Psyllid ID: psy4215

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100---
Protein Sequence
MADGDKRRYTYVNDTKNKRQFRFDNLLKASTIGVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRRVPEVTKKLSDVTSSMVPTRIPTQST
Secondary Structure (PSIPRED)
ccccccccccccccccccccEEEEEEEEcccccccccEEEEEEEcccEEEEEcccccEEEccccccccccEEEEEEEEccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccEEEcccccccccccHcHEEEEEEEccccccEEEEEEEccEEEEEcccccccccHHHHHHccEEEEEEEEEccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
madgdkrrytyvNDTKNKRQFRFDNLLKastigvhsghYTAYAIHEaqwwhfddstvmpvdipalkkckpyILFYVRRVPEvtkklsdvtssmvptriptqst
Flexible Loop (DISEMBL)
madgdkrrytyvndtknkrqfrfdNLLKASTIGVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRRvpevtkklsdvtssmvptriptqst
Low Complexity Region (SEG)
MADGDKRRYTYVNDTKNKRQFRFDNLLKASTIGVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRRVPEVTKKLSDVTSSMVPTRIPTQST
Disordered region (IsUnstruct)
*********TYVNDTKNKRQFRFDNLLKASTIGVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRRVPEVT********************
Disordered Region (DISOPRED)
MADGDKRRYTY*****NK*QFRFDNLLKASTIGVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYV***************************
Disordered Region (DISEMBL)
MADGDKRRYTYVNDTKNKRQFRFDNLLKASTIGVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRRVPEVTKKLSDVTSSMVPTRIPTQST
Disordered Region (DISPRO)
***GDKRRYTYVNDTKNKRQFRFDNLLKASTIGVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRRVP***********************
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MADGDKRRYTYVNDTKNKRQFRFDNLLKASTIGVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRRVPEVTKKLSDVTSSMVPTRIPTQST
Positional Conservation
no confident homologs detected

---

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	103	2.2.26 [Sep-21-2011]
Q91W36	520	Ubiquitin carboxyl-termin	yes	N/A	0.446	0.088	0.630	2e-11
Q9Y6I4	520	Ubiquitin carboxyl-termin	yes	N/A	0.427	0.084	0.636	3e-10
Q99K46	921	Ubiquitin carboxyl-termin	no	N/A	0.669	0.074	0.356	1e-05
Q93Y01	910	Ubiquitin carboxyl-termin	yes	N/A	0.543	0.061	0.396	3e-05
Q9ZSB5	923	Ubiquitin carboxyl-termin	no	N/A	0.543	0.060	0.379	3e-05
P51784	963	Ubiquitin carboxyl-termin	no	N/A	0.504	0.053	0.375	0.0003
Q6P9L4	685	Ubiquitin carboxyl-termin	no	N/A	0.543	0.081	0.413	0.0005
A5PMR2	897	Ubiquitin carboxyl-termin	no	N/A	0.543	0.062	0.379	0.0005
Q9MAQ3	892	Putative ubiquitin carbox	no	N/A	0.388	0.044	0.476	0.0007
Q9C585	871	Ubiquitin carboxyl-termin	no	N/A	0.708	0.083	0.313	0.0009

>sp|Q91W36|UBP3_MOUSE Ubiquitin carboxyl-terminal hydrolase 3 OS=Mus musculus GN=Usp3 PE=2 SV=1

 Score = 68.2 bits (165), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 29/46 (63%), Positives = 34/46 (73%)

Query: 33  GVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR 78
           GV SGHYTAYA+HE +W+HF+DSTV   D   + K K YILFYV R
Sbjct: 466 GVGSGHYTAYAVHEGRWFHFNDSTVTVTDEETVGKAKAYILFYVER 511

Hydrolase that deubiquitinates monoubiquitinated target proteins such as histone H2A and H2B. Required for proper progression through S phase and subsequent mitotic entry. May regulate the DNA damage response (DDR) checkpoint through deubiquitination of H2A at DNA damage sites. Associates with the chromatin.
Mus musculus (taxid: 10090)
EC: 3EC: .EC: 4EC: .EC: 1EC: 9EC: .EC: 1EC: 2

>sp|Q9Y6I4|UBP3_HUMAN Ubiquitin carboxyl-terminal hydrolase 3 OS=Homo sapiens GN=USP3 PE=1 SV=2

 Score = 63.5 bits (153), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 28/44 (63%), Positives = 32/44 (72%)

Query: 33  GVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYV 76
           GV SGHYTAYA HE +W+HF+DSTV   D   + K K YILFYV
Sbjct: 466 GVGSGHYTAYATHEGRWFHFNDSTVTLTDEETVVKAKAYILFYV 509

Hydrolase that deubiquitinates monoubiquitinated target proteins such as histone H2A and H2B. Required for proper progression through S phase and subsequent mitotic entry. May regulate the DNA damage response (DDR) checkpoint through deubiquitination of H2A at DNA damage sites. Associates with the chromatin.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|Q99K46|UBP11_MOUSE Ubiquitin carboxyl-terminal hydrolase 11 OS=Mus musculus GN=Usp11 PE=2 SV=4

 Score = 48.5 bits (114), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 26/73 (35%), Positives = 43/73 (58%), Gaps = 4/73 (5%)

Query: 33  GVHSGHYTAYAIHE--AQWWHFDDSTVMPVDIPALKKCKPYILFYVRRVPEVTKKLSDVT 90
           G+  GHYT +A ++   QW +FDD++V PV+   ++    Y+LFY R+  +V ++ S  +
Sbjct: 842 GMRDGHYTTFACNKDSGQWHYFDDNSVSPVNENQIESKAAYVLFYQRQ--DVGRRQSQTS 899

Query: 91  SSMVPTRIPTQST 103
           SS  P    + ST
Sbjct: 900 SSDTPASPVSSST 912

Protease that can remove conjugated ubiquitin from target proteins and polyubiquitin chains. Inhibits the degradation of target proteins by the proteasome. Plays a role in the regulation of pathways leading to NF-kappa-B activation. Plays a role in the regulation of DNA repair after double-stranded DNA breaks.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|Q93Y01|UBP9_ARATH Ubiquitin carboxyl-terminal hydrolase 9 OS=Arabidopsis thaliana GN=UBP9 PE=2 SV=1

 Score = 47.0 bits (110), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/58 (39%), Positives = 34/58 (58%), Gaps = 2/58 (3%)

Query: 38  HYTAYA--IHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRRVPEVTKKLSDVTSSM 93
           HYTAYA  I + +W+HFDDS V  V+   +K    Y+LFY R   E   +  ++++ M
Sbjct: 852 HYTAYAKLIDDNEWYHFDDSHVSSVNESEIKNSAAYVLFYRRVRSETETQTVEMSTDM 909

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

Arabidopsis thaliana (taxid: 3702)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|Q9ZSB5|UBP10_ARATH Ubiquitin carboxyl-terminal hydrolase 10 OS=Arabidopsis thaliana GN=UBP10 PE=2 SV=2

 Score = 47.0 bits (110), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 22/58 (37%), Positives = 35/58 (60%), Gaps = 2/58 (3%)

Query: 38  HYTAYA--IHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRRVPEVTKKLSDVTSSM 93
           HYTAYA  I + +W+HFDDS V  V+   ++    Y+LFY R   E   + +++++ M
Sbjct: 853 HYTAYAKLIDDNKWYHFDDSHVSSVNESEIRNSAAYVLFYRRVRSETETQTAEMSTDM 910

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

Arabidopsis thaliana (taxid: 3702)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|P51784|UBP11_HUMAN Ubiquitin carboxyl-terminal hydrolase 11 OS=Homo sapiens GN=USP11 PE=1 SV=3

 Score = 43.9 bits (102), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 21/56 (37%), Positives = 36/56 (64%), Gaps = 4/56 (7%)

Query: 33  GVHSGHYTAYAIHE--AQWWHFDDSTVMPVDIPALKKCKPYILFYVRRVPEVTKKL 86
           G+  GHYT +A ++   QW +FDD++V PV+   ++    Y+LFY R+  +V ++L
Sbjct: 883 GMRDGHYTTFACNKDSGQWHYFDDNSVSPVNENQIESKAAYVLFYQRQ--DVARRL 936

Protease that can remove conjugated ubiquitin from target proteins and polyubiquitin chains. Inhibits the degradation of target proteins by the proteasome. Plays a role in the regulation of pathways leading to NF-kappa-B activation. Plays a role in the regulation of DNA repair after double-stranded DNA breaks.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|Q6P9L4|UBP49_MOUSE Ubiquitin carboxyl-terminal hydrolase 49 OS=Mus musculus GN=Usp49 PE=2 SV=1

 Score = 43.1 bits (100), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 24/58 (41%), Positives = 34/58 (58%), Gaps = 2/58 (3%)

Query: 33  GVHSGHYTAYAIH-EAQWW-HFDDSTVMPVDIPALKKCKPYILFYVRRVPEVTKKLSD 88
           G  SGHYTAY  + E  +W H +DS +    +  + K + YILFY RR  + + KLS+
Sbjct: 607 GFGSGHYTAYCYNTEGGFWVHCNDSKLDVCSVEEVCKTQAYILFYTRRTVQGSAKLSE 664

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|A5PMR2|UBP33_DANRE Ubiquitin carboxyl-terminal hydrolase 33 OS=Danio rerio GN=usp33 PE=2 SV=1

 Score = 43.1 bits (100), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 22/58 (37%), Positives = 31/58 (53%), Gaps = 2/58 (3%)

Query: 36  SGHYTAYAIHEAQ--WWHFDDSTVMPVDIPALKKCKPYILFYVRRVPEVTKKLSDVTS 91
           SGHY AY  +E    W+ FDD +V  V    ++  + Y+LFY +   E  K+   VTS
Sbjct: 626 SGHYIAYCRNELNQLWYEFDDQSVTEVSESCVQNAEAYVLFYKKSNDETQKERRKVTS 683

Deubiquitinating enzyme involved in various processes such as cellular migration and beta-2 adrenergic receptor/ADRB2 recycling. Involved in cell migration via its interaction with intracellular domain of robo1, leading to regulate the Slit signaling. Plays a role in commissural axon guidance cross the ventral midline of the neural tube in a Slit-dependent manner, possibly by mediating the deubiquitination of robo1. Acts as a regulator of G-protein coupled receptor (GPCR) signaling by mediating the deubiquitination of beta-arrestins (arrb1 and arrb2) and beta-2 adrenergic receptor (ADRB2). Plays a central role in ADRB2 recycling and resensitization after prolonged agonist stimulation by constitutively binding adrb2, mediating deubiquitination of adrb2 and inhibiting lysosomal trafficking of adrb2. Mediates deubiquitination of both 'Lys-48'- and 'Lys-63'-linked polyubiquitin chains.

Danio rerio (taxid: 7955)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|Q9MAQ3|UBP11_ARATH Putative ubiquitin carboxyl-terminal hydrolase 11 OS=Arabidopsis thaliana GN=UBP11 PE=3 SV=2

 Score = 42.7 bits (99), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 20/42 (47%), Positives = 27/42 (64%), Gaps = 2/42 (4%)

Query: 38  HYTAYA--IHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVR 77
           HYTAYA  + E +W++FDDS V  V+   +K    Y+LFY R
Sbjct: 838 HYTAYAKLMDETKWYNFDDSRVSAVNESEIKTSAAYVLFYQR 879

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

Arabidopsis thaliana (taxid: 3702)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|Q9C585|UBP8_ARATH Ubiquitin carboxyl-terminal hydrolase 8 OS=Arabidopsis thaliana GN=UBP8 PE=1 SV=2

 Score = 42.4 bits (98), Expect = 9e-04,   Method: Composition-based stats.
 Identities = 31/99 (31%), Positives = 42/99 (42%), Gaps = 26/99 (26%)

Query: 7   RRYTYVNDTKNKRQ----FRFDNLLKASTIGVHSG---------------------HYTA 41
           +R++Y    KNK +    F  DNL  +S I   +G                     HYTA
Sbjct: 772 KRFSYSRFMKNKLEAYVDFPLDNLDLSSYISYKNGQTTYRYMLYAISNHYGSMGGGHYTA 831

Query: 42  YAIHEA-QWWHFDDSTVMPVDIPALKKCKPYILFYVRRV 79
           Y  H   +W+ FDDS V  +    +K    Y+LFY R V
Sbjct: 832 YVHHGGDRWYDFDDSHVHQISQEKIKTSAAYVLFYKRLV 870

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	103
322800426	604	hypothetical protein SINV_08883 [Solenop	0.446	0.076	0.630	5e-12
383854138	542	PREDICTED: ubiquitin carboxyl-terminal h	0.446	0.084	0.608	1e-11
66501571	541	PREDICTED: ubiquitin carboxyl-terminal h	0.446	0.085	0.608	1e-11
380013085	542	PREDICTED: ubiquitin carboxyl-terminal h	0.446	0.084	0.608	1e-11
340721026	541	PREDICTED: ubiquitin carboxyl-terminal h	0.446	0.085	0.608	1e-11
350404719	541	PREDICTED: ubiquitin carboxyl-terminal h	0.446	0.085	0.608	1e-11
307168098	92	Ubiquitin carboxyl-terminal hydrolase 3	0.446	0.5	0.630	2e-11
332022861	92	Ubiquitin carboxyl-terminal hydrolase 3	0.446	0.5	0.630	2e-11
405972649	479	Ubiquitin carboxyl-terminal hydrolase 3	0.533	0.114	0.581	2e-11
307204808	550	Ubiquitin carboxyl-terminal hydrolase 3	0.446	0.083	0.586	3e-11

>gi|322800426|gb|EFZ21430.1| hypothetical protein SINV_08883 [Solenopsis invicta]

 Score = 75.1 bits (183), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 29/46 (63%), Positives = 37/46 (80%)

Query: 33  GVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR 78
           G  +GHYTA+A+H+ QW+HF+DS+V P    A+ KCKPYILFYVRR
Sbjct: 551 GAGTGHYTAFAVHDGQWFHFNDSSVRPATTDAVAKCKPYILFYVRR 596

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383854138|ref|XP_003702579.1| PREDICTED: ubiquitin carboxyl-terminal hydrolase 3-like [Megachile rotundata]

 Score = 73.9 bits (180), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 28/46 (60%), Positives = 37/46 (80%)

Query: 33  GVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR 78
           G  +GHYTA+A+H+ QW+HF+DS+V P    A+ KCKPYILFYVR+
Sbjct: 489 GAGTGHYTAFAVHDGQWFHFNDSSVRPATTDAVAKCKPYILFYVRK 534

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|66501571|ref|XP_392160.2| PREDICTED: ubiquitin carboxyl-terminal hydrolase 3-like [Apis mellifera]

 Score = 73.9 bits (180), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 28/46 (60%), Positives = 37/46 (80%)

Query: 33  GVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR 78
           G  +GHYTA+A+H+ QW+HF+DS+V P    A+ KCKPYILFYVR+
Sbjct: 488 GAGTGHYTAFAVHDGQWFHFNDSSVRPATTDAVAKCKPYILFYVRK 533

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380013085|ref|XP_003690600.1| PREDICTED: ubiquitin carboxyl-terminal hydrolase 3-like [Apis florea]

 Score = 73.9 bits (180), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 28/46 (60%), Positives = 37/46 (80%)

Query: 33  GVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR 78
           G  +GHYTA+A+H+ QW+HF+DS+V P    A+ KCKPYILFYVR+
Sbjct: 489 GAGTGHYTAFAVHDGQWFHFNDSSVRPATTDAVAKCKPYILFYVRK 534

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340721026|ref|XP_003398928.1| PREDICTED: ubiquitin carboxyl-terminal hydrolase 3-like [Bombus terrestris]

 Score = 73.9 bits (180), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 28/46 (60%), Positives = 37/46 (80%)

Query: 33  GVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR 78
           G  +GHYTA+A+H+ QW+HF+DS+V P    A+ KCKPYILFYVR+
Sbjct: 488 GAGTGHYTAFAVHDGQWFHFNDSSVRPATTDAVAKCKPYILFYVRK 533

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350404719|ref|XP_003487196.1| PREDICTED: ubiquitin carboxyl-terminal hydrolase 3-like [Bombus impatiens]

 Score = 73.6 bits (179), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 28/46 (60%), Positives = 37/46 (80%)

Query: 33  GVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR 78
           G  +GHYTA+A+H+ QW+HF+DS+V P    A+ KCKPYILFYVR+
Sbjct: 488 GAGTGHYTAFAVHDGQWFHFNDSSVRPATTDAVAKCKPYILFYVRK 533

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307168098|gb|EFN61396.1| Ubiquitin carboxyl-terminal hydrolase 3 [Camponotus floridanus]

 Score = 73.2 bits (178), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 29/46 (63%), Positives = 37/46 (80%)

Query: 33 GVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR 78
          G  +GHYTA+A+H+ QW+HF+DS+V P    A+ KCKPYILFYVRR
Sbjct: 39 GAGTGHYTAFAVHDGQWFHFNDSSVRPATTDAVAKCKPYILFYVRR 84

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332022861|gb|EGI63134.1| Ubiquitin carboxyl-terminal hydrolase 3 [Acromyrmex echinatior]

 Score = 73.2 bits (178), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 29/46 (63%), Positives = 37/46 (80%)

Query: 33 GVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR 78
          G  +GHYTA+A+H+ QW+HF+DS+V P    A+ KCKPYILFYVRR
Sbjct: 39 GAGTGHYTAFAVHDGQWFHFNDSSVRPATTDAVAKCKPYILFYVRR 84

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|405972649|gb|EKC37407.1| Ubiquitin carboxyl-terminal hydrolase 3 [Crassostrea gigas]

 Score = 72.8 bits (177), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 32/55 (58%), Positives = 39/55 (70%)

Query: 33  GVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRRVPEVTKKLS 87
           G  SGHYT+YA HE QW+HF+DSTV P +   + KCK YILFY+RR  +V   LS
Sbjct: 420 GAGSGHYTSYARHEGQWFHFNDSTVTPCEPETVAKCKAYILFYIRRQFKVPDYLS 474

Source: Crassostrea gigas

Species: Crassostrea gigas

Genus: Crassostrea

Family: Ostreidae

Order: Ostreoida

Class: Bivalvia

Phylum: Mollusca

Superkingdom: Eukaryota

>gi|307204808|gb|EFN83366.1| Ubiquitin carboxyl-terminal hydrolase 3 [Harpegnathos saltator]

 Score = 72.8 bits (177), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 27/46 (58%), Positives = 37/46 (80%)

Query: 33  GVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR 78
           G  +GHYTA+A+H+ QW+HF+DS+V P    ++ KCKPYILFYVR+
Sbjct: 497 GAGTGHYTAFAVHDGQWFHFNDSSVRPASTESVAKCKPYILFYVRK 542

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

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	103
UNIPROTKB|I3LJX6	137	LOC100624494 "Uncharacterized	0.446	0.335	0.630	2.8e-11
UNIPROTKB|D4A4F6	483	D4A4F6 "Ubiquitin carboxyl-ter	0.446	0.095	0.630	6.5e-11
MGI|MGI:2152450	520	Usp3 "ubiquitin specific pepti	0.446	0.088	0.630	7.4e-11
RGD|1308852	520	Usp3 "ubiquitin specific pepti	0.446	0.088	0.630	7.4e-11
UNIPROTKB|D4A4F5	521	D4A4F5 "Ubiquitin carboxyl-ter	0.446	0.088	0.630	7.5e-11
UNIPROTKB|H0YM72	106	USP3 "Ubiquitin carboxyl-termi	0.427	0.415	0.636	9.4e-11
UNIPROTKB|B4DWJ6	271	USP3 "Ubiquitin carboxyl-termi	0.427	0.162	0.636	1.9e-10
UNIPROTKB|E2QZQ0	520	USP3 "Ubiquitin carboxyl-termi	0.446	0.088	0.630	2.6e-10
UNIPROTKB|F1NQJ6	521	USP3 "Ubiquitin carboxyl-termi	0.446	0.088	0.630	2.6e-10
UNIPROTKB|F1N0I6	521	USP3 "Ubiquitin carboxyl-termi	0.446	0.088	0.630	2.6e-10

UNIPROTKB|I3LJX6 LOC100624494 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 155 (59.6 bits), Expect = 2.8e-11, P = 2.8e-11
 Identities = 29/46 (63%), Positives = 33/46 (71%)

Query:    33 GVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR 78
             GV SGHYTAYA HE +W+HF+DSTV   D   + K K YILFYV R
Sbjct:    83 GVGSGHYTAYATHEGRWFHFNDSTVTLTDEDTVVKAKAYILFYVER 128

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0004221 "ubiquitin thiolesterase activity" evidence=IEA

UNIPROTKB|D4A4F6 D4A4F6 "Ubiquitin carboxyl-terminal hydrolase" [Rattus norvegicus (taxid:10116)]

 Score = 160 (61.4 bits), Expect = 6.5e-11, P = 6.5e-11
 Identities = 29/46 (63%), Positives = 34/46 (73%)

Query:    33 GVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR 78
             GV SGHYTAYA+HE +W+HF+DSTV   D   + K K YILFYV R
Sbjct:   429 GVGSGHYTAYAVHEGRWFHFNDSTVTVTDEETVGKAKAYILFYVER 474

GO:0000278 "mitotic cell cycle" evidence=IEA

GO:0000790 "nuclear chromatin" evidence=IEA

GO:0004221 "ubiquitin thiolesterase activity" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0008234 "cysteine-type peptidase activity" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016578 "histone deubiquitination" evidence=IEA

GO:0031647 "regulation of protein stability" evidence=IEA

GO:0042393 "histone binding" evidence=IEA

MGI|MGI:2152450 Usp3 "ubiquitin specific peptidase 3" [Mus musculus (taxid:10090)]

 Score = 160 (61.4 bits), Expect = 7.4e-11, P = 7.4e-11
 Identities = 29/46 (63%), Positives = 34/46 (73%)

Query:    33 GVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR 78
             GV SGHYTAYA+HE +W+HF+DSTV   D   + K K YILFYV R
Sbjct:   466 GVGSGHYTAYAVHEGRWFHFNDSTVTVTDEETVGKAKAYILFYVER 511

GO:0000278 "mitotic cell cycle" evidence=ISO

GO:0000790 "nuclear chromatin" evidence=ISO

GO:0004221 "ubiquitin thiolesterase activity" evidence=ISO

GO:0005634 "nucleus" evidence=IEA

GO:0006281 "DNA repair" evidence=ISO

GO:0006508 "proteolysis" evidence=IEA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0006974 "response to DNA damage stimulus" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0008233 "peptidase activity" evidence=IEA

GO:0008234 "cysteine-type peptidase activity" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016568 "chromatin modification" evidence=IEA

GO:0016578 "histone deubiquitination" evidence=ISO

GO:0016787 "hydrolase activity" evidence=IEA

GO:0031647 "regulation of protein stability" evidence=ISO

GO:0042393 "histone binding" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

RGD|1308852 Usp3 "ubiquitin specific peptidase 3" [Rattus norvegicus (taxid:10116)]

 Score = 160 (61.4 bits), Expect = 7.4e-11, P = 7.4e-11
 Identities = 29/46 (63%), Positives = 34/46 (73%)

Query:    33 GVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR 78
             GV SGHYTAYA+HE +W+HF+DSTV   D   + K K YILFYV R
Sbjct:   466 GVGSGHYTAYAVHEGRWFHFNDSTVTVTDEETVGKAKAYILFYVER 511

GO:0000278 "mitotic cell cycle" evidence=ISO

GO:0000790 "nuclear chromatin" evidence=ISO

GO:0004221 "ubiquitin thiolesterase activity" evidence=ISO

GO:0006281 "DNA repair" evidence=ISO

GO:0016578 "histone deubiquitination" evidence=ISO

GO:0031647 "regulation of protein stability" evidence=ISO

GO:0042393 "histone binding" evidence=ISO

UNIPROTKB|D4A4F5 D4A4F5 "Ubiquitin carboxyl-terminal hydrolase" [Rattus norvegicus (taxid:10116)]

 Score = 160 (61.4 bits), Expect = 7.5e-11, P = 7.5e-11
 Identities = 29/46 (63%), Positives = 34/46 (73%)

Query:    33 GVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR 78
             GV SGHYTAYA+HE +W+HF+DSTV   D   + K K YILFYV R
Sbjct:   467 GVGSGHYTAYAVHEGRWFHFNDSTVTVTDEETVGKAKAYILFYVER 512

GO:0000278 "mitotic cell cycle" evidence=IEA

GO:0000790 "nuclear chromatin" evidence=IEA

GO:0004221 "ubiquitin thiolesterase activity" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0008234 "cysteine-type peptidase activity" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016578 "histone deubiquitination" evidence=IEA

GO:0031647 "regulation of protein stability" evidence=IEA

GO:0042393 "histone binding" evidence=IEA

UNIPROTKB|H0YM72 USP3 "Ubiquitin carboxyl-terminal hydrolase 3" [Homo sapiens (taxid:9606)]

 Score = 150 (57.9 bits), Expect = 9.4e-11, P = 9.4e-11
 Identities = 28/44 (63%), Positives = 32/44 (72%)

Query:    33 GVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYV 76
             GV SGHYTAYA HE +W+HF+DSTV   D   + K K YILFYV
Sbjct:    52 GVGSGHYTAYATHEGRWFHFNDSTVTLTDEETVVKAKAYILFYV 95

GO:0004221 "ubiquitin thiolesterase activity" evidence=IEA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

UNIPROTKB|B4DWJ6 USP3 "Ubiquitin carboxyl-terminal hydrolase 3" [Homo sapiens (taxid:9606)]

 Score = 150 (57.9 bits), Expect = 1.9e-10, P = 1.9e-10
 Identities = 28/44 (63%), Positives = 32/44 (72%)

Query:    33 GVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYV 76
             GV SGHYTAYA HE +W+HF+DSTV   D   + K K YILFYV
Sbjct:   217 GVGSGHYTAYATHEGRWFHFNDSTVTLTDEETVVKAKAYILFYV 260

GO:0004221 "ubiquitin thiolesterase activity" evidence=IEA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

UNIPROTKB|E2QZQ0 USP3 "Ubiquitin carboxyl-terminal hydrolase" [Canis lupus familiaris (taxid:9615)]

 Score = 155 (59.6 bits), Expect = 2.6e-10, P = 2.6e-10
 Identities = 29/46 (63%), Positives = 33/46 (71%)

Query:    33 GVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR 78
             GV SGHYTAYA HE +W+HF+DSTV   D   + K K YILFYV R
Sbjct:   466 GVGSGHYTAYATHEGRWFHFNDSTVTLTDEDTVVKAKAYILFYVER 511

GO:0042393 "histone binding" evidence=IEA

GO:0031647 "regulation of protein stability" evidence=IEA

GO:0016578 "histone deubiquitination" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

GO:0000790 "nuclear chromatin" evidence=IEA

GO:0000278 "mitotic cell cycle" evidence=IEA

GO:0008234 "cysteine-type peptidase activity" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0004221 "ubiquitin thiolesterase activity" evidence=IEA

UNIPROTKB|F1NQJ6 USP3 "Ubiquitin carboxyl-terminal hydrolase" [Gallus gallus (taxid:9031)]

 Score = 155 (59.6 bits), Expect = 2.6e-10, P = 2.6e-10
 Identities = 29/46 (63%), Positives = 33/46 (71%)

Query:    33 GVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR 78
             GV SGHYTAYA HE +W+HF+DSTV   D   + K K YILFYV R
Sbjct:   467 GVGSGHYTAYAAHEGRWFHFNDSTVTLTDEETVVKAKAYILFYVER 512

GO:0004221 "ubiquitin thiolesterase activity" evidence=IEA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0008234 "cysteine-type peptidase activity" evidence=IEA

GO:0000278 "mitotic cell cycle" evidence=IEA

GO:0000790 "nuclear chromatin" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

GO:0016578 "histone deubiquitination" evidence=IEA

GO:0031647 "regulation of protein stability" evidence=IEA

GO:0042393 "histone binding" evidence=IEA

UNIPROTKB|F1N0I6 USP3 "Ubiquitin carboxyl-terminal hydrolase" [Bos taurus (taxid:9913)]

 Score = 155 (59.6 bits), Expect = 2.6e-10, P = 2.6e-10
 Identities = 29/46 (63%), Positives = 33/46 (71%)

Query:    33 GVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR 78
             GV SGHYTAYA HE +W+HF+DSTV   D   + K K YILFYV R
Sbjct:   467 GVGSGHYTAYATHEGRWFHFNDSTVTLTDEDTVLKAKAYILFYVER 512

GO:0042393 "histone binding" evidence=IEA

GO:0031647 "regulation of protein stability" evidence=IEA

GO:0016578 "histone deubiquitination" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

GO:0000790 "nuclear chromatin" evidence=IEA

GO:0000278 "mitotic cell cycle" evidence=IEA

GO:0008234 "cysteine-type peptidase activity" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0004221 "ubiquitin thiolesterase activity" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q91W36	UBP3_MOUSE	3, ., 4, ., 1, 9, ., 1, 2	0.6304	0.4466	0.0884	yes	N/A
Q9Y6I4	UBP3_HUMAN	3, ., 4, ., 1, 9, ., 1, 2	0.6363	0.4271	0.0846	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	103
cd02257	255	cd02257, Peptidase_C19, Peptidase C19 contains ubi	2e-10
cd02674	230	cd02674, Peptidase_C19R, A subfamily of peptidase	1e-09
cd02660	328	cd02660, Peptidase_C19D, A subfamily of Peptidase	4e-09
pfam00443	313	pfam00443, UCH, Ubiquitin carboxyl-terminal hydrol	2e-08
cd02661	304	cd02661, Peptidase_C19E, A subfamily of Peptidase	7e-08
COG5560	823	COG5560, UBP12, Ubiquitin C-terminal hydrolase [Po	8e-07
cd02667	279	cd02667, Peptidase_C19K, A subfamily of Peptidase	1e-05
COG5533	415	COG5533, UBP5, Ubiquitin C-terminal hydrolase [Pos	2e-05
cd02668	324	cd02668, Peptidase_C19L, A subfamily of Peptidase	5e-04
cd02658	311	cd02658, Peptidase_C19B, A subfamily of Peptidase	0.002
cd02670	241	cd02670, Peptidase_C19N, A subfamily of Peptidase	0.002
cd02659	334	cd02659, peptidase_C19C, A subfamily of Peptidase	0.003

>gnl|CDD|239072 cd02257, Peptidase_C19, Peptidase C19 contains ubiquitinyl hydrolases

 Score = 55.2 bits (133), Expect = 2e-10
 Identities = 16/50 (32%), Positives = 20/50 (40%), Gaps = 7/50 (14%)

Query: 34  VHSGHYTAYAIHEA--QWWHFDDSTVMPVDI-----PALKKCKPYILFYV 76
             SGHY AY    +  +W+ F+D  V  V               YILFY 
Sbjct: 206 ADSGHYVAYVKDPSDGKWYKFNDDKVTEVSEEEVLEFGSLSSSAYILFYE 255

They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome. Length = 255

>gnl|CDD|239139 cd02674, Peptidase_C19R, A subfamily of peptidase C19

 Score = 52.3 bits (126), Expect = 1e-09
 Identities = 18/42 (42%), Positives = 22/42 (52%), Gaps = 2/42 (4%)

Query: 36  SGHYTAYAIHEA--QWWHFDDSTVMPVDIPALKKCKPYILFY 75
            GHYTAY  +     W+ FDDS V  V   ++     YILFY
Sbjct: 188 GGHYTAYCKNNETNDWYKFDDSRVTKVSESSVVSSSAYILFY 229

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome. Length = 230

>gnl|CDD|239125 cd02660, Peptidase_C19D, A subfamily of Peptidase C19

 Score = 51.6 bits (124), Expect = 4e-09
 Identities = 17/44 (38%), Positives = 26/44 (59%), Gaps = 1/44 (2%)

Query: 34  VHSGHYTAYA-IHEAQWWHFDDSTVMPVDIPALKKCKPYILFYV 76
           + +GHYTAY    + QW+ FDD+ +  V    + K + Y+LFY 
Sbjct: 285 LDTGHYTAYCRQGDGQWFKFDDAMITRVSEEEVLKSQAYLLFYH 328

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome. Length = 328

>gnl|CDD|215922 pfam00443, UCH, Ubiquitin carboxyl-terminal hydrolase

 Score = 49.7 bits (119), Expect = 2e-08
 Identities = 17/48 (35%), Positives = 21/48 (43%), Gaps = 2/48 (4%)

Query: 30  STIGVHSGHYTAYAIHEA--QWWHFDDSTVMPVDIPALKKCKPYILFY 75
           S   +  GHY AY       +W  FDD  V  V    + +   YILFY
Sbjct: 266 SGSSLSGGHYIAYIKKREKNKWVKFDDEKVSVVTEEEVLRSSAYILFY 313

Length = 313

>gnl|CDD|239126 cd02661, Peptidase_C19E, A subfamily of Peptidase C19

 Score = 48.0 bits (115), Expect = 7e-08
 Identities = 20/44 (45%), Positives = 27/44 (61%), Gaps = 3/44 (6%)

Query: 35  HSGHYTAY--AIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYV 76
           HSGHY  Y  + +  +W++ DDS V PV I  +   K YILFY+
Sbjct: 262 HSGHYYCYVKSSNG-KWYNMDDSKVSPVSIETVLSQKAYILFYI 304

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome. Length = 304

>gnl|CDD|227847 COG5560, UBP12, Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]

 Score = 45.3 bits (107), Expect = 8e-07
 Identities = 21/48 (43%), Positives = 27/48 (56%), Gaps = 2/48 (4%)

Query: 33  GVHSGHYTAYAIHEA--QWWHFDDSTVMPVDIPALKKCKPYILFYVRR 78
           G+  GHYTAYA + A   W+ FDDS +  VD         Y+LFY R+
Sbjct: 775 GLSGGHYTAYARNFANNGWYLFDDSRITEVDPEDSVTSSAYVLFYRRK 822

Length = 823

>gnl|CDD|239132 cd02667, Peptidase_C19K, A subfamily of Peptidase C19

 Score = 41.6 bits (98), Expect = 1e-05
 Identities = 17/64 (26%), Positives = 23/64 (35%), Gaps = 23/64 (35%)

Query: 35  HSGHYTAYA-----------------------IHEAQWWHFDDSTVMPVDIPALKKCKPY 71
            SGHY AY                            QW++  DS V  V +  + K + Y
Sbjct: 215 RSGHYVAYVKVRPPQQRLSDLTKSKPAADEAGPGSGQWYYISDSDVREVSLEEVLKSEAY 274

Query: 72  ILFY 75
           +LFY
Sbjct: 275 LLFY 278

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome. Length = 279

>gnl|CDD|227820 COG5533, UBP5, Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]

 Score = 41.2 bits (96), Expect = 2e-05
 Identities = 14/45 (31%), Positives = 19/45 (42%), Gaps = 1/45 (2%)

Query: 34  VHSGHYTAYAIHEAQWWHFDDSTVMPVD-IPALKKCKPYILFYVR 77
           ++ GHY +       W  +DDS V       +      YILFY R
Sbjct: 369 LNGGHYFSEVKRSGTWNVYDDSQVRKGSRTTSGSHPSSYILFYTR 413

Length = 415

>gnl|CDD|239133 cd02668, Peptidase_C19L, A subfamily of Peptidase C19

 Score = 37.4 bits (87), Expect = 5e-04
 Identities = 12/53 (22%), Positives = 20/53 (37%), Gaps = 2/53 (3%)

Query: 17  NKRQFRFDNLLKASTIGVHSGHYTA--YAIHEAQWWHFDDSTVMPVDIPALKK 67
               +    +L    +  +SGHY A        +W+ F+D  V  +    LK 
Sbjct: 242 GSYVYELSGVLIHQGVSAYSGHYIAHIKDEQTGEWYKFNDEDVEEMPGKPLKL 294

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome. Length = 324

>gnl|CDD|239123 cd02658, Peptidase_C19B, A subfamily of Peptidase C19

 Score = 35.4 bits (82), Expect = 0.002
 Identities = 18/46 (39%), Positives = 22/46 (47%), Gaps = 4/46 (8%)

Query: 34  VHSGHYTAY----AIHEAQWWHFDDSTVMPVDIPALKKCKPYILFY 75
           VHSGHY A+       E +W  F+D  V+    P   K   YI FY
Sbjct: 265 VHSGHYVAHIKKEIDGEGKWVLFNDEKVVASQDPPEMKKLGYIYFY 310

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome. Length = 311

>gnl|CDD|239135 cd02670, Peptidase_C19N, A subfamily of Peptidase C19

 Score = 35.2 bits (81), Expect = 0.002
 Identities = 18/61 (29%), Positives = 24/61 (39%), Gaps = 19/61 (31%)

Query: 34  VHSGHYTAYA-------------IHEAQWWHFDD-----STVMPVDIPA-LKKCKPYILF 74
           + +GHY A+               + AQW  FDD           +IPA      PY+LF
Sbjct: 180 LETGHYVAFVRYGSYSLTETDNEAYNAQWVFFDDMADRDGVSNGFNIPAARLLEDPYMLF 239

Query: 75  Y 75
           Y
Sbjct: 240 Y 240

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome. Length = 241

>gnl|CDD|239124 cd02659, peptidase_C19C, A subfamily of Peptidase C19

 Score = 34.9 bits (81), Expect = 0.003
 Identities = 18/69 (26%), Positives = 26/69 (37%), Gaps = 24/69 (34%)

Query: 33  GVHSGHYTAY--AIHEAQWWHFDDSTVMPVDIP-ALKKC--------------------- 68
             H GHY +Y     + +W+ F+D  V P D   A ++C                     
Sbjct: 263 DAHGGHYYSYIKDRDDGKWYKFNDDVVTPFDPNDAEEECFGGEETQKTYDSGPRAFKRTT 322

Query: 69  KPYILFYVR 77
             Y+LFY R
Sbjct: 323 NAYMLFYER 331

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome. Length = 334

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	103
KOG1865|consensus	545		99.82
cd02667	279	Peptidase_C19K A subfamily of Peptidase C19. Pepti	99.8
cd02663	300	Peptidase_C19G A subfamily of Peptidase C19. Pepti	99.8
cd02673	245	Peptidase_C19Q A subfamily of Peptidase C19. Pepti	99.79
cd02664	327	Peptidase_C19H A subfamily of Peptidase C19. Pepti	99.79
cd02657	305	Peptidase_C19A A subfamily of Peptidase C19. Pepti	99.78
cd02658	311	Peptidase_C19B A subfamily of Peptidase C19. Pepti	99.78
cd02662	240	Peptidase_C19F A subfamily of Peptidase C19. Pepti	99.78
cd02659	334	peptidase_C19C A subfamily of Peptidase C19. Pepti	99.77
cd02661	304	Peptidase_C19E A subfamily of Peptidase C19. Pepti	99.77
PF00443	269	UCH: Ubiquitin carboxyl-terminal hydrolase; InterP	99.76
cd02660	328	Peptidase_C19D A subfamily of Peptidase C19. Pepti	99.76
cd02665	228	Peptidase_C19I A subfamily of Peptidase C19. Pepti	99.75
cd02674	230	Peptidase_C19R A subfamily of peptidase C19. Pepti	99.75
cd02668	324	Peptidase_C19L A subfamily of Peptidase C19. Pepti	99.75
cd02669	440	Peptidase_C19M A subfamily of Peptidase C19. Pepti	99.74
cd02670	241	Peptidase_C19N A subfamily of Peptidase C19. Pepti	99.74
cd02257	255	Peptidase_C19 Peptidase C19 contains ubiquitinyl h	99.72
KOG1867|consensus	492		99.71
cd02671	332	Peptidase_C19O A subfamily of Peptidase C19. Pepti	99.7
COG5560	823	UBP12 Ubiquitin C-terminal hydrolase [Posttranslat	99.69
KOG1868|consensus	653		99.67
cd02672	268	Peptidase_C19P A subfamily of Peptidase C19. Pepti	99.66
KOG1870|consensus	842		99.61
cd02666	343	Peptidase_C19J A subfamily of Peptidase C19. Pepti	99.58
COG5533	415	UBP5 Ubiquitin C-terminal hydrolase [Posttranslati	99.57
KOG1866|consensus	944		99.55
COG5077	1089	Ubiquitin carboxyl-terminal hydrolase [Posttransla	99.46
KOG0944|consensus	763		99.44
KOG1864|consensus	587		99.42
KOG4598|consensus	1203		99.35
KOG1873|consensus	877		99.35
COG5207	749	UBP14 Isopeptidase T [Posttranslational modificati	99.22
KOG1872|consensus	473		99.2
PF13423	295	UCH_1: Ubiquitin carboxyl-terminal hydrolase	98.73
KOG1871|consensus	420		98.66
KOG1863|consensus	1093		98.55
KOG1275|consensus	1118		97.74
KOG2026|consensus	442		96.78
PF15499	275	Peptidase_C98: Ubiquitin-specific peptidase-like,	93.62
PF05408	193	Peptidase_C28: Foot-and-mouth virus L-proteinase;	91.89
PF01473	19	CW_binding_1: Putative cell wall binding repeat; I	80.87

>KOG1865|consensus

Probab=99.82  E-value=3.2e-20  Score=149.20  Aligned_cols=70  Identities=30%  Similarity=0.612  Sum_probs=65.4

Q ss_pred             eeeeeCCC-CCcceEEeEEEEEeeCCCCCceEEEEEEc-CCeEEEEcCCeeeEeCcccccCCCcEEEEEEec
Q psy4215           9 YTYVNDTK-NKRQFRFDNLLKASTIGVHSGHYTAYAIH-EAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR   78 (103)
Q Consensus         9 ~~~~~~~~-~~~~Y~L~avv~H~G~~~~~GHY~~~~~~-~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~r~   78 (103)
                      =|||+.+. ....|.|+|||+|.|....+|||++|||. +|.||+|||+.|+.++.+.|.+.+||||||.|+
T Consensus       339 ~PyMS~~~e~s~~Y~LYavlVH~g~~~~~GHY~cYvks~~g~Wy~~DDS~V~~~~~~~VLsq~AYmLfY~R~  410 (545)
T KOG1865|consen  339 QPYMSQPNEGSTVYKLYAVLVHLGTSCHSGHYFCYVKSQNGQWYKMDDSEVTQSSIESVLSQQAYILFYARK  410 (545)
T ss_pred             cccccCCCCCCceEEEEEEEEeccccccCCceEEEEEcCCCceEEccCceeeeccccceecccceEEEEEee
Confidence            47888666 46889999999999988999999999999 889999999999999999999999999999997

>cd02667 Peptidase_C19K A subfamily of Peptidase C19

Probab=99.80  E-value=1.2e-19  Score=135.38  Aligned_cols=60  Identities=33%  Similarity=0.624  Sum_probs=55.1

Q ss_pred             CCCcceEEeEEEEEeeCCCCCceEEEEEEc-----------------------CCeEEEEcCCeeeEeCcccccCCCcEE
Q psy4215          16 KNKRQFRFDNLLKASTIGVHSGHYTAYAIH-----------------------EAQWWHFDDSTVMPVDIPALKKCKPYI   72 (103)
Q Consensus        16 ~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~-----------------------~~~W~~~dD~~V~~~~~~~v~~~~aYi   72 (103)
                      .....|+|+|||+|.| +.++|||++|+|.                       ++.|++|||+.|++++.++|...+|||
T Consensus       197 ~~~~~Y~L~~vi~H~G-~~~~GHY~a~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~W~~~dD~~V~~v~~~~v~~~~aYi  275 (279)
T cd02667         197 KSSVLYRLYGVVEHSG-TMRSGHYVAYVKVRPPQQRLSDLTKSKPAADEAGPGSGQWYYISDSDVREVSLEEVLKSEAYL  275 (279)
T ss_pred             CCCceEEEEEEEEEeC-CCCCCEeEEEEEcCccccccccccccccccccCCCCCCcEEEEECCccEECCHHHhccCCcEE
Confidence            3467899999999999 5599999999997                       479999999999999999999999999


Q ss_pred             EEEE
Q psy4215          73 LFYV   76 (103)
Q Consensus        73 LfY~   76 (103)
                      |||+
T Consensus       276 LfYe  279 (279)
T cd02667         276 LFYE  279 (279)
T ss_pred             EEeC
Confidence            9995

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>cd02663 Peptidase_C19G A subfamily of Peptidase C19

Probab=99.80  E-value=1.4e-19  Score=136.07  Aligned_cols=59  Identities=29%  Similarity=0.552  Sum_probs=54.5

Q ss_pred             CcceEEeEEEEEeeCCCCCceEEEEEEcCCeEEEEcCCeeeEeCccccc--------CCCcEEEEEE
Q psy4215          18 KRQFRFDNLLKASTIGVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALK--------KCKPYILFYV   76 (103)
Q Consensus        18 ~~~Y~L~avv~H~G~~~~~GHY~~~~~~~~~W~~~dD~~V~~~~~~~v~--------~~~aYiLfY~   76 (103)
                      ...|+|+|||+|.|.++++|||++++|.++.|++|||+.|++++.++|.        ..+||||||+
T Consensus       234 ~~~Y~L~~vi~H~G~~~~~GHY~a~~k~~~~W~~fdD~~V~~~~~~~v~~~~~~~~~~~~aYiLfY~  300 (300)
T cd02663         234 DRLYELVAVVVHIGGGPNHGHYVSIVKSHGGWLLFDDETVEKIDENAVEEFFGDSPNQATAYVLFYQ  300 (300)
T ss_pred             CeEEEEEEEEEEecCCCCCCceEEEEECCCcEEEEcCCceEEcCHHHHHHhcCCCCCCCceEEEEeC
Confidence            4689999999999966899999999999999999999999999998886        5779999995

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>cd02673 Peptidase_C19Q A subfamily of Peptidase C19

Probab=99.79  E-value=1.8e-19  Score=133.60  Aligned_cols=60  Identities=20%  Similarity=0.452  Sum_probs=54.7

Q ss_pred             CCcceEEeEEEEEeeCCCCCceEEEEEEc---CCeEEEEcCCeeeEeCccccc---CCCcEEEEEE
Q psy4215          17 NKRQFRFDNLLKASTIGVHSGHYTAYAIH---EAQWWHFDDSTVMPVDIPALK---KCKPYILFYV   76 (103)
Q Consensus        17 ~~~~Y~L~avv~H~G~~~~~GHY~~~~~~---~~~W~~~dD~~V~~~~~~~v~---~~~aYiLfY~   76 (103)
                      ....|+|+|||+|.|.++++|||++|+|.   +++||+|||+.|++++.++|.   ..+||||||+
T Consensus       180 ~~~~Y~L~~VV~H~G~~~~~GHY~a~vk~~~~~~~Wy~fnD~~V~~v~~~~v~~~~~~~aYiLFY~  245 (245)
T cd02673         180 TDAKYSLVAVICHLGESPYDGHYIAYTKELYNGSSWLYCSDDEIRPVSKNDVSTNARSSGYLIFYD  245 (245)
T ss_pred             CCceEEEEEEEEECCCCCCCceEEEEEEcCCCCCeEEEeeCceeeEcCHHHHhhccCCceEEEEEC
Confidence            45679999999999976899999999998   579999999999999999997   5789999995

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>cd02664 Peptidase_C19H A subfamily of Peptidase C19

Probab=99.79  E-value=1.1e-19  Score=138.44  Aligned_cols=59  Identities=32%  Similarity=0.621  Sum_probs=54.1

Q ss_pred             CcceEEeEEEEEeeCCCCCceEEEEEEc-C---------------------CeEEEEcCCeeeEeCcccccC-------C
Q psy4215          18 KRQFRFDNLLKASTIGVHSGHYTAYAIH-E---------------------AQWWHFDDSTVMPVDIPALKK-------C   68 (103)
Q Consensus        18 ~~~Y~L~avv~H~G~~~~~GHY~~~~~~-~---------------------~~W~~~dD~~V~~~~~~~v~~-------~   68 (103)
                      ...|+|+|||+|.|.++++|||++|+|. .                     +.|++|||+.|++++.++|.+       .
T Consensus       240 ~~~Y~L~~Vi~H~G~~~~~GHY~a~~r~~~~~~~~~~~~~~~~~~~~~~~~~~W~~fnD~~V~~~~~~~v~~~~~~~~~~  319 (327)
T cd02664         240 QVHYRLYAVVVHSGYSSESGHYFTYARDQTDADSTGQECPEPKDAEENDESKNWYLFNDSRVTFSSFESVQNVTSRFPKD  319 (327)
T ss_pred             CceEEEEEEEEEccCCCCCcceEEEEecCCccccccccccccccccccCCCCCEEEEeCCceEECCHHHHHHhhCCCCCC
Confidence            4689999999999976899999999997 4                     789999999999999999876       7


Q ss_pred             CcEEEEEE
Q psy4215          69 KPYILFYV   76 (103)
Q Consensus        69 ~aYiLfY~   76 (103)
                      .||||||+
T Consensus       320 ~aYlLfY~  327 (327)
T cd02664         320 TPYILFYE  327 (327)
T ss_pred             CEEEEEeC
Confidence            89999995

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>cd02657 Peptidase_C19A A subfamily of Peptidase C19

Probab=99.78  E-value=2.8e-19  Score=133.79  Aligned_cols=60  Identities=27%  Similarity=0.495  Sum_probs=54.8

Q ss_pred             CCcceEEeEEEEEeeCCCCCceEEEEEEcC--CeEEEEcCCeeeEeCcccccC-------CCcEEEEEE
Q psy4215          17 NKRQFRFDNLLKASTIGVHSGHYTAYAIHE--AQWWHFDDSTVMPVDIPALKK-------CKPYILFYV   76 (103)
Q Consensus        17 ~~~~Y~L~avv~H~G~~~~~GHY~~~~~~~--~~W~~~dD~~V~~~~~~~v~~-------~~aYiLfY~   76 (103)
                      ++.+|+|+|||+|.|.++++|||++|+|..  +.|++|||+.|+++++++|..       ..||||||+
T Consensus       237 ~~~~Y~L~~vI~H~G~~~~~GHY~~~~~~~~~~~W~~fdD~~V~~~~~~~v~~~~~~~~~~~aYiL~Y~  305 (305)
T cd02657         237 PSGYYELVAVITHQGRSADSGHYVAWVRRKNDGKWIKFDDDKVSEVTEEDILKLSGGGDWHIAYILLYK  305 (305)
T ss_pred             CCCcEEEEEEEEecCCCCCCcEEEEEEEcCCCCeEEEEECCceEEeCHHHHHhhcCCCCCceEEEEEEC
Confidence            457899999999999778999999999994  899999999999999999975       579999996

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>cd02658 Peptidase_C19B A subfamily of Peptidase C19

Probab=99.78  E-value=3.3e-19  Score=133.85  Aligned_cols=60  Identities=30%  Similarity=0.517  Sum_probs=55.9

Q ss_pred             CCcceEEeEEEEEeeCCCCCceEEEEEEcC----CeEEEEcCCeeeEeCcccccCCCcEEEEEE
Q psy4215          17 NKRQFRFDNLLKASTIGVHSGHYTAYAIHE----AQWWHFDDSTVMPVDIPALKKCKPYILFYV   76 (103)
Q Consensus        17 ~~~~Y~L~avv~H~G~~~~~GHY~~~~~~~----~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~   76 (103)
                      ....|+|+|||+|.|.++++|||++++|..    ++|++|||+.|++++..++...+||||||+
T Consensus       248 ~~~~Y~L~~vI~H~G~~~~~GHY~~~vk~~~~~~~~W~~fnD~~V~~~~~~~~~~~~~YilfY~  311 (311)
T cd02658         248 GPGKYELIAFISHKGTSVHSGHYVAHIKKEIDGEGKWVLFNDEKVVASQDPPEMKKLGYIYFYQ  311 (311)
T ss_pred             CCCcEEEEEEEEccCCCCCCcceEEEEeCCCCCCCCEEEecCceeEECCcccccCCcceEEEEC
Confidence            456899999999999769999999999995    899999999999999999999999999995

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>cd02662 Peptidase_C19F A subfamily of Peptidase C19

Probab=99.78  E-value=3.7e-19  Score=130.49  Aligned_cols=59  Identities=29%  Similarity=0.593  Sum_probs=54.8

Q ss_pred             CCcceEEeEEEEEeeCCCCCceEEEEEEcC----------------------CeEEEEcCCeeeEeCcccc-cCCCcEEE
Q psy4215          17 NKRQFRFDNLLKASTIGVHSGHYTAYAIHE----------------------AQWWHFDDSTVMPVDIPAL-KKCKPYIL   73 (103)
Q Consensus        17 ~~~~Y~L~avv~H~G~~~~~GHY~~~~~~~----------------------~~W~~~dD~~V~~~~~~~v-~~~~aYiL   73 (103)
                      +...|+|+|||+|.| +.++|||++|+|..                      +.||+|||+.|++++.++| ...+||||
T Consensus       159 ~~~~Y~L~avi~H~G-~~~~GHY~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~W~~fnD~~V~~v~~~~v~~~~~aY~L  237 (240)
T cd02662         159 PKVLYRLRAVVVHYG-SHSSGHYVCYRRKPLFSKDKEPGSFVRMREGPSSTSHPWWRISDTTVKEVSESEVLEQKSAYML  237 (240)
T ss_pred             CCceEEEEEEEEEec-cCCCceEEEEEeCCCcccccccccccccccccCccCCCEEEEechheEEeCHHHHhhCCCEEEE
Confidence            567899999999999 56999999999985                      8999999999999999999 89999999


Q ss_pred             EEE
Q psy4215          74 FYV   76 (103)
Q Consensus        74 fY~   76 (103)
                      ||+
T Consensus       238 fYe  240 (240)
T cd02662         238 FYE  240 (240)
T ss_pred             EeC
Confidence            995

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>cd02659 peptidase_C19C A subfamily of Peptidase C19

Probab=99.77  E-value=8.7e-19  Score=132.36  Aligned_cols=63  Identities=29%  Similarity=0.663  Sum_probs=55.9

Q ss_pred             CCCcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCccccc----------------------CCCcE
Q psy4215          16 KNKRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALK----------------------KCKPY   71 (103)
Q Consensus        16 ~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~----------------------~~~aY   71 (103)
                      .....|+|+|||+|.| +.++|||++++|.  ++.|++|||+.|++++.++|.                      ...||
T Consensus       247 ~~~~~Y~L~~vI~H~G-~~~~GHY~~~vk~~~~~~W~~~nD~~V~~i~~~~v~~~~~g~~~~~~~~~~~~~~~~~~~~ay  325 (334)
T cd02659         247 SESYIYELHGVLVHSG-DAHGGHYYSYIKDRDDGKWYKFNDDVVTPFDPNDAEEECFGGEETQKTYDSGPRAFKRTTNAY  325 (334)
T ss_pred             CCCeeEEEEEEEEecC-CCCCCCeEEEEECCCCCceEEEeCcccEECCHHHHHHHcCCCccccccccccccccccccceE
Confidence            3457899999999999 7899999999998  589999999999999988884                      34599


Q ss_pred             EEEEEecC
Q psy4215          72 ILFYVRRV   79 (103)
Q Consensus        72 iLfY~r~~   79 (103)
                      ||||+|++
T Consensus       326 ~l~Y~~~~  333 (334)
T cd02659         326 MLFYERKS  333 (334)
T ss_pred             EEEEEEeC
Confidence            99999975

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>cd02661 Peptidase_C19E A subfamily of Peptidase C19

Probab=99.77  E-value=1.1e-18  Score=129.24  Aligned_cols=62  Identities=35%  Similarity=0.707  Sum_probs=57.2

Q ss_pred             CCCCcceEEeEEEEEeeCCCCCceEEEEEEc-CCeEEEEcCCeeeEeCcccccCCCcEEEEEE
Q psy4215          15 TKNKRQFRFDNLLKASTIGVHSGHYTAYAIH-EAQWWHFDDSTVMPVDIPALKKCKPYILFYV   76 (103)
Q Consensus        15 ~~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~-~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~   76 (103)
                      .....+|+|+|||+|.|..+++|||++++|. ++.|++|||..|++++.+++...+||||||.
T Consensus       242 ~~~~~~Y~L~~vi~H~G~~~~~GHY~~~~~~~~~~W~~~nD~~V~~v~~~~v~~~~aYil~Y~  304 (304)
T cd02661         242 NDGPLKYKLYAVLVHSGFSPHSGHYYCYVKSSNGKWYNMDDSKVSPVSIETVLSQKAYILFYI  304 (304)
T ss_pred             CCCCceeeEEEEEEECCCCCCCcCCEEEEECCCCCEEEEeCCeeEECCHHHhcCCCcEEEEeC
Confidence            4456789999999999966699999999998 8899999999999999999999999999994

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>PF00443 UCH: Ubiquitin carboxyl-terminal hydrolase; InterPro: IPR001394 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families

Probab=99.76  E-value=2.6e-18  Score=122.83  Aligned_cols=57  Identities=33%  Similarity=0.693  Sum_probs=53.5

Q ss_pred             CcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccC---CCcEEEEE
Q psy4215          18 KRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKK---CKPYILFY   75 (103)
Q Consensus        18 ~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~---~~aYiLfY   75 (103)
                      ...|+|+|||+|.| +.++|||++++|+  +++|++|||+.|++++.++|..   ..||||||
T Consensus       208 ~~~Y~L~avi~H~G-~~~~GHY~a~v~~~~~~~W~~~dD~~v~~~~~~~v~~~~~~~~yll~Y  269 (269)
T PF00443_consen  208 NVKYRLVAVIVHYG-SADSGHYVAYVRDSDDGKWYKFDDSRVTEVSWEEVIKSSNSTAYLLFY  269 (269)
T ss_dssp             SSEEEEEEEEEEES-STTSEEEEEEEEETTTTEEEEEETTEEEEESHHHHCCGGSTCEEEEEE
T ss_pred             cceeeehhhhcccc-ccccceEEEeeccccCCeEEEeeCCceEECCHHHHhhccCCceEEEeC
Confidence            47999999999999 8999999999988  4579999999999999999988   89999999

Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C19 (ubiquitin-specific protease family, clan CA). Families within the CA clan are loosely termed papain-like as protein fold of the peptidase unit resembles that of papain, the type example for clan CA. Predicted active site residues for members of this family and family C1 occur in the same order in the sequence: N/Q, C, H. The type example is human ubiquitin-specific protease 14. Ubiquitin is highly conserved, commonly found conjugated to proteins in eukaryotic cells, where it may act as a marker for rapid degradation, or it may have a chaperone function in protein assembly []. The ubiquitin is released by cleavage from the bound protein by a protease []. A number of deubiquitinising proteases are known: all are activated by thiol compounds [, ], and inhibited by thiol-blocking agents and ubiquitin aldehyde [, ], and as such have the properties of cysteine proteases []. The deubiquitinsing proteases can be split into 2 size ranges (20-30 kDa, IPR001578 from INTERPRO, and 100-200 kDa) []: this family are the 100-200 kDa peptides which includes the Ubp1 ubiquitin peptidase from yeast. Only one conserved cysteine can be identified, along with two conserved histidines. The spacing between the cysteine and the second histidine is thought to be more representative of the cysteine/histidine spacing of a cysteine protease catalytic dyad [].; GO: 0004221 ubiquitin thiolesterase activity, 0006511 ubiquitin-dependent protein catabolic process; PDB: 2LBC_A 3MHH_A 3MHS_A 3M99_A 2Y6E_D 2VHF_A 2HD5_A 3NHE_A 2IBI_A 1NBF_B ....

>cd02660 Peptidase_C19D A subfamily of Peptidase C19

Probab=99.76  E-value=1.8e-18  Score=130.35  Aligned_cols=61  Identities=28%  Similarity=0.600  Sum_probs=56.3

Q ss_pred             CCCCcceEEeEEEEEeeCCCCCceEEEEEEc-CCeEEEEcCCeeeEeCcccccCCCcEEEEEE
Q psy4215          15 TKNKRQFRFDNLLKASTIGVHSGHYTAYAIH-EAQWWHFDDSTVMPVDIPALKKCKPYILFYV   76 (103)
Q Consensus        15 ~~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~-~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~   76 (103)
                      .....+|+|+|||+|.| +.++|||++++|. +++|++|||+.|++++.+++...+||||||.
T Consensus       267 ~~~~~~Y~L~avi~H~G-~~~~GHY~~~~~~~~~~W~~~nD~~V~~~~~~~v~~~~ayil~Y~  328 (328)
T cd02660         267 LDPDYTYDLFAVVVHKG-TLDTGHYTAYCRQGDGQWFKFDDAMITRVSEEEVLKSQAYLLFYH  328 (328)
T ss_pred             CCCCceEEEEEEEEeec-cCCCCcEEEEEECCCCcEEEEECCeeEECCHHHhcCCCcEEEEeC
Confidence            34467899999999999 6889999999999 4999999999999999999999999999994

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>cd02665 Peptidase_C19I A subfamily of Peptidase C19

Probab=99.75  E-value=2.8e-18  Score=126.49  Aligned_cols=59  Identities=20%  Similarity=0.494  Sum_probs=52.7

Q ss_pred             CCcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccCC--------CcEEEEEE
Q psy4215          17 NKRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKKC--------KPYILFYV   76 (103)
Q Consensus        17 ~~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~~--------~aYiLfY~   76 (103)
                      ....|+|+|||+|.| ++++|||++|+|.  ++.|++|||+.|++++.++|...        +||||||.
T Consensus       160 ~~~~Y~L~aVi~H~G-~~~~GHY~~~i~~~~~~~W~~fdD~~V~~~~~~~v~~~~fGg~~~~~AYiLfYv  228 (228)
T cd02665         160 QQVPYELHAVLVHEG-QANAGHYWAYIYKQSRQEWEKYNDISVTESSWEEVERDSFGGGRNPSAYCLMYI  228 (228)
T ss_pred             CCceeEEEEEEEecC-CCCCCEEEEEEEcCCCCEEEEEECCeeEEcCHHHHhhhccCCCCCCceEEEEEC
Confidence            346899999999999 6899999999986  78999999999999999888643        69999994

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>cd02674 Peptidase_C19R A subfamily of peptidase C19

Probab=99.75  E-value=5.1e-18  Score=121.81  Aligned_cols=61  Identities=30%  Similarity=0.589  Sum_probs=55.5

Q ss_pred             CCCCcceEEeEEEEEeeCCCCCceEEEEEEcC--CeEEEEcCCeeeEeCcccccCCCcEEEEEE
Q psy4215          15 TKNKRQFRFDNLLKASTIGVHSGHYTAYAIHE--AQWWHFDDSTVMPVDIPALKKCKPYILFYV   76 (103)
Q Consensus        15 ~~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~~--~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~   76 (103)
                      .....+|+|+|||+|.|. .++|||++++|..  +.|++|||+.|.+++.+++...+||||||+
T Consensus       168 ~~~~~~Y~L~~vI~H~G~-~~~GHY~~~~~~~~~~~W~~fnD~~V~~i~~~~~~~~~~YlL~Y~  230 (230)
T cd02674         168 FTGPFKYDLYAVVNHYGS-LNGGHYTAYCKNNETNDWYKFDDSRVTKVSESSVVSSSAYILFYE  230 (230)
T ss_pred             CCCCceEEEEEEEEeeCC-CCCcEEEEEEECCCCCceEEEcCCeEEEcCHHHccCCCceEEEeC
Confidence            345678999999999994 5999999999993  899999999999999999989999999995

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>cd02668 Peptidase_C19L A subfamily of Peptidase C19

Probab=99.75  E-value=3e-18  Score=130.01  Aligned_cols=61  Identities=23%  Similarity=0.465  Sum_probs=52.9

Q ss_pred             CCCcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccc---------------------cCCCcEE
Q psy4215          16 KNKRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPAL---------------------KKCKPYI   72 (103)
Q Consensus        16 ~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v---------------------~~~~aYi   72 (103)
                      .++..|+|+|||+|.|.++++|||++++|.  ++.|++|||+.|++++.+.+                     .+..|||
T Consensus       241 ~~~~~Y~L~~vI~H~G~~~~~GHY~~~~k~~~~~~W~~fdD~~V~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~  320 (324)
T cd02668         241 EGSYVYELSGVLIHQGVSAYSGHYIAHIKDEQTGEWYKFNDEDVEEMPGKPLKLGNSEDPAKPRKSEIKKGTHSSRTAYM  320 (324)
T ss_pred             CCCcEEEEEEEEEEcCCCCCCEeeEEEEECCCCCcEEEEECCceEEcCHHHhhcccccccccccccccCCCccccCceEE
Confidence            346789999999999977899999999998  58999999999999987765                     2445999


Q ss_pred             EEEE
Q psy4215          73 LFYV   76 (103)
Q Consensus        73 LfY~   76 (103)
                      |||+
T Consensus       321 l~y~  324 (324)
T cd02668         321 LVYK  324 (324)
T ss_pred             EEeC
Confidence            9995

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>cd02669 Peptidase_C19M A subfamily of Peptidase C19

Probab=99.74  E-value=3.6e-18  Score=135.29  Aligned_cols=61  Identities=13%  Similarity=0.230  Sum_probs=56.0

Q ss_pred             CCCcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccCCCcEEEEEE
Q psy4215          16 KNKRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKKCKPYILFYV   76 (103)
Q Consensus        16 ~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~   76 (103)
                      .....|+|+|||+|.|..+++|||++++|+  +++||+|||+.|++++++.|...+||||||+
T Consensus       378 ~~~~~Y~L~avI~H~G~~~~sGHY~a~v~~~~~~~W~~fdD~~V~~v~~~~v~~~eaYll~Y~  440 (440)
T cd02669         378 NLSTKYNLVANIVHEGTPQEDGTWRVQLRHKSTNKWFEIQDLNVKEVLPQLIFLSESYIQIWE  440 (440)
T ss_pred             CCCceEEEEEEEEEeccCCCCeeEEEEEEcCCCCeEEEEECCeeeEcCHHHhccCCceEEEeC
Confidence            456789999999999943499999999997  7899999999999999999999999999995

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>cd02670 Peptidase_C19N A subfamily of Peptidase C19

Probab=99.74  E-value=5.1e-18  Score=126.02  Aligned_cols=60  Identities=28%  Similarity=0.413  Sum_probs=51.2

Q ss_pred             CCcceEEeEEEEEeeCCCCCceEEEEEEc-C------------CeEEEEcCCeeeEeCc------ccccCCCcEEEEEE
Q psy4215          17 NKRQFRFDNLLKASTIGVHSGHYTAYAIH-E------------AQWWHFDDSTVMPVDI------PALKKCKPYILFYV   76 (103)
Q Consensus        17 ~~~~Y~L~avv~H~G~~~~~GHY~~~~~~-~------------~~W~~~dD~~V~~~~~------~~v~~~~aYiLfY~   76 (103)
                      ...+|+|+|||+|.|.++++|||+||+|. .            +.|++|||..|+.+..      +.+.+.+||||||+
T Consensus       163 ~~~~Y~L~aVi~H~G~s~~sGHYva~vr~~~~~~~~~~~~~~~~~W~~FDD~~v~~~~~~~~~~~~~~~~~~aYmLFYq  241 (241)
T cd02670         163 GKFKLSLCSAVCHRGTSLETGHYVAFVRYGSYSLTETDNEAYNAQWVFFDDMADRDGVSNGFNIPAARLLEDPYMLFYQ  241 (241)
T ss_pred             CCeEEEEEEEEEeCCCCCCCcCeEEEEECCcccccccccCCCCCeEEEecCcccccccccccccchhcccCCceEEEeC
Confidence            34689999999999977899999999998 3            6999999998877643      25678889999996

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>cd02257 Peptidase_C19 Peptidase C19 contains ubiquitinyl hydrolases

Probab=99.72  E-value=1.4e-17  Score=117.02  Aligned_cols=63  Identities=27%  Similarity=0.564  Sum_probs=56.0

Q ss_pred             CCCCCcceEEeEEEEEeeCCCCCceEEEEEEcC--CeEEEEcCCeeeEeCcccc-----cCCCcEEEEEE
Q psy4215          14 DTKNKRQFRFDNLLKASTIGVHSGHYTAYAIHE--AQWWHFDDSTVMPVDIPAL-----KKCKPYILFYV   76 (103)
Q Consensus        14 ~~~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~~--~~W~~~dD~~V~~~~~~~v-----~~~~aYiLfY~   76 (103)
                      .......|+|+|||+|.|.+..+|||++++|..  +.|++|||..|++++.+++     ....||+|||+
T Consensus       186 ~~~~~~~Y~L~~vi~h~G~~~~~GHY~~~~~~~~~~~W~~~nD~~V~~v~~~~~~~~~~~~~~~yll~Y~  255 (255)
T cd02257         186 SDNGSYKYELVAVVVHSGTSADSGHYVAYVKDPSDGKWYKFNDDKVTEVSEEEVLEFGSLSSSAYILFYE  255 (255)
T ss_pred             ccCCCccEEEEEEEEEecCCCCCcCeEEEEeCCCCCceEEEeccccEEcCHHHhhhccCCCCceEEEEEC
Confidence            334567899999999999666999999999993  8999999999999999998     57789999995

They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>KOG1867|consensus

Probab=99.71  E-value=6.7e-18  Score=135.85  Aligned_cols=64  Identities=30%  Similarity=0.546  Sum_probs=59.9

Q ss_pred             CCcceEEeEEEEEeeCCCCCceEEEEEEcCCeEEEEcCCeeeEeCcccccCCCcEEEEEEecCCc
Q psy4215          17 NKRQFRFDNLLKASTIGVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRRVPE   81 (103)
Q Consensus        17 ~~~~Y~L~avv~H~G~~~~~GHY~~~~~~~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~r~~~~   81 (103)
                      ++..|+|.|||+|+| ..++|||+||+|..+.|++|||+.|..++.++|.+..||+|||.++...
T Consensus       424 ~~~~Y~L~AVV~H~G-~~~SGHY~aY~r~~~~~~~~dDs~v~~~s~~eVl~~~aylLFY~~~~~~  487 (492)
T KOG1867|consen  424 PDHLYELRAVVVHHG-TVGSGHYVAYRRQSGGWFKCDDSTVTKVSEEEVLSSQAYLLFYTQEQVE  487 (492)
T ss_pred             CCceEEEEEEEEecc-CCCCCceEEEEEeCCCcEEEcCeEEEEeeHHHhhhchhhheehhHHhhh
Confidence            468899999999999 5999999999999999999999999999999999999999999887644

>cd02671 Peptidase_C19O A subfamily of Peptidase C19

Probab=99.70  E-value=3.9e-17  Score=125.54  Aligned_cols=56  Identities=36%  Similarity=0.644  Sum_probs=49.5

Q ss_pred             CCcceEEeEEEEEeeCCCCCceEEEEEEcCCeEEEEcCCeeeEeCccccc---------CCCcEEEEEE
Q psy4215          17 NKRQFRFDNLLKASTIGVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALK---------KCKPYILFYV   76 (103)
Q Consensus        17 ~~~~Y~L~avv~H~G~~~~~GHY~~~~~~~~~W~~~dD~~V~~~~~~~v~---------~~~aYiLfY~   76 (103)
                      ....|+|+|||+|.|.++++|||++|+|    |++|||+.|+.++++++.         ..+||||||+
T Consensus       268 ~~~~Y~L~~VI~H~G~~~~~GHY~a~vr----W~~fdD~~V~~~~~~~~~~~~~~~~~~~~~aYiLfY~  332 (332)
T cd02671         268 KNDVYRLFAVVMHSGATISSGHYTAYVR----WLLFDDSEVKVTEEKDFLEALSPNTSSTSTPYLLFYK  332 (332)
T ss_pred             CCCeEEEEEEEEEcCCCCCCCeEEEEEE----EEEEcCcceEEccHHHHHhhcCCCCCCCCceEEEEEC
Confidence            4578999999999997689999999999    999999999999876664         3579999995

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>COG5560 UBP12 Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]

Probab=99.69  E-value=3.4e-17  Score=133.89  Aligned_cols=75  Identities=32%  Similarity=0.540  Sum_probs=66.9

Q ss_pred             CCCCceeeeeeCCCCCcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccCCCcEEEEEEecC
Q psy4215           3 DGDKRRYTYVNDTKNKRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKKCKPYILFYVRRV   79 (103)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~r~~   79 (103)
                      |.|..+|.++-.+.. ..|+|+||=+|.| ...+|||+||+|+  +++||+|||+.|+++++++.....||+|||+|+.
T Consensus       747 dldLs~~~~~~~~p~-liydlyavDNHyg-glsgGHYtAyarn~~n~~wy~fdDsritevdped~vtssaYvLFyrrk~  823 (823)
T COG5560         747 DLDLSGVEYMVDDPR-LIYDLYAVDNHYG-GLSGGHYTAYARNFANNGWYLFDDSRITEVDPEDSVTSSAYVLFYRRKS  823 (823)
T ss_pred             cccccceEEeecCcc-eEEEeeecccccc-ccCCcceeeeeecccCCceEEecCccccccCccccccceeEEEEEEecC
Confidence            566777777664333 8999999999999 8999999999999  8899999999999999999999999999999974

>KOG1868|consensus

Probab=99.67  E-value=8.9e-17  Score=132.61  Aligned_cols=63  Identities=35%  Similarity=0.658  Sum_probs=58.2

Q ss_pred             CcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccCCCcEEEEEEecCCc
Q psy4215          18 KRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKKCKPYILFYVRRVPE   81 (103)
Q Consensus        18 ~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~r~~~~   81 (103)
                      ...|+|+|||+|.| +.++|||||+|+.  .+.|++|||+.|+.++...+....||||||.|....
T Consensus       585 ~~~Y~L~aVv~H~G-tl~sGHYta~~~~~~~~~W~~fdDs~Vs~~~~~~~~~s~aYIlFY~~~~~~  649 (653)
T KOG1868|consen  585 PKSYRLYAVVNHSG-TLNSGHYTAYVYKNEKQRWFTFDDSEVSPISETDVGSSSAYILFYERLGIF  649 (653)
T ss_pred             ccceeeEEEEeccC-cccCCceEEEEeecCCCceEEecCeeeeccccccccCCCceEEEeecCCcc
Confidence            34599999999999 9999999999977  688999999999999999999899999999998765

>cd02672 Peptidase_C19P A subfamily of Peptidase C19

Probab=99.66  E-value=2.7e-16  Score=117.96  Aligned_cols=54  Identities=22%  Similarity=0.457  Sum_probs=48.7

Q ss_pred             CCcceEEeEEEEEeeCCCCCceEEEEEEc------CCeEEEEcCCeeeEeCcccccCCCcEEEEEE
Q psy4215          17 NKRQFRFDNLLKASTIGVHSGHYTAYAIH------EAQWWHFDDSTVMPVDIPALKKCKPYILFYV   76 (103)
Q Consensus        17 ~~~~Y~L~avv~H~G~~~~~GHY~~~~~~------~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~   76 (103)
                      +...|+|+|||+|.|.+.++|||++++|.      .++||.|||..|+++++      .||||||+
T Consensus       209 ~~~~Y~L~gvV~hig~~~~~GHyva~vk~~~~~~~~~~WylFND~~V~~vs~------~aYiLfY~  268 (268)
T cd02672         209 SIYKYELVGYVCEINDSSRGQHNVVFVIKVNEESTHGRWYLFNDFLVTPVSE------LAYILLYQ  268 (268)
T ss_pred             CCceEEEEEEEEEecCCCCCCcEEEEEEccCCCCCCCcEEEecCeEEEEcCc------hheeeecC
Confidence            44679999999999965689999999998      47899999999999888      99999995

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>KOG1870|consensus

Probab=99.61  E-value=4.1e-16  Score=131.93  Aligned_cols=60  Identities=33%  Similarity=0.584  Sum_probs=57.8

Q ss_pred             cceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccCCCcEEEEEEecC
Q psy4215          19 RQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKKCKPYILFYVRRV   79 (103)
Q Consensus        19 ~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~r~~   79 (103)
                      ..|+|+||++|.| .+.+|||+||+|+  +++|+.|||+.|.+++++++.+..||+|||+|++
T Consensus       781 ~~Y~l~av~nHyG-~l~~GHYta~~k~~~~~~w~~fdDs~v~~~~~~~i~t~~aY~Lfy~r~~  842 (842)
T KOG1870|consen  781 VLYDLYAVGNHYG-QLSGGHYTAYAKNVGDGKWYLFDDSSVSEVDEDEIDTEAAYVLFYRRLD  842 (842)
T ss_pred             ceeeeeeeecccC-CcCCcchhhhhhcCCCCceEEeccccCCCCChhhcccccceEEEEEecC
Confidence            8999999999999 6999999999999  8899999999999999999999999999999974

>cd02666 Peptidase_C19J A subfamily of Peptidase C19

Probab=99.58  E-value=5.6e-15  Score=114.35  Aligned_cols=60  Identities=28%  Similarity=0.509  Sum_probs=53.5

Q ss_pred             CCCcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccCC------CcEEEEEE
Q psy4215          16 KNKRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKKC------KPYILFYV   76 (103)
Q Consensus        16 ~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~~------~aYiLfY~   76 (103)
                      .....|+|+|||+|.| +.++|||++++|.  ++.|++|||+.|++++.+++...      +||||+|+
T Consensus       276 ~~~~~Y~L~avv~H~G-~~~~GHY~~~~~~~~~~~W~~~dD~~V~~v~~~ev~~~~~~~~~~pY~l~Yv  343 (343)
T cd02666         276 LKSYGYRLHAVFIHRG-EASSGHYWVYIKDFEENVWRKYNDETVTVVPASEVFLFTLGNTATPYFLVYV  343 (343)
T ss_pred             cCCCceEEEEEEEeec-CCCCCeEEEEEEECCCCeEEEEECCeeEEecHHHHhhcccCCCCCCEEEEeC
Confidence            3467899999999999 6799999999998  68999999999999999888753      69999995

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>COG5533 UBP5 Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]

Probab=99.57  E-value=5.4e-15  Score=113.48  Aligned_cols=60  Identities=25%  Similarity=0.435  Sum_probs=53.4

Q ss_pred             CcceEEeEEEEEeeCCCCCceEEEEEEcCCeEEEEcCCeeeEeCc-ccccCCCcEEEEEEec
Q psy4215          18 KRQFRFDNLLKASTIGVHSGHYTAYAIHEAQWWHFDDSTVMPVDI-PALKKCKPYILFYVRR   78 (103)
Q Consensus        18 ~~~Y~L~avv~H~G~~~~~GHY~~~~~~~~~W~~~dD~~V~~~~~-~~v~~~~aYiLfY~r~   78 (103)
                      +.+|+|.|||||.| ++++|||+++|+.++.|+.|||+.|+++.- .+....++|||||+|.
T Consensus       354 P~~Y~L~gv~Ch~G-~L~gGHY~s~v~~~~~W~~~dDs~vr~~~~~t~~~~pSsYilFY~r~  414 (415)
T COG5533         354 PRKYSLLGVVCHNG-TLNGGHYFSEVKRSGTWNVYDDSQVRKGSRTTSGSHPSSYILFYTRS  414 (415)
T ss_pred             ccceeEEEEEeecc-eecCceeEEeeeecCceEEechhheeeccceecccCCcceEEEEEec
Confidence            47899999999999 899999999999999999999999999874 3344568999999985

>KOG1866|consensus

Probab=99.55  E-value=1.4e-15  Score=126.09  Aligned_cols=74  Identities=20%  Similarity=0.463  Sum_probs=60.8

Q ss_pred             eeCCCCCcceEEeEEEEEeeCCCCCceEEEEEEc-----CCeEEEEcCCeeeEeCcccccCC------------------
Q psy4215          12 VNDTKNKRQFRFDNLLKASTIGVHSGHYTAYAIH-----EAQWWHFDDSTVMPVDIPALKKC------------------   68 (103)
Q Consensus        12 ~~~~~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~-----~~~W~~~dD~~V~~~~~~~v~~~------------------   68 (103)
                      ...+....+|+|+||++|+| .+.+|||++|++.     +++||+|||..|++++-.++...                  
T Consensus       344 ~e~s~~t~~YeLvGVlvHSG-qAsaGHYySfIk~rr~~~~~kWykfnD~~Vte~~~n~me~~cfGGey~q~~~~~~~rrR  422 (944)
T KOG1866|consen  344 LEQSAGTTKYELVGVLVHSG-QASAGHYYSFIKQRRGEDGNKWYKFNDGDVTECKMNEMENECFGGEYMQMMKRMSYRRR  422 (944)
T ss_pred             cccccCcceeEEEEEEEecc-cccCcchhhhhhhhccCCCCceEeccCccccccchhhHHHHhhcchhhhcccccchHHH
Confidence            34445567999999999999 7999999999976     67999999999999987765432                  


Q ss_pred             --CcEEEEEEecCCcccccc
Q psy4215          69 --KPYILFYVRRVPEVTKKL   86 (103)
Q Consensus        69 --~aYiLfY~r~~~~~~~~~   86 (103)
                        +||||||+|.+..+....
T Consensus       423 ~WNAYmlFYer~~d~p~~~~  442 (944)
T KOG1866|consen  423 WWNAYMLFYERMDDIPTDDE  442 (944)
T ss_pred             hhhhHHHHHHHhcCCCcccc
Confidence              299999999987765443

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

Probab=99.46  E-value=2.7e-14  Score=119.00  Aligned_cols=63  Identities=25%  Similarity=0.500  Sum_probs=57.4

Q ss_pred             CcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccCCC----------------------cEEE
Q psy4215          18 KRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKKCK----------------------PYIL   73 (103)
Q Consensus        18 ~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~~~----------------------aYiL   73 (103)
                      +..|.|+||++|.| .++.|||+|++|.  +|.||+|||+.|+++...+|...+                      ||||
T Consensus       428 d~vY~LygVlVHsG-Dl~~GHyYallKpe~dg~WykfdDtrVtrat~kevleeNfGgd~~~~~k~r~~~~~kRfmsAYmL  506 (1089)
T COG5077         428 DAVYVLYGVLVHSG-DLHEGHYYALLKPEKDGRWYKFDDTRVTRATEKEVLEENFGGDHPYKDKIRDHSGIKRFMSAYML  506 (1089)
T ss_pred             CcEEEEEEEEEecc-ccCCceEEEEeccccCCCceeecceehhhHHHHHHHHHhcCCCCCCcccccCCchhhhhhhhhee
Confidence            47899999999999 8999999999995  999999999999999988887554                      8999


Q ss_pred             EEEecCCc
Q psy4215          74 FYVRRVPE   81 (103)
Q Consensus        74 fY~r~~~~   81 (103)
                      +|.|++..
T Consensus       507 vYlRks~~  514 (1089)
T COG5077         507 VYLRKSML  514 (1089)
T ss_pred             eeehHhHH
Confidence            99999875

>KOG0944|consensus

Probab=99.44  E-value=1.8e-13  Score=112.58  Aligned_cols=61  Identities=23%  Similarity=0.409  Sum_probs=53.8

Q ss_pred             CCCcceEEeEEEEEeeCCCCCceEEEEEEcCCeEEEEcCCeeeEeCcccccCCCcEEEEEEec
Q psy4215          16 KNKRQFRFDNLLKASTIGVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR   78 (103)
Q Consensus        16 ~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~r~   78 (103)
                      .++.+|.|+|+|+|.|.++++|||++++|+.|+|+.|||++|-  ..++--+..+||.||+|.
T Consensus       702 dg~~~Y~L~a~IsHmGts~~sGHYV~hirKegkWVlfNDeKv~--~S~~ppK~lgYvY~y~R~  762 (763)
T KOG0944|consen  702 DGPGKYALFAFISHMGTSAHSGHYVCHIRKEGKWVLFNDEKVA--ASQEPPKDLGYVYLYTRI  762 (763)
T ss_pred             CCCcceeEEEEEecCCCCCCCcceEEEEeecCcEEEEcchhhh--hccCChhhcceEEEEEec
Confidence            4467899999999999999999999999999999999999987  344455678999999995

>KOG1864|consensus

Probab=99.42  E-value=2.8e-13  Score=111.11  Aligned_cols=77  Identities=25%  Similarity=0.385  Sum_probs=61.8

Q ss_pred             CCCCceeeeeeCCCCC-cceEEeEEEEEeeCCCCCceEEEEEEcCCe-EEEEcCCeeeEeCcccccCC---CcEEEEEEe
Q psy4215           3 DGDKRRYTYVNDTKNK-RQFRFDNLLKASTIGVHSGHYTAYAIHEAQ-WWHFDDSTVMPVDIPALKKC---KPYILFYVR   77 (103)
Q Consensus         3 ~~~~~~~~~~~~~~~~-~~Y~L~avv~H~G~~~~~GHY~~~~~~~~~-W~~~dD~~V~~~~~~~v~~~---~aYiLfY~r   77 (103)
                      .++.+.+....+...+ ..|+|+|||+|.|.+++.|||+|++|..+. |+.|||+.|..++.+.|...   +.|+++|..
T Consensus       492 plel~l~~~~~~~~~~~~~Y~L~avVvH~G~~p~~GHYia~~r~~~~nWl~fdD~~V~~~s~~~v~~~~~~s~~~~~~~~  571 (587)
T KOG1864|consen  492 PLELRLKDTLKDDNNPDRKYDLVAVVVHLGSTPNRGHYVAYVKSLDFNWLLFDDDNVEPISEEPVSEFTGSSGDTLFYYV  571 (587)
T ss_pred             ccceeeccccccccCccceeeEEEEEEeccCCCCCcceEEEEeeCCCCceecccccccccCcchhhhccCCCccceeeeE
Confidence            3455566666666654 789999999999999999999999999554 99999999999998888644   477777765


Q ss_pred             cC
Q psy4215          78 RV   79 (103)
Q Consensus        78 ~~   79 (103)
                      ..
T Consensus       572 ~~  573 (587)
T KOG1864|consen  572 QV  573 (587)
T ss_pred             Ee
Confidence            44

>KOG4598|consensus

Probab=99.35  E-value=1.3e-13  Score=114.47  Aligned_cols=67  Identities=25%  Similarity=0.492  Sum_probs=59.0

Q ss_pred             CCCCcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccCC-------------CcEEEEEEecC
Q psy4215          15 TKNKRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKKC-------------KPYILFYVRRV   79 (103)
Q Consensus        15 ~~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~~-------------~aYiLfY~r~~   79 (103)
                      ..++..|+|++|.+|+| ++.+|||++|+|+  ++.||.|||.+|..+.+.+++..             +||||+|+|.+
T Consensus       364 ~sg~~~yelf~imihsg-~a~gghy~ayik~~d~~~w~~fnd~~v~~~t~~~i~~sfgg~~~~~~~s~tnaymlmyr~id  442 (1203)
T KOG4598|consen  364 TSGDNVYELFSVMVHSG-NAAGGHYFAYIKNLDQDRWYVFNDTRVDFATPLEIEKSFGGHPSGWNQSNTNAYMLMYRRID  442 (1203)
T ss_pred             cCCccHHHhhhhheecC-CCCCceeeeeecccCcCceEEecCccccccCHHHHHHhhCCCCCCccccCcchhhhhhhhcC
Confidence            34567899999999999 8999999999999  88999999999999998888633             49999999988


Q ss_pred             Ccc
Q psy4215          80 PEV   82 (103)
Q Consensus        80 ~~~   82 (103)
                      ...
T Consensus       443 ~kr  445 (1203)
T KOG4598|consen  443 PKR  445 (1203)
T ss_pred             ccc
Confidence            754

>KOG1873|consensus

Probab=99.35  E-value=1.2e-13  Score=114.74  Aligned_cols=60  Identities=30%  Similarity=0.585  Sum_probs=55.6

Q ss_pred             CcceEEeEEEEEeeCCCCCceEEEEEEc----------------------CCeEEEEcCCeeeEeCcccccCCCcEEEEE
Q psy4215          18 KRQFRFDNLLKASTIGVHSGHYTAYAIH----------------------EAQWWHFDDSTVMPVDIPALKKCKPYILFY   75 (103)
Q Consensus        18 ~~~Y~L~avv~H~G~~~~~GHY~~~~~~----------------------~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY   75 (103)
                      ...|+|.|+|.|.| ++..|||++|++.                      .+.||+.-|+.|++++.++|...+||||||
T Consensus       796 s~~Yrl~gvvehsg-tm~~ghyvayv~~~t~~~~~~~~~~~~~~sd~~~~~~~Wy~iSDs~VrevS~d~vLkseAYlLFY  874 (877)
T KOG1873|consen  796 SFVYRLAGVVEHSG-TMSYGHYVAYVRGGTFLDLSAPSNSKDFESDAGIPSGRWYYISDSIVREVSLDEVLKSEAYLLFY  874 (877)
T ss_pred             hhhhhhccceeccc-cccCCcchhhhhccchhhccCccccccchhccCCCCcceEEecchheecccHHHHhhhhhhhhhe
Confidence            45899999999999 8999999999974                      258999999999999999999999999999


Q ss_pred             Eec
Q psy4215          76 VRR   78 (103)
Q Consensus        76 ~r~   78 (103)
                      +|.
T Consensus       875 ERI  877 (877)
T KOG1873|consen  875 ERI  877 (877)
T ss_pred             ecC
Confidence            984

>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]

Probab=99.22  E-value=1.3e-11  Score=99.99  Aligned_cols=59  Identities=17%  Similarity=0.326  Sum_probs=54.3

Q ss_pred             ceEEeEEEEEeeCCCCCceEEEEEEc----CCeEEEEcCCeeeEeCcccccCCCcEEEEEEec
Q psy4215          20 QFRFDNLLKASTIGVHSGHYTAYAIH----EAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR   78 (103)
Q Consensus        20 ~Y~L~avv~H~G~~~~~GHY~~~~~~----~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~r~   78 (103)
                      -|.|.|||+|.|.++++|||++|+|+    .-+|..|||+++-.++.-++.+.+.||.||+|.
T Consensus       687 PYaLtAvI~HkG~s~haGHYv~fIrk~~~~K~kWvl~nDek~v~~~svE~~k~nGYiylf~R~  749 (749)
T COG5207         687 PYALTAVICHKGDSIHAGHYVWFIRKNGKDKWKWVLKNDEKTVLNSSVEVLKDNGYIYLFKRC  749 (749)
T ss_pred             cccceeEEeccCCcccccceEEEEecccCcceeEEEEccchheehhhHHHHhhCCeEEEEecC
Confidence            39999999999999999999999998    338999999999999988899999999999983

>KOG1872|consensus

Probab=99.20  E-value=1.5e-11  Score=98.00  Aligned_cols=62  Identities=29%  Similarity=0.460  Sum_probs=55.9

Q ss_pred             cceEEeEEEEEeeCCCCCceEEEEEEc-CCeEEEEcCCeeeEeCcccccCCC-------cEEEEEEecCC
Q psy4215          19 RQFRFDNLLKASTIGVHSGHYTAYAIH-EAQWWHFDDSTVMPVDIPALKKCK-------PYILFYVRRVP   80 (103)
Q Consensus        19 ~~Y~L~avv~H~G~~~~~GHY~~~~~~-~~~W~~~dD~~V~~~~~~~v~~~~-------aYiLfY~r~~~   80 (103)
                      ..|+|+|||.|.|.+..+|||.+++|. .+.|++|||+.|+.+..+.+.+.+       ||||+|.-+..
T Consensus       402 g~y~l~~vithkgrss~sghy~aw~r~s~~~w~~fdd~~vs~v~~e~i~~lsgggd~~~ayvllyk~~~l  471 (473)
T KOG1872|consen  402 GLYDLQLVITHKGRSSKSGHYVAWNRVSEDKWGHFDDDMVSFVLGETILSLSGGGDWHSAYVLLYKARVL  471 (473)
T ss_pred             ceeeeeEeeeccccccCCCcceEEEeccCCceeeccccccccccccceeeecCCCccchhhheeeccccc
Confidence            569999999999999999999999999 789999999999999988887554       99999986543

>PF13423 UCH_1: Ubiquitin carboxyl-terminal hydrolase

Probab=98.73  E-value=2.2e-08  Score=75.24  Aligned_cols=43  Identities=19%  Similarity=0.366  Sum_probs=37.4

Q ss_pred             CCCCcceEEeEEEEEeeCCCCCceEEEEEEcC----CeEEEEcCCee
Q psy4215          15 TKNKRQFRFDNLLKASTIGVHSGHYTAYAIHE----AQWWHFDDSTV   57 (103)
Q Consensus        15 ~~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~~----~~W~~~dD~~V   57 (103)
                      ..+..+|+|.|+|+|.|.+.++|||++++|..    .+||.|||-.|
T Consensus       249 ~~~~~~Y~L~~~V~~i~~~~~~~HlVs~vrv~~~~~~~W~lFNDflV  295 (295)
T PF13423_consen  249 ESGIFKYELRSMVCHIGDSIESGHLVSLVRVGPSDDSQWYLFNDFLV  295 (295)
T ss_pred             CCCceEEEEEEEEEEecCCCCCCceEEEEEcCCCCCCcEEEECcEeC
Confidence            44557899999999999888999999999983    69999999654

>KOG1871|consensus

Probab=98.66  E-value=5.8e-08  Score=76.43  Aligned_cols=62  Identities=21%  Similarity=0.463  Sum_probs=55.1

Q ss_pred             CcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccCCC----cEEEEEEecC
Q psy4215          18 KRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKKCK----PYILFYVRRV   79 (103)
Q Consensus        18 ~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~~~----aYiLfY~r~~   79 (103)
                      ...|+|.+++.|.|.++..|||+..+.+  -+.|+.+||..|..+..++|....    +|+|.|++.+
T Consensus       353 ~~~yks~~vvyhtgtsatvghYl~dv~~s~~~gw~rIDD~~i~~v~q~dv~~~t~~r~~yllyY~~~d  420 (420)
T KOG1871|consen  353 TRPYKSLAVVYHTGTSATVGHYLEDVSRSVPSGWQRIDDALILFVAQEDVEKVTGSRTPYLLYYIEAD  420 (420)
T ss_pred             ccccceEEEEEecccccccCceEEeeeecccCceeEeccceeeeccHhhhccccCccchheeEeeecC
Confidence            4679999999999999999999999987  668999999999999999987653    9999998853

>KOG1863|consensus

Probab=98.55  E-value=4e-08  Score=85.66  Aligned_cols=62  Identities=32%  Similarity=0.550  Sum_probs=53.8

Q ss_pred             cceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccCCC----------------cEEEEEEecCC
Q psy4215          19 RQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKKCK----------------PYILFYVRRVP   80 (103)
Q Consensus        19 ~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~~~----------------aYiLfY~r~~~   80 (103)
                      ..|+|.||.+|.| ..++|||+++++.  .+.|++|||..|..++..++...+                ||+|+|.|.+.
T Consensus       409 ~~y~l~~v~vh~g-~~~~ghy~~~i~~~~~~~w~kfdd~~v~~~~~~~~l~~~~g~~~~~~~~~~~~~~~~~lv~~~~s~  487 (1093)
T KOG1863|consen  409 AVYSLHAVLVHSG-DAHSGHYVAYINPKLDGKWVKFDDLVVTVVSEKEALEQNYGTEEIELSSTADFKNAYMLVYIRDSC  487 (1093)
T ss_pred             ceeccchhhcccc-cccCccceeeecchhhccceeccCceeeeccHHHHHHhhCCCcchhhhcccccCCcceEEEEecCc
Confidence            5999999999977 8999999999996  899999999999999866654321                89999999886


Q ss_pred             c
Q psy4215          81 E   81 (103)
Q Consensus        81 ~   81 (103)
                      .
T Consensus       488 ~  488 (1093)
T KOG1863|consen  488 E  488 (1093)
T ss_pred             H
Confidence            5

>KOG1275|consensus

Probab=97.74  E-value=8.3e-05  Score=64.06  Aligned_cols=57  Identities=19%  Similarity=0.338  Sum_probs=50.5

Q ss_pred             cceEEeEEEEEeeCCCCCceEEEEEEc----------CCeEEEEcCCeeeEeCcccccCCC-----cEEEEE
Q psy4215          19 RQFRFDNLLKASTIGVHSGHYTAYAIH----------EAQWWHFDDSTVMPVDIPALKKCK-----PYILFY   75 (103)
Q Consensus        19 ~~Y~L~avv~H~G~~~~~GHY~~~~~~----------~~~W~~~dD~~V~~~~~~~v~~~~-----aYiLfY   75 (103)
                      ..|+|.|+|+|.|.+-+.+|.+++++.          +.+||.|||-.|.++++++...-.     +-||+|
T Consensus       789 ~vYeL~a~V~~I~d~~~e~~lVs~Ikv~~~~~~~~~~dsqWylFNDfLV~~ite~EAl~~~~~WKvP~Il~Y  860 (1118)
T KOG1275|consen  789 VVYELDAMVHAIGDNENEVNLVSPIKVLRPYHVIKPDDSQWYLFNDFLVSEITEEEALHFDGPWKVPAILYY  860 (1118)
T ss_pred             EEEEeeeEEEEeccCCCccceEEEEEccCcccccCcCcceeEEEcceeeeeCChHHheEeccCccCcEEEEE
Confidence            689999999999988899999999985          359999999999999988876544     789999

>KOG2026|consensus

Probab=96.78  E-value=0.00011  Score=58.30  Aligned_cols=57  Identities=11%  Similarity=0.206  Sum_probs=51.7

Q ss_pred             cceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccCCCcEEEEEEec
Q psy4215          19 RQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR   78 (103)
Q Consensus        19 ~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~r~   78 (103)
                      .+|.|.|.++|.   ...|||..++++  .+.||.++|-.|++..++-+...++||-+|++.
T Consensus       383 ~~~~~~~N~i~~---~e~~~~riqi~~~~s~kW~eiqdl~v~e~~~qmi~L~Es~iQiwe~~  441 (442)
T KOG2026|consen  383 TQYSLVANAIHE---DEDGNFRIQIYDNSSEKWYEIQDLHVTERLPQMIFLKESFIQIWEKQ  441 (442)
T ss_pred             ccccchhhhhcC---cccCceEEEEEeCCCcceEEecccchhhhhhHHHHHHHHHHHHHhcc
Confidence            789999999997   467999999988  789999999999999999999999999988875

>PF15499 Peptidase_C98: Ubiquitin-specific peptidase-like, SUMO isopeptidase

Probab=93.62  E-value=0.18  Score=38.34  Aligned_cols=36  Identities=11%  Similarity=0.399  Sum_probs=30.9

Q ss_pred             CcceEEeEEEEEeeCCCCCceEEEEEEc-CCeEEEEcCCe
Q psy4215          18 KRQFRFDNLLKASTIGVHSGHYTAYAIH-EAQWWHFDDST   56 (103)
Q Consensus        18 ~~~Y~L~avv~H~G~~~~~GHY~~~~~~-~~~W~~~dD~~   56 (103)
                      ...|++.+||-..- .  --|+++|+++ +|.|.+|||-+
T Consensus       216 g~~Y~Vt~VIQY~~-~--~~HFvtWi~~~dGsWLecDDLk  252 (275)
T PF15499_consen  216 GCLYQVTSVIQYQA-N--LNHFVTWIRDSDGSWLECDDLK  252 (275)
T ss_pred             CeeEEEEEEEEEec-c--CceeEEEEEcCCCCeEeeccCC
Confidence            46799999998776 3  4799999999 89999999976

>PF05408 Peptidase_C28: Foot-and-mouth virus L-proteinase; InterPro: IPR008739 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families

Probab=91.89  E-value=0.44  Score=34.59  Aligned_cols=43  Identities=19%  Similarity=0.283  Sum_probs=31.1

Q ss_pred             CCceEEEEEEcCCeEEEEcCCeeeEeCcccccCCCcEEEEEEecCCcc
Q psy4215          35 HSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRRVPEV   82 (103)
Q Consensus        35 ~~GHY~~~~~~~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~r~~~~~   82 (103)
                      +.||-+.+++..+.||.+||+.+.+..+..-     =+|.|..-+.+.
T Consensus       137 g~~Havfa~~ts~gWy~iDDe~~y~~tPdp~-----~VLvfvp~D~Ep  179 (193)
T PF05408_consen  137 GQEHAVFACVTSDGWYAIDDEDFYPWTPDPS-----DVLVFVPYDQEP  179 (193)
T ss_dssp             STTEEEEEEEETTCEEEEETTEEEE----GG-----GEEEEEESSSS-
T ss_pred             CCcceEEEEEeeCcEEEecCCeeeeCCCChh-----heEEEcccCccc
Confidence            3699999999988999999999999776432     257788777654

Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to MEROPS peptidase family C28 (clan CA).The protein fold of the peptidase unit for members of this family resembles that of papain. The leader peptidase of Foot-and-mouth disease virus cleaves itself from the growing polyprotein and also cleaves the host translation initiation factor 4GI (eIF4G), thus inhibiting 5'-cap dependent translation [].; GO: 0004197 cysteine-type endopeptidase activity, 0016032 viral reproduction, 0019082 viral protein processing; PDB: 2JQF_R 1QMY_B 1QOL_G 2JQG_R.

>PF01473 CW_binding_1: Putative cell wall binding repeat; InterPro: IPR018337 The cell wall-binding repeat (CW) is an about 20 amino acid residue module, essentially found in two bacterial Gram-positive protein families; the choline binding proteins and glucosyltransferases (2

Probab=80.87  E-value=2.9  Score=18.81  Aligned_cols=14  Identities=21%  Similarity=0.800  Sum_probs=10.9

Q ss_pred             EEEcCCeEEEEcCC
Q psy4215          42 YAIHEAQWWHFDDS   55 (103)
Q Consensus        42 ~~~~~~~W~~~dD~   55 (103)
                      +++.++.||.|+++
T Consensus         3 W~~~~~~wYy~~~~   16 (19)
T PF01473_consen    3 WVQDNGNWYYFDSD   16 (19)
T ss_dssp             EEEETTEEEEETTT
T ss_pred             CEEECCEEEEeCCC
Confidence            56668899999875

4.1.5 from EC). In choline-binding proteins cell wall binding repeats bind to choline moieties of both teichoic and lipoteichoic acids, two components peculiar to the cell surface of Gram-positive bacteria [, ]. In glucosyltransferases the region spanning the CW repeats is a glucan binding domain []. Several crystal structures of CW have been solved [, ]. In the choline binding protein LytA, the repeats adopt a solenoid fold consisting exclusively of beta-hairpins that stack to form a left-handed superhelix with a boomerang-like shape. The choline groups bind between beta-hairpin 'steps' of the superhelix []. In Cpl-1 CW repeats assemble in two sub-domains: an N-terminal superhelical moiety similar to the LytA one and a C-terminal beta-sheet involved in interactions with the lysozyme domain. Choline is bound between repeats 1 and 2, and, 2 and 3 of the superhelical sub-domain []. Some proteins known to contain cell-wall binding repeats include: Pneumococcal N-acetylmuramoyl-L-alanine amidase (autolysin, lytA) (3.5.1.28 from EC). It is a surface-exposed enzyme that rules the self-destruction of pneumococcal cells through degradation of their peptidoglycan backbone. It mediates the release of toxic substances that damage the host tissues. Pneumococcal endo-beta-N-acetylglucosaminidase (lytB) (3.2.1.96 from EC). It plays an important role in cell wall degradation and cell separation. Pneumococcal teichoic acid phosphorylcholine esterase (pce or cbpE), a cell wall hydrolase important for cellular adhesion and colonisation. Lactobacillales glucosyltransferase. It catalyses the transfer of glucosyl units from the cleavage of sucrose to a growing chain of glucan. Clostridium difficile toxin A (tcdA) and toxin B (tcdb). They are the causative agents of the antibiotic-associated pseudomembranous colitis. They are intracellular acting toxins that reach their targets after receptor-mediated endocytosis. Clostridium acetobutylicum cspA protein. Siphoviridae bacteriophages N-acetylmuramoyl-L-alanine amidase. It lyses the bacterial host cell wall. Podoviridae lysozyme protein (cpl-1). It is capable of digesting the pneumococcal cell wall. The cell wall binding repeats are also known as the choline-binding repeats (ChBr) or the choline-binding domain (ChBD). ; PDB: 1GVM_C 2BML_B 1HCX_A 1OBA_A 1H09_A 2J8F_A 2IXU_A 2J8G_A 2IXV_A 2X8O_A ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	103
2y6e_A	367	Ubiquitin Specific Protease 4 Is Inhibited By Its U		9e-04

>pdb|2Y6E|A Chain A, Ubiquitin Specific Protease 4 Is Inhibited By Its Ubiquitin- Like Domain Length = 367

Iteration: 1
 Score = 38.5 bits (88), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 23/57 (40%), Positives = 31/57 (54%), Gaps = 4/57 (7%)
Query: 30  STIGVHSGHYTAYAIHE--AQWWHFDDSTVMPVDIPALKKCKPYILFYVRRVPEVTK 84
             +GV  GHYTAYA ++   +W++FDDS V       +     Y+LFY RR  E  K
Sbjct: 310 GAMGV--GHYTAYAKNKLNGKWYYFDDSNVSLASEDQIVTKAAYVLFYQRRDDEFYK 364

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	103
3mhs_A	476	Ubiquitin carboxyl-terminal hydrolase 8; multi-pro	6e-15
3nhe_A	348	Ubiquitin carboxyl-terminal hydrolase 2; cysteine	1e-14
2y6e_A	367	Ubiquitin carboxyl-terminal hydrolase 4; HET: CME;	2e-14
3i3t_A	355	Ubiquitin carboxyl-terminal hydrolase 21; hydrolas	3e-14
2gfo_A	396	Ubiquitin carboxyl-terminal hydrolase 8; protease,	4e-13
2ayn_A	404	Ubiquitin carboxyl-terminal hydrolase 14; deubiqui	1e-12
3ihp_A	854	Ubiquitin carboxyl-terminal hydrolase 5; hydrolase	6e-11
1nb8_A	353	Ubiquitin carboxyl-terminal hydrolase 7; UBP, deub	4e-08
2f1z_A	522	Ubiquitin carboxyl-terminal hydrolase 7; hausp, US	1e-07
1vjv_A	415	Ubiquitin carboxyl-terminal hydrolase 6; YFR010W,	2e-06

>3mhs_A Ubiquitin carboxyl-terminal hydrolase 8; multi-protein complex, hydrolase-transcription regulator-Pro binding complex, acetylation, cytoplasm; 1.89A {Saccharomyces cerevisiae} PDB: 3mhh_A 3m99_A Length = 476

 Score = 67.7 bits (165), Expect = 6e-15
 Identities = 18/47 (38%), Positives = 26/47 (55%), Gaps = 1/47 (2%)

Query: 33  GVHSGHYTAYA-IHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR 78
            V+ GHY A+  I   QW+ F+DS V  +    + K + Y+LFY  R
Sbjct: 427 TVNEGHYIAFCKISGGQWFKFNDSMVSSISQEEVLKEQAYLLFYTIR 473

>3nhe_A Ubiquitin carboxyl-terminal hydrolase 2; cysteine protease, substrate ENZY complex, hydrolase-protein binding complex; HET: CME; 1.26A {Homo sapiens} PDB: 2hd5_A 2ibi_A Length = 348

 Score = 66.3 bits (162), Expect = 1e-14
 Identities = 17/50 (34%), Positives = 24/50 (48%), Gaps = 2/50 (4%)

Query: 33  GVHSGHYTAYAIHEA--QWWHFDDSTVMPVDIPALKKCKPYILFYVRRVP 80
               GHYTAY       +W  F+DS+V P+    ++    Y+LFY    P
Sbjct: 295 TTMGGHYTAYCRSPGTGEWHTFNDSSVTPMSSSQVRTSDAYLLFYELASP 344

>2y6e_A Ubiquitin carboxyl-terminal hydrolase 4; HET: CME; 2.40A {Homo sapiens} Length = 367

 Score = 66.1 bits (161), Expect = 2e-14
 Identities = 22/57 (38%), Positives = 30/57 (52%), Gaps = 2/57 (3%)

Query: 33  GVHSGHYTAYAIHEA--QWWHFDDSTVMPVDIPALKKCKPYILFYVRRVPEVTKKLS 87
            +  GHYTAYA ++   +W++FDDS V       +     Y+LFY RR  E  K  S
Sbjct: 311 AMGVGHYTAYAKNKLNGKWYYFDDSNVSLASEDQIVTKAAYVLFYQRRDDEFYKTPS 367

>3i3t_A Ubiquitin carboxyl-terminal hydrolase 21; hydrolase, structural genomics consortium, SGC, activator, alternative splicing, chromatin regulator, nucleus, polymorphism, protease; 2.59A {Homo sapiens} PDB: 2y5b_A 3mtn_A Length = 355

 Score = 65.8 bits (160), Expect = 3e-14
 Identities = 17/46 (36%), Positives = 23/46 (50%)

Query: 33  GVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR 78
            VH GHYTA    +  W  ++DS V PV    +   + Y+LFY   
Sbjct: 305 SVHYGHYTALCRCQTGWHVYNDSRVSPVSENQVASSEGYVLFYQLM 350

>2gfo_A Ubiquitin carboxyl-terminal hydrolase 8; protease, thiol protease, UBL conjugation pathway deubiquitinating enzyme, DUB, zinc ribbon; 2.00A {Homo sapiens} SCOP: d.3.1.9 PDB: 3n3k_A Length = 396

 Score = 62.6 bits (152), Expect = 4e-13
 Identities = 19/48 (39%), Positives = 27/48 (56%), Gaps = 2/48 (4%)

Query: 33  GVHSGHYTAYAIHEA--QWWHFDDSTVMPVDIPALKKCKPYILFYVRR 78
           G+  GHYTAY  + A  +W+ FDD  V  + + ++K    YILFY   
Sbjct: 348 GLDGGHYTAYCKNAARQRWFKFDDHEVSDISVSSVKSSAAYILFYTSL 395

>2ayn_A Ubiquitin carboxyl-terminal hydrolase 14; deubiquitinating enzymes, DUB, USP14, proteasome, enzyme mechanism; 3.20A {Homo sapiens} SCOP: d.3.1.9 PDB: 2ayo_A Length = 404

 Score = 60.8 bits (147), Expect = 1e-12
 Identities = 16/64 (25%), Positives = 27/64 (42%), Gaps = 8/64 (12%)

Query: 33  GVHSGHYTAYAIHEA-QWWHFDDSTVMPVDIPALKKCK-------PYILFYVRRVPEVTK 84
              SGHY ++   +  +W  FDD  V  V    + +          Y+L Y  R  E+ +
Sbjct: 340 SSSSGHYVSWVKRKQDEWIKFDDDKVSIVTPEDILRLSGGGDWHIAYVLLYGPRRVEIME 399

Query: 85  KLSD 88
           + S+
Sbjct: 400 EESE 403

>3ihp_A Ubiquitin carboxyl-terminal hydrolase 5; hydrolase, protease, thiol protease, UBL conjugation pathway, metal-binding, zinc-finger,structural genomics; 2.80A {Homo sapiens} Length = 854

 Score = 56.4 bits (135), Expect = 6e-11
 Identities = 15/48 (31%), Positives = 21/48 (43%), Gaps = 3/48 (6%)

Query: 33  GVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRRVP 80
               GHY  +   E +W  ++D  V   + P   K   YI FY +RV 
Sbjct: 809 STMCGHYVCHIKKEGRWVIYNDQKVCASEKPP--KDLGYIYFY-QRVA 853

>1nb8_A Ubiquitin carboxyl-terminal hydrolase 7; UBP, deubiquitination, hausp, P53 binding; 2.30A {Homo sapiens} SCOP: d.3.1.9 PDB: 1nbf_A Length = 353

 Score = 48.3 bits (115), Expect = 4e-08
 Identities = 19/86 (22%), Positives = 33/86 (38%), Gaps = 18/86 (20%)

Query: 33  GVHSGHYTAYAIHEA--QWWHFDDSTVMPVDIP-ALKKC--------------KPYILFY 75
             H GHY  Y   +   +W  FDD  V       A++                  Y+L Y
Sbjct: 252 DNHGGHYVVYLNPKGDGKWCKFDDDVVSRCTKEEAIEHNYGGHDDDLSVRHCTNAYMLVY 311

Query: 76  VRRVPEVTKKLSDVTSSMVPTRIPTQ 101
           +R   ++++ L  VT   +P ++  +
Sbjct: 312 IRES-KLSEVLQAVTDHDIPQQLVER 336

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

 Score = 46.9 bits (111), Expect = 1e-07
 Identities = 19/86 (22%), Positives = 33/86 (38%), Gaps = 18/86 (20%)

Query: 33  GVHSGHYTAYAIHEA--QWWHFDDSTVMPVDIP-ALKKC--------------KPYILFY 75
             H GHY  Y   +   +W  FDD  V       A++                  Y+L Y
Sbjct: 421 DNHGGHYVVYLNPKGDGKWCKFDDDVVSRCTKEEAIEHNYGGHDDDLSVRHCTNAYMLVY 480

Query: 76  VRRVPEVTKKLSDVTSSMVPTRIPTQ 101
           +R   ++++ L  VT   +P ++  +
Sbjct: 481 IRES-KLSEVLQAVTDHDIPQQLVER 505

>1vjv_A Ubiquitin carboxyl-terminal hydrolase 6; YFR010W, structural genomics, JCSG, PSI, protein structure initiative; HET: MSE; 1.74A {Saccharomyces cerevisiae} SCOP: d.3.1.9 Length = 415

 Score = 43.4 bits (101), Expect = 2e-06
 Identities = 14/56 (25%), Positives = 23/56 (41%), Gaps = 11/56 (19%)

Query: 35  HSGHYTAY---AIHEAQWWHFDDSTVMPVDIPALKKCK-------PYILFYVRRVP 80
            SGHY A+    + E +W+ F+D  V  V+   ++            IL Y +   
Sbjct: 360 ESGHYQAFIRDELDENKWYKFNDDKVSVVEKEKIESLAGGGESDSALILMY-KGFG 414

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	103
3nhe_A	348	Ubiquitin carboxyl-terminal hydrolase 2; cysteine	99.86
3i3t_A	355	Ubiquitin carboxyl-terminal hydrolase 21; hydrolas	99.86
2y6e_A	367	Ubiquitin carboxyl-terminal hydrolase 4; HET: CME;	99.85
2ayn_A	404	Ubiquitin carboxyl-terminal hydrolase 14; deubiqui	99.83
1vjv_A	415	Ubiquitin carboxyl-terminal hydrolase 6; YFR010W,	99.82
2gfo_A	396	Ubiquitin carboxyl-terminal hydrolase 8; protease,	99.82
1nb8_A	353	Ubiquitin carboxyl-terminal hydrolase 7; UBP, deub	99.82
3mhs_A	476	Ubiquitin carboxyl-terminal hydrolase 8; multi-pro	99.8
2f1z_A	522	Ubiquitin carboxyl-terminal hydrolase 7; hausp, US	99.79
3ihp_A	854	Ubiquitin carboxyl-terminal hydrolase 5; hydrolase	99.73
2vhf_A	374	Ubiquitin carboxyl-terminal hydrolase CYLD; cytoki	98.42

>3nhe_A Ubiquitin carboxyl-terminal hydrolase 2; cysteine protease, substrate ENZY complex, hydrolase-protein binding complex; HET: CME; 1.26A {Homo sapiens} SCOP: d.3.1.9 PDB: 2hd5_A 3v6c_A 3v6e_A 2ibi_A

Probab=99.86  E-value=8.4e-22  Score=146.49  Aligned_cols=70  Identities=27%  Similarity=0.600  Sum_probs=62.6

Q ss_pred             eeeCCCCCcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccCCCcEEEEEEecCCc
Q psy4215          11 YVNDTKNKRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKKCKPYILFYVRRVPE   81 (103)
Q Consensus        11 ~~~~~~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~r~~~~   81 (103)
                      |+........|+|+|||+|.| +.++|||++|+|.  ++.|++|||+.|++++.++|...+||||||+|++.+
T Consensus       274 ~~~~~~~~~~Y~L~avv~H~G-~~~~GHY~~~~~~~~~~~W~~~nD~~V~~v~~~~v~~~~aY~LfY~r~~~~  345 (348)
T 3nhe_A          274 FASENTNHAVYNLYAVSNHSG-TTMGGHYTAYCRSPGTGEWHTFNDSSVTPMSSSQVRTSDAYLLFYELASPP  345 (348)
T ss_dssp             GBCTTCCCCEEEEEEEEEEEE-CSSCEEEEEEEECTTTCCEEEEETTEEEEECGGGTCCTTEEEEEEEECC--
T ss_pred             hcCCCCCCCcEEEEEEEEccC-CCCCcccEEEEccCCCCcEEEEeCCCceECCHHHcCCCCceEEEEEecCCC
Confidence            445556678899999999999 7899999999998  789999999999999999999999999999999865

>3i3t_A Ubiquitin carboxyl-terminal hydrolase 21; hydrolase, structural genomics consortium, SGC, activator, alternative splicing, chromatin regulator, nucleus, polymorphism, protease; 2.59A {Homo sapiens} SCOP: d.3.1.0 PDB: 2y5b_A 3mtn_A

Probab=99.86  E-value=4.6e-22  Score=148.25  Aligned_cols=70  Identities=29%  Similarity=0.511  Sum_probs=59.4

Q ss_pred             eeeCCCCCcceEEeEEEEEeeCCCCCceEEEEEEcCCeEEEEcCCeeeEeCcccccCCCcEEEEEEecCCc
Q psy4215          11 YVNDTKNKRQFRFDNLLKASTIGVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRRVPE   81 (103)
Q Consensus        11 ~~~~~~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~r~~~~   81 (103)
                      |+....+...|+|+|||+|.| ++++|||++|+|..+.|++|||+.|+++++++|...+||||||+|.+.+
T Consensus       284 ~~~~~~~~~~Y~L~avv~H~G-~~~~GHY~~~~~~~~~W~~~nD~~V~~v~~~~v~~~~aYiLfY~r~~~~  353 (355)
T 3i3t_A          284 FASDKAGSPVYQLYALCNHSG-SVHYGHYTALCRCQTGWHVYNDSRVSPVSENQVASSEGYVLFYQLMQEP  353 (355)
T ss_dssp             GBC----CCEEEEEEEEEEEE-ETTEEEEEEEEEETTEEEEEETTEEEEECHHHHHTSCCSEEEEEEC---
T ss_pred             hccCCCCCcceEEEEEEEecC-CCCCCeEEEEEEcCCeEEEEcCCCcEECCHHHcCCCCcEEEEEEeccCC
Confidence            344555667899999999999 8999999999999889999999999999999999999999999998764

>2y6e_A Ubiquitin carboxyl-terminal hydrolase 4; HET: CME; 2.40A {Homo sapiens}

Probab=99.85  E-value=2.9e-21  Score=146.20  Aligned_cols=65  Identities=31%  Similarity=0.518  Sum_probs=59.5

Q ss_pred             CCcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccCCCcEEEEEEecCCcc
Q psy4215          17 NKRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKKCKPYILFYVRRVPEV   82 (103)
Q Consensus        17 ~~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~r~~~~~   82 (103)
                      ....|+|+|||+|.| ++++|||++|+|+  ++.|++|||+.|++++.++|...+||||||+|++.+.
T Consensus       296 ~~~~Y~L~avv~H~G-~~~~GHY~a~~~~~~~~~W~~fnD~~V~~v~~~~v~~~~aYiLfY~r~~~~~  362 (367)
T 2y6e_A          296 RPYVYDLIAVSNHYG-AMGVGHYTAYAKNKLNGKWYYFDDSNVSLASEDQIVTKAAYVLFYQRRDDEF  362 (367)
T ss_dssp             CCCEEEEEEEEEEEC-SSSSCEEEEEEECTTTCCEEEEETTEEEECCGGGTSSTTEEEEEEEECCC--
T ss_pred             CCceEEEEEEeecCC-CCCCCeeeEEEEcCCCCeEEEECCCCceECCHHHcCCCCcEEEEEEEcCCCC
Confidence            457899999999999 6899999999998  6899999999999999999999999999999998763

>2ayn_A Ubiquitin carboxyl-terminal hydrolase 14; deubiquitinating enzymes, DUB, USP14, proteasome, enzyme mechanism; 3.20A {Homo sapiens} SCOP: d.3.1.9 PDB: 2ayo_A

Probab=99.83  E-value=7e-21  Score=145.10  Aligned_cols=65  Identities=26%  Similarity=0.477  Sum_probs=58.0

Q ss_pred             CCcceEEeEEEEEeeCCCCCceEEEEEEc-CCeEEEEcCCeeeEeCcccccCCC-------cEEEEEEecCCc
Q psy4215          17 NKRQFRFDNLLKASTIGVHSGHYTAYAIH-EAQWWHFDDSTVMPVDIPALKKCK-------PYILFYVRRVPE   81 (103)
Q Consensus        17 ~~~~Y~L~avv~H~G~~~~~GHY~~~~~~-~~~W~~~dD~~V~~~~~~~v~~~~-------aYiLfY~r~~~~   81 (103)
                      ....|+|+|||+|.|.++++|||++|+|. ++.|++|||+.|++++.++|....       ||||||+|++..
T Consensus       324 ~~~~Y~L~avv~H~G~s~~~GHY~a~v~~~~~~W~~fnD~~V~~v~~~~v~~~~~g~~~~~aYiLfY~r~~~~  396 (404)
T 2ayn_A          324 NCGYYDLQAVLTHQGRSSSSGHYVSWVKRKQDEWIKFDDDKVSIVTPEDILRLSGGGDWHIAYVLLYGPRRVE  396 (404)
T ss_dssp             CCSEEEEEEEEEEESSSTTSSEEEEEEEEETTEEEEEBTTBCCCBCHHHHGGGGSSSSSCEEEEEEEECC---
T ss_pred             CCceEEEEEEEEecCCCCCCCCeEEEEECCCCeEEEeecccceecCHHHHHhhhCCCCCceEEEEEEEecCCC
Confidence            45789999999999977999999999999 999999999999999999998766       999999999865

>1vjv_A Ubiquitin carboxyl-terminal hydrolase 6; YFR010W, structural genomics, JCSG, PSI, protein structure initiative; HET: MSE; 1.74A {Saccharomyces cerevisiae} SCOP: d.3.1.9

Probab=99.82  E-value=1.3e-20  Score=144.74  Aligned_cols=63  Identities=22%  Similarity=0.430  Sum_probs=58.3

Q ss_pred             CCcceEEeEEEEEeeCCCCCceEEEEEEc---CCeEEEEcCCeeeEeCcccccCCC-------cEEEEEEecC
Q psy4215          17 NKRQFRFDNLLKASTIGVHSGHYTAYAIH---EAQWWHFDDSTVMPVDIPALKKCK-------PYILFYVRRV   79 (103)
Q Consensus        17 ~~~~Y~L~avv~H~G~~~~~GHY~~~~~~---~~~W~~~dD~~V~~~~~~~v~~~~-------aYiLfY~r~~   79 (103)
                      ....|+|+|||+|.|.++++|||++|+|.   ++.||+|||+.|++++.++|....       ||||||+|++
T Consensus       342 ~~~~Y~L~aVv~H~G~s~~~GHY~a~vr~~~~~~~W~~fnD~~V~~v~~~~v~~~~~g~~~~~aYiLfY~r~~  414 (415)
T 1vjv_A          342 PSCVYNLIGVITHQGANSESGHYQAFIRDELDENKWYKFNDDKVSVVEKEKIESLAGGGESDSALILMYKGFG  414 (415)
T ss_dssp             SSSEEEEEEEEEEESSSTTSSEEEEEEECSSCTTCEEEEETTEEEEECHHHHHGGGCCTTSCEEEEEEEEETT
T ss_pred             CCceEEEEEEEEecCCCCCCCCEEEEEeCCCCCCcEEEeECCcCeEcCHHHHhhhcCCCCcceEEEEEEEecC
Confidence            45789999999999977999999999998   889999999999999999998766       9999999976

>2gfo_A Ubiquitin carboxyl-terminal hydrolase 8; protease, thiol protease, UBL conjugation pathway deubiquitinating enzyme, DUB, zinc ribbon; 2.00A {Homo sapiens} SCOP: d.3.1.9 PDB: 3n3k_A

Probab=99.82  E-value=2.9e-20  Score=143.12  Aligned_cols=61  Identities=30%  Similarity=0.657  Sum_probs=57.3

Q ss_pred             CcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccCCCcEEEEEEecC
Q psy4215          18 KRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKKCKPYILFYVRRV   79 (103)
Q Consensus        18 ~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~r~~   79 (103)
                      ...|+|+|||+|.| ++++|||++|+|+  ++.|++|||+.|++++.++|...+||||||+|++
T Consensus       334 ~~~Y~L~avv~H~G-~~~~GHY~a~v~~~~~~~W~~fnD~~V~~v~~~~v~~~~aYiLfY~r~~  396 (396)
T 2gfo_A          334 LKKYNLFSVSNHYG-GLDGGHYTAYCKNAARQRWFKFDDHEVSDISVSSVKSSAAYILFYTSLG  396 (396)
T ss_dssp             CCCBEEEEEEEEES-CTTTCEEEEEEEETTTTEEEEEETTEEEECCHHHHSCTTEEEEEEECC-
T ss_pred             CceEEEEEEEEecC-CCCCCceEEEEcCCCCCCEEEEeCCCeEECCHHHcCCCCceEEEEEEcC
Confidence            57899999999999 8999999999998  6899999999999999999999999999999874

>1nb8_A Ubiquitin carboxyl-terminal hydrolase 7; UBP, deubiquitination, hausp, P53 binding; 2.30A {Homo sapiens} SCOP: d.3.1.9 PDB: 1nbf_A

Probab=99.82  E-value=5e-21  Score=145.14  Aligned_cols=65  Identities=26%  Similarity=0.514  Sum_probs=57.8

Q ss_pred             CCCcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccC---------------CCcEEEEEEec
Q psy4215          16 KNKRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKK---------------CKPYILFYVRR   78 (103)
Q Consensus        16 ~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~---------------~~aYiLfY~r~   78 (103)
                      .....|+|+|||+|.| ++++|||++|+|+  ++.|++|||+.|++++.++|..               .+||||||+|+
T Consensus       236 ~~~~~Y~L~avv~H~G-~~~~GHY~a~v~~~~~~~W~~fnD~~V~~v~~~~v~~~~~gg~~~~~~~~~~~~aYiLfY~r~  314 (353)
T 1nb8_A          236 KDPANYILHAVLVHSG-DNHGGHYVVYLNPKGDGKWCKFDDDVVSRCTKEEAIEHNYGGHDDDLSVRHCTNAYMLVYIRE  314 (353)
T ss_dssp             TSCCEEEEEEEEEEES-STTCCCEEEEECTTSSSCCEEEETTEEEECCHHHHTGGGSCCC-------CCEEEEEEEEEET
T ss_pred             CCCceEEEEEEEEEeC-CCCCcEEEEEEecCCCCCEEEEECcceEECCHHHHHHHhcCCCccccccCcCCeEEEEEEEEC
Confidence            4567899999999999 6899999999996  8899999999999999888753               56999999998


Q ss_pred             CCc
Q psy4215          79 VPE   81 (103)
Q Consensus        79 ~~~   81 (103)
                      +..
T Consensus       315 ~~~  317 (353)
T 1nb8_A          315 SKL  317 (353)
T ss_dssp             TTH
T ss_pred             chh
Confidence            864

>3mhs_A Ubiquitin carboxyl-terminal hydrolase 8; multi-protein complex, hydrolase-transcription regulator-Pro binding complex, acetylation, cytoplasm; 1.89A {Saccharomyces cerevisiae} PDB: 3mhh_A 4fjc_A 4fk5_A 4fip_A 3m99_A

Probab=99.80  E-value=9.5e-20  Score=142.26  Aligned_cols=63  Identities=27%  Similarity=0.527  Sum_probs=58.7

Q ss_pred             CCcceEEeEEEEEeeCCCCCceEEEEEEc-CCeEEEEcCCeeeEeCcccccCCCcEEEEEEecCC
Q psy4215          17 NKRQFRFDNLLKASTIGVHSGHYTAYAIH-EAQWWHFDDSTVMPVDIPALKKCKPYILFYVRRVP   80 (103)
Q Consensus        17 ~~~~Y~L~avv~H~G~~~~~GHY~~~~~~-~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~r~~~   80 (103)
                      ....|+|+|||+|.| ++++|||++|+|. +++|++|||+.|+++++++|...+||||||+|++.
T Consensus       412 ~~~~Y~L~avv~H~G-~~~~GHY~a~vr~~~~~W~~fnD~~V~~v~~~~v~~~~aYiLfY~r~~~  475 (476)
T 3mhs_A          412 PDIIYELIGIVSHKG-TVNEGHYIAFCKISGGQWFKFNDSMVSSISQEEVLKEQAYLLFYTIRQV  475 (476)
T ss_dssp             CCEEEEEEEEEEEEE-CSSSEEEEEEEECTTSCEEEEETTEEEEECHHHHTTSCEEEEEEEEEEE
T ss_pred             CCCcEEEEEEEEeCC-CCCCCceEEEEECCCCcEEEEeCCceEECCHHHhccCCcEEEEEEEecC
Confidence            346799999999999 7999999999998 88999999999999999999999999999999863

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

Probab=99.79  E-value=7.6e-20  Score=144.99  Aligned_cols=65  Identities=26%  Similarity=0.514  Sum_probs=57.9

Q ss_pred             CCCcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccC---------------CCcEEEEEEec
Q psy4215          16 KNKRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKK---------------CKPYILFYVRR   78 (103)
Q Consensus        16 ~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~---------------~~aYiLfY~r~   78 (103)
                      ..+..|+|+|||+|.| ++++|||++|+|+  ++.|++|||+.|++++.++|..               .+||||||+|+
T Consensus       405 ~~~~~Y~L~avv~H~G-~~~~GHY~a~v~~~~~~~W~~fnD~~V~~v~~~~v~~~~~Gg~~~~~~~~~~~~aYiLfY~r~  483 (522)
T 2f1z_A          405 KDPANYILHAVLVHSG-DNHGGHYVVYLNPKGDGKWCKFDDDVVSRCTKEEAIEHNYGGHDDDLSVRHCTNAYMLVYIRE  483 (522)
T ss_dssp             TSCCEEEEEEEEEEEC-SSSCSEEEEEECTTSSSCCEEEETTEEEECCHHHHSTTSSCCC--------CEEEEEEEEEET
T ss_pred             CCCcEEEEEEEEEecc-cCCCceEEEEEecCCCCCEEEEECceeEECCHHHHHHhhcCCCccccccCcCCceEEEEEEEC
Confidence            4467899999999999 6899999999996  7899999999999999888763               46999999998


Q ss_pred             CCc
Q psy4215          79 VPE   81 (103)
Q Consensus        79 ~~~   81 (103)
                      +..
T Consensus       484 ~~~  486 (522)
T 2f1z_A          484 SKL  486 (522)
T ss_dssp             TSH
T ss_pred             Cch
Confidence            864

>3ihp_A Ubiquitin carboxyl-terminal hydrolase 5; hydrolase, protease, thiol protease, UBL conjugation pathway, metal-binding, zinc-finger,structural genomics; 2.80A {Homo sapiens}

Probab=99.73  E-value=7.6e-18  Score=141.12  Aligned_cols=62  Identities=21%  Similarity=0.381  Sum_probs=55.7

Q ss_pred             CCCcceEEeEEEEEeeCCCCCceEEEEEEcCCeEEEEcCCeeeEeCcccccCCCcEEEEEEecC
Q psy4215          16 KNKRQFRFDNLLKASTIGVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRRV   79 (103)
Q Consensus        16 ~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~r~~   79 (103)
                      .++..|+|+|||+|.|.+.++|||++|+|.+++|++|||+.|+++  ++.....||||||+|.+
T Consensus       792 ~~~~~Y~L~avi~H~G~~~~~GHY~~~~~~~~~W~~~nD~~V~~~--~~~~~~~aYilfY~R~~  853 (854)
T 3ihp_A          792 DGPGKYQLFAFISHMGTSTMCGHYVCHIKKEGRWVIYNDQKVCAS--EKPPKDLGYIYFYQRVA  853 (854)
T ss_dssp             CCCSEEEEEEEEEEESSCSSCCEEEEEEEETTEEEEEETTEEEEC--SSCCTTSCSEEEEEECC
T ss_pred             CCCceEEEEEEEEeecCCCCCcCeEEEEEeCCEEEEEECCeeEEc--cccCCCcceEEEEEecC
Confidence            345689999999999988899999999999999999999999997  44567889999999976

>2vhf_A Ubiquitin carboxyl-terminal hydrolase CYLD; cytokine signalling, linkage specificity, deubiquitinating enzyme, Lys63- linked, anti-oncogene; 2.8A {Homo sapiens}

Probab=98.42  E-value=1.6e-07  Score=72.79  Aligned_cols=32  Identities=22%  Similarity=0.556  Sum_probs=28.4

Q ss_pred             CcceEEeEEEEEeeCCCCCceEEEEEEc---CCeEEEEcC
Q psy4215          18 KRQFRFDNLLKASTIGVHSGHYTAYAIH---EAQWWHFDD   54 (103)
Q Consensus        18 ~~~Y~L~avv~H~G~~~~~GHY~~~~~~---~~~W~~~dD   54 (103)
                      ...|+|+|||+     +++|||++|||.   ++.|+.||-
T Consensus       274 sg~yeL~aVlt-----adsgHYvafVK~~~~d~~W~~FDs  308 (374)
T 2vhf_A          274 CQNMELFAVLC-----IETSHYVAFVKYGKDDSAWLFFDS  308 (374)
T ss_dssp             -CCEEEEEEEE-----EETTEEEEEEECSSSTTCEEEEET
T ss_pred             ceeEEEEEEEE-----ccCCceEEEEEecCCCCCeEEEec
Confidence            36899999999     778999999997   789999985

---

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	103
d2gfoa1	348	d.3.1.9 (A:762-1109) Ubiquitin carboxyl-terminal h	1e-11
d2hd5a1	336	d.3.1.9 (A:211-521) Ubiquitin carboxyl-terminal hy	1e-11
d2ayna1	383	d.3.1.9 (A:100-482) Ubiquitin carboxyl-terminal hy	4e-10
d1vjva_	397	d.3.1.9 (A:) Ubiquitin carboxyl-terminal hydrolase	4e-10
d1nbfa_	347	d.3.1.9 (A:) Ubiquitin carboxyl-terminal hydrolase	8e-08

>d2gfoa1 d.3.1.9 (A:762-1109) Ubiquitin carboxyl-terminal hydrolase 8 {Human (Homo sapiens) [TaxId: 9606]} Length = 348

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Ubiquitin carboxyl-terminal hydrolase, UCH
domain: Ubiquitin carboxyl-terminal hydrolase 8
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 57.0 bits (136), Expect = 1e-11
 Identities = 19/47 (40%), Positives = 27/47 (57%), Gaps = 2/47 (4%)

Query: 33  GVHSGHYTAYAIHEA--QWWHFDDSTVMPVDIPALKKCKPYILFYVR 77
           G+  GHYTAY  + A  +W+ FDD  V  + + ++K    YILFY  
Sbjct: 301 GLDGGHYTAYCKNAARQRWFKFDDHEVSDISVSSVKSSAAYILFYTS 347

>d2hd5a1 d.3.1.9 (A:211-521) Ubiquitin carboxyl-terminal hydrolase 2, USP2 {Human (Homo sapiens) [TaxId: 9606]} Length = 336

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Ubiquitin carboxyl-terminal hydrolase, UCH
domain: Ubiquitin carboxyl-terminal hydrolase 2, USP2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 57.1 bits (136), Expect = 1e-11
 Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 2/47 (4%)

Query: 33  GVHSGHYTAYAIHEA--QWWHFDDSTVMPVDIPALKKCKPYILFYVR 77
               GHYTAY       +W  F+DS+V P+    ++    Y+LFY  
Sbjct: 289 TTMGGHYTAYCRSPGTGEWHTFNDSSVTPMSSSQVRTSDAYLLFYEL 335

>d2ayna1 d.3.1.9 (A:100-482) Ubiquitin carboxyl-terminal hydrolase 14 {Human (Homo sapiens) [TaxId: 9606]} Length = 383

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Ubiquitin carboxyl-terminal hydrolase, UCH
domain: Ubiquitin carboxyl-terminal hydrolase 14
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.8 bits (125), Expect = 4e-10
 Identities = 14/54 (25%), Positives = 21/54 (38%), Gaps = 8/54 (14%)

Query: 33  GVHSGHYTAYAIH-EAQWWHFDDSTVMPVDIPALKKCK-------PYILFYVRR 78
              SGHY ++    + +W  FDD  V  V    + +          Y+L Y  R
Sbjct: 330 SSSSGHYVSWVKRKQDEWIKFDDDKVSIVTPEDILRLSGGGDWHIAYVLLYGPR 383

>d1vjva_ d.3.1.9 (A:) Ubiquitin carboxyl-terminal hydrolase 6 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 397

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Ubiquitin carboxyl-terminal hydrolase, UCH
domain: Ubiquitin carboxyl-terminal hydrolase 6
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 52.9 bits (125), Expect = 4e-10
 Identities = 14/55 (25%), Positives = 22/55 (40%), Gaps = 10/55 (18%)

Query: 33  GVHSGHYTAYA---IHEAQWWHFDDSTVMPVDIPALKKCK-------PYILFYVR 77
              SGHY A+    + E +W+ F+D  V  V+   ++            IL Y  
Sbjct: 340 NSESGHYQAFIRDELDENKWYKFNDDKVSVVEKEKIESLAGGGESDSALILMYKG 394

>d1nbfa_ d.3.1.9 (A:) Ubiquitin carboxyl-terminal hydrolase 7 (USP7, HAUSP) {Human (Homo sapiens) [TaxId: 9606]} Length = 347

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Ubiquitin carboxyl-terminal hydrolase, UCH
domain: Ubiquitin carboxyl-terminal hydrolase 7 (USP7, HAUSP)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.2 bits (108), Expect = 8e-08
 Identities = 19/81 (23%), Positives = 31/81 (38%), Gaps = 18/81 (22%)

Query: 35  HSGHYTAYAIHEA--QWWHFDDSTVMPV---------------DIPALKKCKPYILFYVR 77
           H GHY  Y   +   +W  FDD  V                  D+        Y+L Y+R
Sbjct: 254 HGGHYVVYLNPKGDGKWCKFDDDVVSRCTKEEAIEHNYGGHDDDLSVRHCTNAYMLVYIR 313

Query: 78  RVPEVTKKLSDVTSSMVPTRI 98
              ++++ L  VT   +P ++
Sbjct: 314 ES-KLSEVLQAVTDHDIPQQL 333

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	103
d2hd5a1	336	Ubiquitin carboxyl-terminal hydrolase 2, USP2 {Hum	99.87
d1vjva_	397	Ubiquitin carboxyl-terminal hydrolase 6 {Baker's y	99.86
d2gfoa1	348	Ubiquitin carboxyl-terminal hydrolase 8 {Human (Ho	99.85
d2ayna1	383	Ubiquitin carboxyl-terminal hydrolase 14 {Human (H	99.84
d1nbfa_	347	Ubiquitin carboxyl-terminal hydrolase 7 (USP7, HAU	99.83

>d2hd5a1 d.3.1.9 (A:211-521) Ubiquitin carboxyl-terminal hydrolase 2, USP2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Ubiquitin carboxyl-terminal hydrolase, UCH
domain: Ubiquitin carboxyl-terminal hydrolase 2, USP2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.87  E-value=2.2e-22  Score=144.63  Aligned_cols=68  Identities=26%  Similarity=0.587  Sum_probs=61.9

Q ss_pred             eeeeCCCCCcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccCCCcEEEEEEec
Q psy4215          10 TYVNDTKNKRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR   78 (103)
Q Consensus        10 ~~~~~~~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~r~   78 (103)
                      ++.....+..+|+|+|||+|.| ++++|||++|+|+  +++|++|||+.|++++.++|...+||||||+|.
T Consensus       267 ~~~~~~~~~~~Y~L~~vi~H~G-~~~~GHY~~~ik~~~~~~W~~~nD~~V~~v~~~~v~~~~aYiL~Y~r~  336 (336)
T d2hd5a1         267 EFASENTNHAVYNLYAVSNHSG-TTMGGHYTAYCRSPGTGEWHTFNDSSVTPMSSSQVRTSDAYLLFYELA  336 (336)
T ss_dssp             GGBSSSSCCCEEEEEEEEEEEE-CSSCEEEEEEEECTTTCCEEEEETTEEEEECGGGSCCTTEEEEEEEEC
T ss_pred             ccccCCCCCCeEeEEEEEEEeC-CCCCceEEEEEEcCCCCeEEEEECCceeECCHHHhccCCCEEEEEEcC
Confidence            4456666778999999999999 7899999999997  679999999999999999999999999999983

>d1vjva_ d.3.1.9 (A:) Ubiquitin carboxyl-terminal hydrolase 6 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Ubiquitin carboxyl-terminal hydrolase, UCH
domain: Ubiquitin carboxyl-terminal hydrolase 6
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.86  E-value=3.6e-22  Score=146.01  Aligned_cols=63  Identities=22%  Similarity=0.432  Sum_probs=56.5

Q ss_pred             CCcceEEeEEEEEeeCCCCCceEEEEEEc---CCeEEEEcCCeeeEeCcccccCC-------CcEEEEEEecC
Q psy4215          17 NKRQFRFDNLLKASTIGVHSGHYTAYAIH---EAQWWHFDDSTVMPVDIPALKKC-------KPYILFYVRRV   79 (103)
Q Consensus        17 ~~~~Y~L~avv~H~G~~~~~GHY~~~~~~---~~~W~~~dD~~V~~~~~~~v~~~-------~aYiLfY~r~~   79 (103)
                      ....|+|+|||+|.|.++++|||+||+|+   ++.|++|||+.|+++++++|.+.       .||||||+|.+
T Consensus       324 ~~~~Y~L~aVv~H~G~~~~~GHY~ay~r~~~~~~~W~~~nD~~V~~v~~~~V~~~~~~~~~~~aYlLfY~r~~  396 (397)
T d1vjva_         324 PSCVYNLIGVITHQGANSESGHYQAFIRDELDENKWYKFNDDKVSVVEKEKIESLAGGGESDSALILMYKGFG  396 (397)
T ss_dssp             SSSEEEEEEEEEEESSSTTSSEEEEEEECSSCTTCEEEEETTEEEEECHHHHHGGGCCTTSCEEEEEEEEETT
T ss_pred             CCCCEEEEEEEEEecCCCCCcCeEEEEECCCCCCEEEEEECCCCEECCHHHHHHhhCCCCCCeEEEEEEEecC
Confidence            34679999999999987899999999997   57899999999999999998753       49999999976

>d2gfoa1 d.3.1.9 (A:762-1109) Ubiquitin carboxyl-terminal hydrolase 8 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Ubiquitin carboxyl-terminal hydrolase, UCH
domain: Ubiquitin carboxyl-terminal hydrolase 8
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.85  E-value=6.4e-22  Score=143.60  Aligned_cols=61  Identities=31%  Similarity=0.696  Sum_probs=57.2

Q ss_pred             CCcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccCCCcEEEEEEec
Q psy4215          17 NKRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR   78 (103)
Q Consensus        17 ~~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~r~   78 (103)
                      +..+|+|+|||+|.| ++++|||++|+|+  +++|++|||+.|+++++++|.+.+||||||+|.
T Consensus       286 ~~~~Y~L~avi~H~G-~~~~GHY~~~ik~~~~~~W~~~nD~~V~~v~~~~v~~~~aYlLfY~r~  348 (348)
T d2gfoa1         286 NLKKYNLFSVSNHYG-GLDGGHYTAYCKNAARQRWFKFDDHEVSDISVSSVKSSAAYILFYTSL  348 (348)
T ss_dssp             SCCCBEEEEEEEEES-CTTTCEEEEEEEETTTTEEEEEETTEEEECCHHHHSCTTEEEEEEECC
T ss_pred             CCCCEEEEEEEEEeC-CCCCceEEEEEEeCCcCeEEEEECCcCeECCHHHccCCCcEEEEEEeC
Confidence            456799999999999 8999999999997  789999999999999999999999999999984

>d2ayna1 d.3.1.9 (A:100-482) Ubiquitin carboxyl-terminal hydrolase 14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Ubiquitin carboxyl-terminal hydrolase, UCH
domain: Ubiquitin carboxyl-terminal hydrolase 14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=1e-21  Score=144.44  Aligned_cols=62  Identities=26%  Similarity=0.501  Sum_probs=56.1

Q ss_pred             CCcceEEeEEEEEeeCCCCCceEEEEEEc-CCeEEEEcCCeeeEeCcccccCCC-------cEEEEEEec
Q psy4215          17 NKRQFRFDNLLKASTIGVHSGHYTAYAIH-EAQWWHFDDSTVMPVDIPALKKCK-------PYILFYVRR   78 (103)
Q Consensus        17 ~~~~Y~L~avv~H~G~~~~~GHY~~~~~~-~~~W~~~dD~~V~~~~~~~v~~~~-------aYiLfY~r~   78 (103)
                      ...+|+|+|||+|.|.++.+|||+||+|+ ++.|++|||+.|+++++++|.+..       ||||||.||
T Consensus       314 ~~~~Y~L~avi~H~G~s~~~GHY~a~vk~~~~~W~~~nD~~V~~v~~~~v~~~~~~~~~~~aYiLfY~r~  383 (383)
T d2ayna1         314 NCGYYDLQAVLTHQGRSSSSGHYVSWVKRKQDEWIKFDDDKVSIVTPEDILRLSGGGDWHIAYVLLYGPR  383 (383)
T ss_dssp             CCSEEEEEEEEEEESSSTTSSEEEEEEEEETTEEEEEBTTBCCCBCHHHHGGGGSSSSSCEEEEEEEECC
T ss_pred             CCceEEEEEEEEEECCCCCCCCcEEEEECCCCeEEEEECCceEEeCHHHHHHhhCCCCCCceEEEEEEEC
Confidence            34679999999999977899999999997 889999999999999999987543       999999996

>d1nbfa_ d.3.1.9 (A:) Ubiquitin carboxyl-terminal hydrolase 7 (USP7, HAUSP) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Ubiquitin carboxyl-terminal hydrolase, UCH
domain: Ubiquitin carboxyl-terminal hydrolase 7 (USP7, HAUSP)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.83  E-value=1.2e-21  Score=145.05  Aligned_cols=72  Identities=25%  Similarity=0.490  Sum_probs=60.1

Q ss_pred             eeeeeCCCCCcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccC---------------CCcE
Q psy4215           9 YTYVNDTKNKRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKK---------------CKPY   71 (103)
Q Consensus         9 ~~~~~~~~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~---------------~~aY   71 (103)
                      |...........|+|+|||+|.| +.++|||++|+|+  ++.|++|||+.|++++.++|..               .+||
T Consensus       229 ~~~~~~~~~~~~Y~L~~vI~H~G-~~~~GHY~~~~~~~~~~~W~~fnD~~V~~v~~~ev~~~~~g~~~~~~~~~~~~~aY  307 (347)
T d1nbfa_         229 FLQKTDPKDPANYILHAVLVHSG-DNHGGHYVVYLNPKGDGKWCKFDDDVVSRCTKEEAIEHNYGGHDDDLSVRHCTNAY  307 (347)
T ss_dssp             GBSSCCTTSCCEEEEEEEEEEEE-ETTEEEEEEEECTTSSSCCEEEETTEEEECCHHHHTGGGSCCCCSCCSTTTTEEEE
T ss_pred             ccccccccCccceeeEEEEEecC-CCCCCEEEEeeecCCCCEEEEEECCceEECCHHHHHHhhcCCCccccccCCCCCEE
Confidence            33334455567899999999999 6799999999997  6799999999999999999863               2599


Q ss_pred             EEEEEecCCc
Q psy4215          72 ILFYVRRVPE   81 (103)
Q Consensus        72 iLfY~r~~~~   81 (103)
                      ||||+|++..
T Consensus       308 iLfY~r~~~~  317 (347)
T d1nbfa_         308 MLVYIRESKL  317 (347)
T ss_dssp             EEEEEEGGGH
T ss_pred             EEEEEecCch
Confidence            9999998743