEEEEEEEEEeCCCCC
Q 041773           62 ----AVIRLHSM-----KRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPTGK  111 (155)
Q Consensus        62 ----~~~~F~~~-----~~~wG~~~Fi~~~~L~~~~~gyl~dD~l~i~~~V~v~~~~~~  111 (155)
                          ....|.+.     ..+|||+.||+++.|.  +..||.||.|+|.+.|+=+.....
T Consensus       515 ~~~g~~~~~~~~~~~~r~~~~G~~~fish~~l~--~r~fiK~d~~~i~~~~eD~~~l~~  571 (592)
T 4gwm_A          515 SKVGTVALFSNGTQFRRGGGYGTSAFITHERLK--SRDFIKGDDVYILLTVEDISHLNS  571 (592)
T ss_dssp             HHHCEEEECTTCCEEEEEEEEEEEEEEEHHHHT--STTSSBTTBEEEEEEEEECGGGSS
T ss_pred             ccccccccccCCcceeecCCcCccccccHHHHh--hcCcccCCeEEEEEEEEeCccccc
Confidence                01122221     2478999999999998  577999999999999977765433

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

Probab=95.99  E-value=0.003  Score=52.22  Aligned_cols=31  Identities=16%  Similarity=0.358  Sum_probs=28.4

Q ss_pred             CCCeeEEEeCCccCCCCCcccCCceeeCCccC
Q 041773          124 AGNILRWKIPNFSDLRDPEYYSSEFNAGGREW  155 (155)
Q Consensus       124 ~~~~~~~~~~~fs~~~~~~~~s~~F~~~g~~w  155 (155)
                      ..+.|+|+|.+||.+++ .+.|++|.|||++|
T Consensus        29 ~~~~~~w~I~nfS~~~~-~~~S~~F~vgg~~W   59 (522)
T 2f1z_A           29 SEATFQFTVERFSRLSE-SVLSPPCFVRNLPW   59 (522)
T ss_dssp             SEEEEEEEESSCTTCCS-CEECCCEEETTEEE
T ss_pred             CCcEEEEEECChhhcCC-ceeCCCEEECCEee
Confidence            46799999999999987 78999999999999

>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=95.69  E-value=0.0017  Score=47.25  Aligned_cols=32  Identities=28%  Similarity=0.602  Sum_probs=28.4

Q ss_pred             CCCeeEEEeCCccCCCC-------CcccCCceeeC--CccC
Q 041773          124 AGNILRWKIPNFSDLRD-------PEYYSSEFNAG--GREW  155 (155)
Q Consensus       124 ~~~~~~~~~~~fs~~~~-------~~~~s~~F~~~--g~~w  155 (155)
                      ..+.|+|+|.+||.+.+       +.+.|++|.+|  |.+|
T Consensus        38 ~~g~~~w~I~nfS~~~~~~~~~~g~~i~S~~F~vg~~Gy~W   78 (198)
T 4ghu_A           38 YNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKM   78 (198)
T ss_dssp             SSSEEEEEECCHHHHHHHHHTTSSCCEECCCEESSTTSCEE
T ss_pred             cccEEEEEECCHHHHHhhhccCCCcEEECCCeEECCCCcEE
Confidence            37899999999999854       57899999999  9998

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

Probab=95.45  E-value=0.0017  Score=46.29  Aligned_cols=32  Identities=19%  Similarity=0.403  Sum_probs=27.9

Q ss_pred             CCCeeEEEeCCccCCCC-------CcccCCceeeC--CccC
Q 041773          124 AGNILRWKIPNFSDLRD-------PEYYSSEFNAG--GREW  155 (155)
Q Consensus       124 ~~~~~~~~~~~fs~~~~-------~~~~s~~F~~~--g~~w  155 (155)
                      ..+.|+|+|.+||.+.+       ..+.|++|.+|  |.+|
T Consensus        22 ~~g~~~w~I~~fS~~~~~~~~g~~~~i~S~~F~~g~~G~~W   62 (178)
T 4gjh_A           22 YSGKLIWKVTDYRVKKREAVEGHTVSVFSQPFYTSRCGYRL   62 (178)
T ss_dssp             SSSEEEEEECCHHHHHHHHHTTSCCCEECCCEESSTTSCEE
T ss_pred             cceEEEEEECCHHHHHhhhhcCCCcEEECCCeEeCCCCeEE
Confidence            37899999999999854       26899999999  9998

>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=95.02  E-value=0.0022  Score=46.23  Aligned_cols=31  Identities=26%  Similarity=0.562  Sum_probs=27.4

Q ss_pred             CCeeEEEeCCccCCCCC-------cccCCceee--CCccC
Q 041773          125 GNILRWKIPNFSDLRDP-------EYYSSEFNA--GGREW  155 (155)
Q Consensus       125 ~~~~~~~~~~fs~~~~~-------~~~s~~F~~--~g~~w  155 (155)
                      .+.|+|+|.+||.+.+.       .+.|++|.+  ||.+|
T Consensus        42 ~g~~~w~I~nfS~~~~~~~~g~~~~i~S~~F~v~~gG~~W   81 (192)
T 1ca9_A           42 DGVFIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKM   81 (192)
T ss_dssp             SSEEEEEEESHHHHHHHHHTTSSCCEECCCEESSTTSCEE
T ss_pred             CceEEEEECCHHHHHHHhhcCCCceEECceEEeCCCCeEE
Confidence            78999999999998542       489999999  99998

>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=94.82  E-value=0.0034  Score=45.36  Aligned_cols=32  Identities=28%  Similarity=0.619  Sum_probs=27.5

Q ss_pred             CCCeeEEEeCCccCCCC-----C--cccCCceeeC--CccC
Q 041773          124 AGNILRWKIPNFSDLRD-----P--EYYSSEFNAG--GREW  155 (155)
Q Consensus       124 ~~~~~~~~~~~fs~~~~-----~--~~~s~~F~~~--g~~w  155 (155)
                      ..+.|+|+|.+||.+.+     +  .+.|++|.+|  |.+|
T Consensus        38 ~~g~~~w~I~~fS~~~~~~~~g~~~~i~S~~F~vg~~Gykw   78 (192)
T 2gkw_A           38 YNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKM   78 (192)
T ss_dssp             CSSEEEEEEECHHHHHHHHHHTSCSCEECCCEESSTTSCEE
T ss_pred             cCcEEEEEECCHHHHHHHhhcCCCceEEcccEEECCCCcEE
Confidence            47899999999999852     2  5889999999  9998

>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=94.24  E-value=0.0051  Score=45.68  Aligned_cols=32  Identities=28%  Similarity=0.602  Sum_probs=27.7

Q ss_pred             CCCeeEEEeCCccCCCC-------CcccCCceeeC--CccC
Q 041773          124 AGNILRWKIPNFSDLRD-------PEYYSSEFNAG--GREW  155 (155)
Q Consensus       124 ~~~~~~~~~~~fs~~~~-------~~~~s~~F~~~--g~~w  155 (155)
                      ..+.|+|+|.+||.+.+       +.+.|++|.+|  |.+|
T Consensus        74 ~~g~~~wkI~nfS~~~~~~~~g~~~~i~S~~F~vg~~Gy~w  114 (228)
T 1flk_A           74 YNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKM  114 (228)
T ss_dssp             SSSEEEEEEECHHHHHHHHHTTSCCCEECCCEESSTTSCEE
T ss_pred             cCcEEEEEECCHHHHHHHhhcCCCeeEECceEEeCCCCcEE
Confidence            37899999999999853       36889999999  9998

---

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	155
d2cr2a1	146	b.8.1.1 (A:8-153) Speckle-type poz protein SPOP {H	3e-11
d1czya1	152	b.8.1.1 (A:350-501) TNF receptor associated factor	2e-10
d1lb6a_	155	b.8.1.1 (A:) TNF receptor associated factor 6 (TRA	7e-10
d1l0aa1	155	b.8.1.1 (A:350-504) TNF receptor associated factor	4e-09

>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 = 55.9 bits (134), Expect = 3e-11
 Identities = 24/109 (22%), Positives = 39/109 (35%), Gaps = 9/109 (8%)

Query: 1   RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDD 60
            L + P G  +     ++SLYL L           EV   F F + +    E  A+    
Sbjct: 41  CLRVNPKGLDEESK-DYLSLYLLLV-----SCPKSEVRAKFKFSILNAKGEETKAME--- 91

Query: 61  GAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIKPT 109
                     ++ G  K I      + +NG L DD      E+ V++ +
Sbjct: 92  SQRAYRFVQGKDWGFKKFIRRDFLLDEANGLLPDDKLTLFCEVSVVQDS 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 = 53.6 bits (128), Expect = 2e-10
 Identities = 21/108 (19%), Positives = 38/108 (35%), Gaps = 7/108 (6%)

Query: 1   RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQD-----RIKNEYLA 55
            L +Y NG+  G+G  H+SL+  + +        W      T  + D      + + +  
Sbjct: 42  CLRIYLNGDGTGRG-THLSLFFVVMKGPNDALLRWPFNQKVTLMLLDQNNREHVIDAFRP 100

Query: 56  IRYDDGAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEI 103
                     ++ M    G     P+    E  N Y+ DD+    A +
Sbjct: 101 DVTSSSFQRPVNDMNIASGCPLFCPVSKM-EAKNSYVRDDAIFIKAIV 147

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

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

 Score = 52.5 bits (125), Expect = 7e-10
 Identities = 14/112 (12%), Positives = 35/112 (31%), Gaps = 11/112 (9%)

Query: 1   RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYL------ 54
            + L+       +   +ISL++   +  Y  + PW         + D+ +          
Sbjct: 44  CMRLHLQLPTAQRCANYISLFVHTMQGEYDSHLPWPFQGTIRLTILDQSEAPVRQNHEEI 103

Query: 55  ---AIRYDDGAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEI 103
                         +    +  G    + L+A +     ++ DD+ +   E+
Sbjct: 104 MDAKPELLAFQRPTIPRNPKGFGYVTFMHLEALR--QRTFIKDDTLLVRCEV 153

>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 = 50.2 bits (119), Expect = 4e-09
 Identities = 18/109 (16%), Positives = 35/109 (32%), Gaps = 9/109 (8%)

Query: 1   RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDR------IKNEYL 54
              +Y NG+  G+G  H+SL+  +    Y    PW      T  + D+      + + + 
Sbjct: 42  CARVYLNGDGMGKG-THLSLFFVIMRGEYDALLPWPFKQKVTLMLMDQGSSRRHLGDAFK 100

Query: 55  AIRYDDGAVIRLHSMKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEI 103
                         M    G    +     +  +  Y+ DD+      +
Sbjct: 101 PDPNSSSFKKPTGEMNIASGCPVFVAQTVLE--NGTYIKDDTIFIKVIV 147

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	155
d2cr2a1	146	Speckle-type poz protein SPOP {Human (Homo sapiens	99.88
d1czya1	152	TNF receptor associated factor 2 (TRAF2) {Human (H	99.85
d1l0aa1	155	TNF receptor associated factor 3 (TRAF3) {Human (H	99.82
d1lb6a_	155	TNF receptor associated factor 6 (TRAF6) {Human (H	99.81

>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=99.88  E-value=4.5e-23  Score=143.64  Aligned_cols=100  Identities=25%  Similarity=0.344  Sum_probs=82.1

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCceeEEecCCCceEEecCCccccccccccc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGIDKLIP   80 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~~~~~~~~~~~~F~~~~~~wG~~~Fi~   80 (155)
                      ||++||||++.+ .++||||||.+.+..    . |++.++|+|.|+||+++........  ..+.|. ...+|||.+||+
T Consensus        41 ~l~lyp~G~~~~-~~~~lSv~L~~~~~~----~-~~v~~~~~~~l~n~~~~~~~~~~~~--~~~~~~-~~~~~G~~~fi~  111 (146)
T d2cr2a1          41 CLRVNPKGLDEE-SKDYLSLYLLLVSCP----K-SEVRAKFKFSILNAKGEETKAMESQ--RAYRFV-QGKDWGFKKFIR  111 (146)
T ss_dssp             EEEECTTCSSSS-SSSBCCEEEECCCCS----S-SEEEEECEEEEECTTSCEEEEEECS--CCEEEE-TTCEEEESCCSB
T ss_pred             EEEEEECCCCCC-CCCEEEEEEEeccCC----C-ceEEEEEEEEEEcCCCCcccceEec--ceEeCC-CCCeeeccEEEE
Confidence            589999998764 457999999998753    3 9999999999999988765554331  233443 456899999999


Q ss_pred             ccccccCCCCeeeCCEEEEEEEEEEeCCC
Q 041773           81 LQAFKEPSNGYLVDDSCVFGAEIFVIKPT  109 (155)
Q Consensus        81 ~~~L~~~~~gyl~dD~l~i~~~V~v~~~~  109 (155)
                      +++|+++.+|||+||+|+|+|+|+|++..
T Consensus       112 ~~~l~~~~~g~l~~d~l~I~~~I~v~~e~  140 (146)
T d2cr2a1         112 RDFLLDEANGLLPDDKLTLFCEVSVVQDS  140 (146)
T ss_dssp             HHHHSCTTTTSCTTSEEEEEEEEEEECCS
T ss_pred             HHHhcCcccCceeCCEEEEEEEEEEEeCC
Confidence            99999989999999999999999999864

>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=99.85  E-value=2.6e-22  Score=140.61  Aligned_cols=105  Identities=19%  Similarity=0.307  Sum_probs=79.2

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCceeEEecCCC-c----eEEecCCcccccc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDG-A----VIRLHSMKRECGI   75 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~~~~~~~~-~----~~~F~~~~~~wG~   75 (155)
                      ||++||+|++.+. .+|+||||++.+.+.++...|++.++|+|+|+||.++.......... .    .+.+.....+|||
T Consensus        42 ~l~~yP~G~~~~~-~~~lSlyL~l~~~~~d~~~~~~~~~~~~~~l~d~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~G~  120 (152)
T d1czya1          42 CLRIYLNGDGTGR-GTHLSLFFVVMKGPNDALLRWPFNQKVTLMLLDQNNREHVIDAFRPDVTSSSFQRPVNDMNIASGC  120 (152)
T ss_dssp             EEEEETTCCGGGT-TTEEEEEEEEECCTTGGGSCSSCCCCEEEEECCTTSSCCEEEEECCCTTSGGGSCCSSSBCCCEEE
T ss_pred             EEEEEeCCCCCCC-CCEEEEEEEEccCCcCcccccceeeEEEEEEEcCCCCccceeeeccccccccccCCCcccccccch
Confidence            6899999987543 47999999999876554323999999999999998876544321101 1    1223334568999


Q ss_pred             cccccccccccCCCCeeeCCEEEEEEEEEEeC
Q 041773           76 DKLIPLQAFKEPSNGYLVDDSCVFGAEIFVIK  107 (155)
Q Consensus        76 ~~Fi~~~~L~~~~~gyl~dD~l~i~~~V~v~~  107 (155)
                      .+||++++|+ +++|||.||+|+|+|+|.|+.
T Consensus       121 ~~fi~~~~L~-~~~gfl~dD~l~I~~~V~v~~  151 (152)
T d1czya1         121 PLFCPVSKME-AKNSYVRDDAIFIKAIVDLTG  151 (152)
T ss_dssp             EEEEETCCCC-CSTTTSCSSCEEEEEEECCTT
T ss_pred             hhEEEHHHhc-ccCCcEeCCEEEEEEEEEecc
Confidence            9999999996 467999999999999998753

>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=99.82  E-value=3e-21  Score=135.34  Aligned_cols=103  Identities=17%  Similarity=0.230  Sum_probs=77.8

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCceeEEecC--C----CceEEecCCccccc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYD--D----GAVIRLHSMKRECG   74 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~~~~~~--~----~~~~~F~~~~~~wG   74 (155)
                      ||++||+|++.+. .+||||||++.+.+.++..+|++.|+|+|+|+||.+.........  .    ...+.+.....+||
T Consensus        42 ~l~~yp~G~~~~~-~~~lSlyL~l~~~~~d~~~~~~~~~~~~~~l~~q~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~G  120 (155)
T d1l0aa1          42 CARVYLNGDGMGK-GTHLSLFFVIMRGEYDALLPWPFKQKVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMNIASG  120 (155)
T ss_dssp             EEEEETTCCGGGT-TTEEEEEEEEECCTTTTTSCSSCCCCEEEEECCCSSSCCCEEEEECCCTTSTTSSCCSSSBCCCEE
T ss_pred             EEEEEeCCCCCCC-CCEEEEEEEEccCCcCcccCCcEEEEEEEEEecCCCCccceeEEEeeccccccccccccccccCcC
Confidence            5899999997643 479999999998765532249999999999999987654332110  0    01223334456899


Q ss_pred             ccccccccccccCCCCeeeCCEEEEEEEEEEe
Q 041773           75 IDKLIPLQAFKEPSNGYLVDDSCVFGAEIFVI  106 (155)
Q Consensus        75 ~~~Fi~~~~L~~~~~gyl~dD~l~i~~~V~v~  106 (155)
                      |.+||++++|+  ++|||+||+|+|+|+|.+.
T Consensus       121 ~~~fi~~~~L~--~~gfl~dD~l~I~~~V~~~  150 (155)
T d1l0aa1         121 CPVFVAQTVLE--NGTYIKDDTIFIKVIVDTS  150 (155)
T ss_dssp             EEEEEEHHHHH--TTTTCBTTEEEEEEEECCS
T ss_pred             hhheeEHHHhh--hCCCEECCEEEEEEEEEeC
Confidence            99999999998  5899999999999998654

>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=99.81  E-value=8.6e-21  Score=132.81  Aligned_cols=102  Identities=14%  Similarity=0.177  Sum_probs=76.4

Q ss_pred             CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCceeEEec----CCC-----ceEEecCCcc
Q 041773            1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRY----DDG-----AVIRLHSMKR   71 (155)
Q Consensus         1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~~~~~----~~~-----~~~~F~~~~~   71 (155)
                      ||.+||+|+..+...+||||||++.++..+...+|++.++++|.|+||++........    ...     ..+.+.....
T Consensus        44 rl~~yp~g~~~~~~~~~lsvyL~l~~~~~d~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  123 (155)
T d1lb6a_          44 CMRLHLQLPTAQRCANYISLFVHTMQGEYDSHLPWPFQGTIRLTILDQSEAPVRQNHEEIMDAKPELLAFQRPTIPRNPK  123 (155)
T ss_dssp             EEEEEECCTTCTTTTTEEEEEEEEECCTTGGGSCSSCCSEEEEEECCCSCTTSCCCEEEEEECCTTSGGGSCCSSSBCSE
T ss_pred             EEEEEeCCCCCCCCCCEEEEEEEEecCcccccCCCcEEEEEEEEEECCCCCccceeeEEeeecCCccccccCCcccCCcC
Confidence            6899999987654557999999999876543223999999999999998764321100    000     1123334456


Q ss_pred             cccccccccccccccCCCCeeeCCEEEEEEEEE
Q 041773           72 ECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIF  104 (155)
Q Consensus        72 ~wG~~~Fi~~~~L~~~~~gyl~dD~l~i~~~V~  104 (155)
                      +|||.+||++++|+  ++|||+||+|+|+|+|+
T Consensus       124 ~~G~~~fi~~~~L~--~~gyl~dD~l~I~~~V~  154 (155)
T d1lb6a_         124 GFGYVTFMHLEALR--QRTFIKDDTLLVRCEVS  154 (155)
T ss_dssp             EEEEEEEEEGGGGG--TSCCCBTTBEEEEEEEE
T ss_pred             CcChHHeeEHHHhc--cCCCEECCEEEEEEEEE
Confidence            89999999999998  58999999999999986