Psyllid ID: psy6731

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------26
Protein Sequence
MSDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDTEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFDPTMKGYALSNSQPIRTVHNSFARYSSEEIRFNLLAVVCDKKMKYEKELAAATQALKDPSLDAATKTAKQNEVVQLKILIEEEAAKLESYRIENIRRKHNYLPLIMNLLKLLAKQGQLVNLYQKAVELNSSKKEKVKP
Secondary Structure (PSIPRED)
cccccccccccccHHHHHHHHHHccccccEEEEcccccccHHcccccccEEEEEccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHcccccHHHHHHHccccHHHHHHHHHccccccccccccccccccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cccccccEEEccccHHHHHHHHHcccccEEEEEEEcccHHHHHHcccEEEEEEEEEcccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHccccHHHHcHHcccHHHHHHHHHHcccccccccEEEEEEEEEcccEEEEEcccccccccccccHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHcccc
Coil and Loop (DISEMBL)
msdagnwcliesdpgvFTELIRGfgvqgvqveelwslepenlkilqpvhGLIFLFKlredtepagsivqdsrLETIFFAKQVVNNACATQAILSILLnnsdpevklgSVLTEFKDFCqsfdptmkgyalsnsqpirtvhnsfarysseEIRFNLLAVVCDKKMKYEKELAAATQAlkdpsldaatKTAKQNEVVQLKILIEEEAAKLESYRIENIRRKHNYLPLIMNLLKLLAKQGQLVNLYQKAVELnsskkekvkp
Flexible Loop (DISEMBL)
MSDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDTEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFDPTMKGYALSNSQPIRTVHNSFARYSSEEIRFNLLAVVCDKKMKYEKELAAATqalkdpsldaatKTAKQNEVVQLKILIEEEAAKLESYRIENIRRKHNYLPLIMNLLKLLAKQGQLVNLYQKAvelnsskkekvkp
Low Complexity Region (SEG)
MSDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDTEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFDPTMKGYALSNSQPIRTVHNSFARYSSEEIRFNLLAVVCDKKMKYEKELAAATQALKDPSLDAATKTAKQNEVVQLKILIEEEAAKLESYRIENIRRKHNYLPLIMNLLKLLAKQGQLVNLYQKAVELNSSKKEKVKP
Disordered region (IsUnstruct)
*****NWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDTEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFDPTMKGYALSNSQPIRTVHNSFARYSSEEIRFNLLAVVCDKKMKYEKELAA*******************NEVVQLKILIEEEAAKLESYRIENIRRKHNYLPLIMNLLKLLAKQGQLVNLYQKAV************
Disordered Region (DISOPRED)
****GNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDTE*******DSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFDPTMKGYALSNSQPIRTVHNSFARYSSEEIRFNLLAVVCDKKMKYE*****************ATKTAKQNEVVQLKILIEEEAAKLESYRIENIRRKHNYLPLIMNLLKLLAKQGQ*********************
Disordered Region (DISEMBL)
MSDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDTEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFDPTMKGYALSNSQPIRTVHNSFARYSSEEIRFNLLAVVCDKKMKYEKELAAATQALKDPSLDAATKTAKQNEVVQLKILIEEEAAKLESYRIENIRRKHNYLPLIMNLLKLLAKQGQLVNLYQKAVEL**********
Disordered Region (DISPRO)
*****NWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDTEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFDPTMKGYALSNSQPIRTVHNSFARYSSEEIRFNLLAVVCDKKMKYEKELAAATQALKDPSLDAATKTAKQNEVVQLKILIEEEAAKLESYRIENIRRKHNYLPLIMNLLKLLAKQGQLVNLYQKAVELNSSK******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDTEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFDPTMKGYALSNSQPIRTVHNSFARYSSEEIRFNLLAVVCDKKMKYEKELAAATQALKDPSLDAATKTAKQNExxxxxxxxxxxxxxxxxxxxxNIRRKHNYLPLIMNLLKLLAKQGQLVNLYQKAVELNSSKKEKVKP
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	258	2.2.26 [Sep-21-2011]
Q9WUP7	329	Ubiquitin carboxyl-termin	yes	N/A	0.534	0.419	0.727	6e-59
Q06AT3	329	Ubiquitin carboxyl-termin	yes	N/A	0.527	0.413	0.720	9e-59
Q9Y5K5	329	Ubiquitin carboxyl-termin	yes	N/A	0.527	0.413	0.720	9e-59
Q9XSJ0	328	Ubiquitin carboxyl-termin	yes	N/A	0.531	0.417	0.720	1e-58
Q09444	321	Probable ubiquitin carbox	yes	N/A	0.968	0.778	0.388	2e-48
Q9UUB6	300	Ubiquitin carboxyl-termin	yes	N/A	0.949	0.816	0.374	3e-40
Q54N38	343	Ubiquitin carboxyl-termin	yes	N/A	0.531	0.399	0.524	2e-33
D3ZHS6	727	Ubiquitin carboxyl-termin	no	N/A	0.503	0.178	0.440	2e-28
A2VDM8	711	Ubiquitin carboxyl-termin	no	N/A	0.503	0.182	0.440	3e-28
Q99PU7	728	Ubiquitin carboxyl-termin	no	N/A	0.503	0.178	0.440	4e-28

>sp|Q9WUP7|UCHL5_MOUSE Ubiquitin carboxyl-terminal hydrolase isozyme L5 OS=Mus musculus GN=Uchl5 PE=2 SV=2

 Score =  227 bits (579), Expect = 6e-59,   Method: Compositional matrix adjust.
 Identities = 104/143 (72%), Positives = 121/143 (84%)

Query: 2   SDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDT 61
           S+AG WCL+ESDPGVFTELI+GFG +G QVEE+WSLEPE+ + L+PVHGLIFLFK +   
Sbjct: 3   SNAGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPESFEKLKPVHGLIFLFKWQPGE 62

Query: 62  EPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFD 121
           EPAGS+VQDSRLETIFFAKQV+NNACATQAI+S+LLN +  +V LG  L+EFK+F QSFD
Sbjct: 63  EPAGSVVQDSRLETIFFAKQVINNACATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFD 122

Query: 122 PTMKGYALSNSQPIRTVHNSFAR 144
             MKG ALSNS  IR VHNSFAR
Sbjct: 123 AAMKGLALSNSDVIRQVHNSFAR 145

Protease that specifically cleaves 'Lys-48'-linked polyubiquitin chains. Deubiquitinating enzyme associated with the 19S regulatory subunit of the 26S proteasome. Putative regulatory component of the INO80 complex; however is inactive in the INO80 complex and is activated by a transient interaction of the INO80 complex with the proteasome via ADRM1.
Mus musculus (taxid: 10090)
EC: 3EC: .EC: 4EC: .EC: 1EC: 9EC: .EC: 1EC: 2

>sp|Q06AT3|UCHL5_PIG Ubiquitin carboxyl-terminal hydrolase isozyme L5 OS=Sus scrofa GN=UCHL5 PE=2 SV=1

 Score =  226 bits (577), Expect = 9e-59,   Method: Compositional matrix adjust.
 Identities = 103/143 (72%), Positives = 120/143 (83%)

Query: 2   SDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDT 61
            +AG WCL+ESDPGVFTELI+GFG +G QVEE+WSLEPEN + L+PVHGLIFLFK +   
Sbjct: 3   GNAGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGE 62

Query: 62  EPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFD 121
           EPAGS+VQDSRL+TIFFAKQV+NNACATQAI+S+LLN +  +V LG  L+EFK+F QSFD
Sbjct: 63  EPAGSVVQDSRLDTIFFAKQVINNACATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFD 122

Query: 122 PTMKGYALSNSQPIRTVHNSFAR 144
             MKG ALSNS  IR VHNSFAR
Sbjct: 123 AAMKGLALSNSDVIRQVHNSFAR 145

Protease that specifically cleaves 'Lys-48'-linked polyubiquitin chains. Deubiquitinating enzyme associated with the 19S regulatory subunit of the 26S proteasome. Putative regulatory component of the INO80 complex; however is inactive in the INO80 complex and is activated by a transient interaction of the INO80 complex with the proteasome via ADRM1.

Sus scrofa (taxid: 9823)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|Q9Y5K5|UCHL5_HUMAN Ubiquitin carboxyl-terminal hydrolase isozyme L5 OS=Homo sapiens GN=UCHL5 PE=1 SV=3

 Score =  226 bits (577), Expect = 9e-59,   Method: Compositional matrix adjust.
 Identities = 103/143 (72%), Positives = 120/143 (83%)

Query: 2   SDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDT 61
            +AG WCL+ESDPGVFTELI+GFG +G QVEE+WSLEPEN + L+PVHGLIFLFK +   
Sbjct: 3   GNAGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGE 62

Query: 62  EPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFD 121
           EPAGS+VQDSRL+TIFFAKQV+NNACATQAI+S+LLN +  +V LG  L+EFK+F QSFD
Sbjct: 63  EPAGSVVQDSRLDTIFFAKQVINNACATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFD 122

Query: 122 PTMKGYALSNSQPIRTVHNSFAR 144
             MKG ALSNS  IR VHNSFAR
Sbjct: 123 AAMKGLALSNSDVIRQVHNSFAR 145

Protease that specifically cleaves 'Lys-48'-linked polyubiquitin chains. Deubiquitinating enzyme associated with the 19S regulatory subunit of the 26S proteasome. Putative regulatory component of the INO80 complex; however is inactive in the INO80 complex and is activated by a transient interaction of the INO80 complex with the proteasome via ADRM1.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|Q9XSJ0|UCHL5_BOVIN Ubiquitin carboxyl-terminal hydrolase isozyme L5 OS=Bos taurus GN=UCHL5 PE=2 SV=1

 Score =  226 bits (577), Expect = 1e-58,   Method: Compositional matrix adjust.
 Identities = 103/143 (72%), Positives = 120/143 (83%)

Query: 2   SDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDT 61
            +AG WCL+ESDPGVFTELI+GFG +G QVEE+WSLEPEN + L+PVHGLIFLFK +   
Sbjct: 3   GNAGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGE 62

Query: 62  EPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFD 121
           EPAGS+VQDSRL+TIFFAKQV+NNACATQAI+S+LLN +  +V LG  L+EFK+F QSFD
Sbjct: 63  EPAGSVVQDSRLDTIFFAKQVINNACATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFD 122

Query: 122 PTMKGYALSNSQPIRTVHNSFAR 144
             MKG ALSNS  IR VHNSFAR
Sbjct: 123 AAMKGLALSNSDVIRQVHNSFAR 145

Protease that specifically cleaves 'Lys-48'-linked polyubiquitin chains. Deubiquitinating enzyme associated with the 19S regulatory subunit of the 26S proteasome. Putative regulatory component of the INO80 complex; however is inactive in the INO80 complex and is activated by a transient interaction of the INO80 complex with the proteasome via ADRM1.

Bos taurus (taxid: 9913)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|Q09444|UBH4_CAEEL Probable ubiquitin carboxyl-terminal hydrolase ubh-4 OS=Caenorhabditis elegans GN=ubh-4 PE=3 SV=2

 Score =  192 bits (488), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 122/314 (38%), Positives = 175/314 (55%), Gaps = 64/314 (20%)

Query: 1   MSDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLRED 60
           M+DAG+WCLIESDPGVFTE++RGFGV G+QVEEL+SL+ ++  + +P +GLIFLFK R+ 
Sbjct: 1   MTDAGSWCLIESDPGVFTEMLRGFGVDGLQVEELYSLD-DDKAMTRPTYGLIFLFKWRQG 59

Query: 61  TEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSF 120
            E  G I  D   + IFFA Q + NACATQA++++L+N  D +VKLG++L ++K+F    
Sbjct: 60  DETTG-IPSDK--QNIFFAHQTIQNACATQALINLLMNVEDTDVKLGNILNQYKEFAIDL 116

Query: 121 DPTMKGYALSNSQPIRTVHNSFARYS---------SEEIRFNLLAVVCDKKMKYE----K 167
           DP  +G+ LSNS+ IRTVHNSF+R +           E  ++ +  V      YE    +
Sbjct: 117 DPNTRGHCLSNSEEIRTVHNSFSRQTLFELDIKGGESEDNYHFVTYVPIGNKVYELDGLR 176

Query: 168 EL---AAATQALKD------PSLDAATKTAKQNEVV-QLKILI----------------- 200
           EL    A  Q  +D      P +    +   + E+   L  L+                 
Sbjct: 177 ELPLEVAEFQKEQDWIEAIKPVIQQRMQKYSEGEITFNLMALVPNRKQKLQEMMENLIQA 236

Query: 201 ------EEEAAKL------ESYRIE-----NIRRKHNYLPLIMNLLKLLAKQGQLVNLYQ 243
                 EE+ A L      E Y++E     N RR+HNY P ++ L+K+LAK+G+LV L  
Sbjct: 237 NENNELEEQIADLNKAIADEDYKMEMYRKENNRRRHNYTPFVIELMKILAKEGKLVGLVD 296

Query: 244 KAVELNSSKKEKVK 257
            A +   + KEK K
Sbjct: 297 NAYQ---AAKEKSK 307

Ubiquitin-protein hydrolase is involved both in the processing of ubiquitin precursors and of ubiquitinated proteins. This enzyme is a thiol protease that recognizes and hydrolyzes a peptide bond at the C-terminal glycine of ubiquitin.

Caenorhabditis elegans (taxid: 6239)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|Q9UUB6|UBLH2_SCHPO Ubiquitin carboxyl-terminal hydrolase 2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=uch2 PE=1 SV=1

 Score =  165 bits (417), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 110/294 (37%), Positives = 163/294 (55%), Gaps = 49/294 (16%)

Query: 6   NWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDTE-PA 64
           +W  IESD GVFT+LI   GV+ V+V+EL+SL+ ++L+    ++G+IFLFK     + P 
Sbjct: 2   SWTTIESDAGVFTDLIENLGVKDVEVDELYSLDVDSLRQFPDIYGIIFLFKWNSKVDKPD 61

Query: 65  GSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFDPTM 124
           G++  DS ++ IFFAKQV+NNACATQA+LS+LLN+SD E+ LG+ L+EFKDF ++  P +
Sbjct: 62  GTMDYDS-MDNIFFAKQVINNACATQALLSVLLNHSD-EIDLGTTLSEFKDFSKTLPPEL 119

Query: 125 KGYALSNSQPIRTVHNSFAR---YSSEEIR--------FNLLAVV--------------- 158
           KG AL NS+ IR  HNSFAR   + SEE+R        ++ +A                 
Sbjct: 120 KGEALGNSEHIRCCHNSFARSDPFISEEVRAATDEDEVYHFIAYTNINNVFYELDGLQAA 179

Query: 159 ------CDKKMKYEKELAA--ATQALKDPS-----LDAATKTAKQNEVVQLKILIEEEAA 205
                 C K+   EK ++   A  A  DP+     L    K  K + + +  +  EE+AA
Sbjct: 180 PINHGSCTKEEFAEKAVSVIQARIANYDPAEIRFNLMVICKDKKASLLTREDLTDEEKAA 239

Query: 206 KLE-------SYRIENIRRKHNYLPLIMNLLKLLAKQGQLVNLYQKAVELNSSK 252
            +         ++ EN  R+HN++ L + L KLL K     N +   +E   +K
Sbjct: 240 SIAVEDEKRLRWKRENQLRRHNFVGLFVELSKLLVKDRIDKNTWNSTLETAKAK 293

Ubiquitin-protein hydrolase is involved both in the processing of ubiquitin precursors and of ubiquitinated proteins. This enzyme is a thiol protease that recognizes and hydrolyzes a peptide bond at the C-terminal glycine of ubiquitin.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|Q54N38|UCHL5_DICDI Ubiquitin carboxyl-terminal hydrolase isozyme L5 OS=Dictyostelium discoideum GN=uch2 PE=3 SV=1

 Score =  143 bits (360), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 75/143 (52%), Positives = 95/143 (66%), Gaps = 6/143 (4%)

Query: 1   MSDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLRED 60
           MS+   WC IESDPGVFTELI   GV+ +QVEEL++L+      L+PV GLIFLFK  ++
Sbjct: 1   MSENEGWCTIESDPGVFTELITKIGVKDIQVEELYTLDSSEYDRLKPVLGLIFLFKWEKE 60

Query: 61  TEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSF 120
            E     + D+  E IFFA QV+ NACATQAILS+LLN+    ++LG  L+ FK F   F
Sbjct: 61  EE--NRTISDN--ENIFFANQVIQNACATQAILSVLLNSEG--IELGEELSNFKSFVGDF 114

Query: 121 DPTMKGYALSNSQPIRTVHNSFA 143
            P MKG A+ NS+ I+  HNSF 
Sbjct: 115 PPMMKGEAIGNSELIKETHNSFT 137

Protease that specifically cleaves 'Lys-48'-linked polyubiquitin chains. Deubiquitinating enzyme associated with the 19S regulatory subunit of the 26S proteasome.

Dictyostelium discoideum (taxid: 44689)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|D3ZHS6|BAP1_RAT Ubiquitin carboxyl-terminal hydrolase BAP1 OS=Rattus norvegicus GN=Bap1 PE=3 SV=2

 Score =  125 bits (315), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 67/152 (44%), Positives = 92/152 (60%), Gaps = 22/152 (14%)

Query: 6   NWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFK--------- 56
            W  +ESDPG+FT L+  FGV+GVQVEE++ L+    K   PV+G IFLFK         
Sbjct: 4   GWLELESDPGLFTLLVEDFGVKGVQVEEIYDLQ---SKCQGPVYGFIFLFKWIEERRSRR 60

Query: 57  ----LREDTEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTE 112
               L +DT    S++ D  + ++FFA Q++ N+CAT A+LS+LLN S+  V LG  L+ 
Sbjct: 61  KVSTLVDDT----SVIDDDIVNSMFFAHQLIPNSCATHALLSVLLNCSN--VDLGPTLSR 114

Query: 113 FKDFCQSFDPTMKGYALSNSQPIRTVHNSFAR 144
            KDF + F P  KGYA+ N+  +   HNS AR
Sbjct: 115 MKDFTKGFSPESKGYAIGNAPELAKAHNSHAR 146

Deubiquitinating enzyme that plays a key role in chromatin by mediating deubiquitination of histone H2A and HCFC1. Catalytic component of the PR-DUB complex, a complex that specifically mediates deubiquitination of histone H2A monoubiquitinated at 'Lys-119' (H2AK119ub1). Does not deubiquitinate monoubiquitinated histone H2B. Acts as a regulator of cell growth by mediating deubiquitination of HCFC1 N-terminal and C-terminal chains, with some specificity toward 'Lys-48'-linked polyubiquitin chains compared to 'Lys-63'-linked polyubiquitin chains. Deubiquitination of HCFC1 does not lead to increase stability of HCFC1. Interferes with the BRCA1 and BARD1 heterodimer activity by inhibiting their ability to mediate ubiquitination and autoubiquitination. It however does not mediate deubiquitination of BRCA1 and BARD1. Acts as a tumor suppressor.

Rattus norvegicus (taxid: 10116)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|A2VDM8|BAP1_BOVIN Ubiquitin carboxyl-terminal hydrolase BAP1 OS=Bos taurus GN=BAP1 PE=2 SV=1

 Score =  125 bits (314), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 67/152 (44%), Positives = 91/152 (59%), Gaps = 22/152 (14%)

Query: 6   NWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFK--------- 56
            W  +ESDPG+FT L+  FGV+GVQVEE++ L+    K   PV+G IFLFK         
Sbjct: 4   GWLELESDPGLFTLLVEDFGVKGVQVEEIYDLQ---SKCQGPVYGFIFLFKWIEERRSRR 60

Query: 57  ----LREDTEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTE 112
               L +DT    S++ D  +  +FFA Q++ N+CAT A+LS+LLN S+  V LG  L+ 
Sbjct: 61  KVSTLVDDT----SVIDDDIVNNMFFAHQLIPNSCATHALLSVLLNCSN--VDLGPTLSR 114

Query: 113 FKDFCQSFDPTMKGYALSNSQPIRTVHNSFAR 144
            KDF + F P  KGYA+ N+  +   HNS AR
Sbjct: 115 MKDFTKGFSPESKGYAIGNAPELAKAHNSHAR 146

Deubiquitinating enzyme that plays a key role in chromatin by mediating deubiquitination of histone H2A and HCFC1. Catalytic component of the PR-DUB complex, a complex that specifically mediates deubiquitination of histone H2A monoubiquitinated at 'Lys-119' (H2AK119ub1). Does not deubiquitinate monoubiquitinated histone H2B. Acts as a regulator of cell growth by mediating deubiquitination of HCFC1 N-terminal and C-terminal chains, with some specificity toward 'Lys-48'-linked polyubiquitin chains compared to 'Lys-63'-linked polyubiquitin chains. Deubiquitination of HCFC1 does not lead to increase stability of HCFC1. Interferes with the BRCA1 and BARD1 heterodimer activity by inhibiting their ability to mediate ubiquitination and autoubiquitination. It however does not mediate deubiquitination of BRCA1 and BARD1. Acts as a tumor suppressor.

Bos taurus (taxid: 9913)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|Q99PU7|BAP1_MOUSE Ubiquitin carboxyl-terminal hydrolase BAP1 OS=Mus musculus GN=Bap1 PE=1 SV=1

 Score =  125 bits (313), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 67/152 (44%), Positives = 91/152 (59%), Gaps = 22/152 (14%)

Query: 6   NWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFK--------- 56
            W  +ESDPG+FT L+  FGV+GVQVEE++ L+    K   PV+G IFLFK         
Sbjct: 4   GWLELESDPGLFTLLVEDFGVKGVQVEEIYDLQ---SKCQGPVYGFIFLFKWIEERRSRR 60

Query: 57  ----LREDTEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTE 112
               L +DT    S++ D  +  +FFA Q++ N+CAT A+LS+LLN S+  V LG  L+ 
Sbjct: 61  KVSTLVDDT----SVIDDDIVNNMFFAHQLIPNSCATHALLSVLLNCSN--VDLGPTLSR 114

Query: 113 FKDFCQSFDPTMKGYALSNSQPIRTVHNSFAR 144
            KDF + F P  KGYA+ N+  +   HNS AR
Sbjct: 115 MKDFTKGFSPESKGYAIGNAPELAKAHNSHAR 146

Deubiquitinating enzyme that plays a key role in chromatin by mediating deubiquitination of histone H2A and HCFC1. Catalytic component of the PR-DUB complex, a complex that specifically mediates deubiquitination of histone H2A monoubiquitinated at 'Lys-119' (H2AK119ub1). Does not deubiquitinate monoubiquitinated histone H2B. Acts as a regulator of cell growth by mediating deubiquitination of HCFC1 N-terminal and C-terminal chains, with some specificity toward 'Lys-48'-linked polyubiquitin chains compared to 'Lys-63'-linked polyubiquitin chains. Deubiquitination of HCFC1 does not lead to increase stability of HCFC1. Interferes with the BRCA1 and BARD1 heterodimer activity by inhibiting their ability to mediate ubiquitination and autoubiquitination. It however does not mediate deubiquitination of BRCA1 and BARD1. Acts as a tumor suppressor.

Mus musculus (taxid: 10090)

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	258
260794993	300	hypothetical protein BRAFLDRAFT_118926 [	0.988	0.85	0.542	5e-83
348532151	300	PREDICTED: ubiquitin carboxyl-terminal h	0.968	0.833	0.549	1e-81
432855295	300	PREDICTED: ubiquitin carboxyl-terminal h	0.968	0.833	0.542	4e-79
410921992	307	PREDICTED: ubiquitin carboxyl-terminal h	0.968	0.814	0.523	9e-79
213515214	298	ubiquitin carboxyl-terminal hydrolase is	0.968	0.838	0.519	1e-75
348577983	320	PREDICTED: ubiquitin carboxyl-terminal h	0.976	0.787	0.492	2e-73
57529689	297	ubiquitin carboxyl-terminal hydrolase is	0.976	0.848	0.517	8e-73
66499314	311	PREDICTED: ubiquitin carboxyl-terminal h	0.992	0.823	0.498	8e-68
350401284	311	PREDICTED: ubiquitin carboxyl-terminal h	0.968	0.803	0.495	9e-68
340720665	311	PREDICTED: ubiquitin carboxyl-terminal h	0.968	0.803	0.492	1e-67

>gi|260794993|ref|XP_002592491.1| hypothetical protein BRAFLDRAFT_118926 [Branchiostoma floridae] gi|229277711|gb|EEN48502.1| hypothetical protein BRAFLDRAFT_118926 [Branchiostoma floridae]

 Score =  313 bits (802), Expect = 5e-83,   Method: Compositional matrix adjust.
 Identities = 159/293 (54%), Positives = 200/293 (68%), Gaps = 38/293 (12%)

Query: 1   MSDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLRED 60
           MSD G WCLIESDPGVFTELI+GFGV+G+QVEE+WSL+PEN   L+PVHGLIFLFK +++
Sbjct: 1   MSDGGEWCLIESDPGVFTELIKGFGVKGLQVEEIWSLDPENFDKLKPVHGLIFLFKWQQE 60

Query: 61  TEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSF 120
            EP+GS+VQDSRL+ IFFAKQV+NNACATQAILS+LLN   P+++LG  L  FK+F Q F
Sbjct: 61  EEPSGSVVQDSRLDHIFFAKQVINNACATQAILSVLLNCRHPDIELGETLANFKEFVQHF 120

Query: 121 DPTMKGYALSNSQPIRTVHNSFAR------------------------------YSSEEI 150
           D TMKG +LSNS  IR VHNSFAR                              Y   EI
Sbjct: 121 DATMKGLSLSNSDVIRNVHNSFARQQMFEFDVKSAGKDDDVYHFVGYIPIDGRLYQDGEI 180

Query: 151 RFNLLAVVCDKKMKYEKELA---AATQALKDPS-LDAATKTAKQNEVVQLKILIEEEAAK 206
            FNL+AVV D+KM YE++L    A   A++D S ++       Q+E+ +L +LI EE  K
Sbjct: 181 HFNLMAVVSDRKMTYERQLTDLQAQLAAIQDGSAMETDQSDTIQSEIGKLHMLIGEEEQK 240

Query: 207 LESYRIENIRRKHNYLPLIMNLLKLLAKQGQLVNLYQKA----VELNSSKKEK 255
           +  Y+ EN+RRKHNYLP+IM LLK+LA++G+LV+L +KA     EL S K  K
Sbjct: 241 MRRYKTENLRRKHNYLPMIMELLKILAQEGKLVSLVEKAKDKTAELQSKKDAK 293

Source: Branchiostoma floridae

Species: Branchiostoma floridae

Genus: Branchiostoma

Family: Branchiostomidae

Phylum: Chordata

Superkingdom: Eukaryota

>gi|348532151|ref|XP_003453570.1| PREDICTED: ubiquitin carboxyl-terminal hydrolase isozyme L5-like isoform 2 [Oreochromis niloticus]

 Score =  308 bits (790), Expect = 1e-81,   Method: Compositional matrix adjust.
 Identities = 160/291 (54%), Positives = 198/291 (68%), Gaps = 41/291 (14%)

Query: 4   AGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDTEP 63
           AG WCL+ESDPGVFTELI+GFG +G QVEE+WS+EPEN + L+PVHGLIFLFK +   EP
Sbjct: 5   AGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSMEPENFENLKPVHGLIFLFKWQPGEEP 64

Query: 64  AGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFDPT 123
           AGSIVQDSRL+ IFFAKQV+NNACATQAI+S+LLN S P++ LG  LTEF++F QSFD  
Sbjct: 65  AGSIVQDSRLDHIFFAKQVINNACATQAIISVLLNCSHPDMLLGDTLTEFREFSQSFDAA 124

Query: 124 MKGYALSNSQPIRTVHNSFAR------------------------------------YSS 147
           MKG ALSNS+ IR VHNSFAR                                    YS 
Sbjct: 125 MKGLALSNSEVIRQVHNSFARLYELDGLREGPIDLGACNQDDWISAVRPVIEKRIQKYSE 184

Query: 148 EEIRFNLLAVVCDKKMKYEKELAA-ATQALKDPSLDAATK----TAKQNEVVQLKILIEE 202
            EIRFNL+A+V D+KM YE+++A    Q  +D  +D        ++ Q+E+ + ++LIEE
Sbjct: 185 GEIRFNLMAIVSDRKMIYERKIAELQAQLTEDEPMDTDQSSTFLSSIQSEIAKYQLLIEE 244

Query: 203 EAAKLESYRIENIRRKHNYLPLIMNLLKLLAKQGQLVNLYQKAVELNSSKK 253
           E  KL+ Y+IENIRRKHNYLP IM LLK LA+  QL+ L +KA E  S+KK
Sbjct: 245 ENQKLKRYKIENIRRKHNYLPFIMELLKTLAEYQQLIPLVEKAKEKQSAKK 295

Source: Oreochromis niloticus

Species: Oreochromis niloticus

Genus: Oreochromis

Family: Cichlidae

Order: Perciformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|432855295|ref|XP_004068150.1| PREDICTED: ubiquitin carboxyl-terminal hydrolase isozyme L5-like isoform 2 [Oryzias latipes]

 Score =  300 bits (768), Expect = 4e-79,   Method: Compositional matrix adjust.
 Identities = 158/291 (54%), Positives = 198/291 (68%), Gaps = 41/291 (14%)

Query: 4   AGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDTEP 63
           AG WCL+ESDPGVFTELI+GFG +G QVEE+WS+EPEN + L+PVHGLIFLFK +   EP
Sbjct: 5   AGEWCLMESDPGVFTELIKGFGCKGAQVEEIWSMEPENFENLKPVHGLIFLFKWQPGEEP 64

Query: 64  AGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFDPT 123
           AGSIVQDSRL+ IFFAKQV+NNACATQAI+S+LLN S  ++ LG  L+EF++F QSFD  
Sbjct: 65  AGSIVQDSRLDHIFFAKQVINNACATQAIVSVLLNCSHSDIVLGDTLSEFREFSQSFDAA 124

Query: 124 MKGYALSNSQPIRTVHNSFAR------------------------------------YSS 147
           MKG ALSNS+ IR VHNSFAR                                    YS 
Sbjct: 125 MKGLALSNSEVIRQVHNSFARLYELDGLREGPIDLGACNQDDWINAVRPVIEKRIQKYSE 184

Query: 148 EEIRFNLLAVVCDKKMKYEKELAA-ATQALKDPSLDA----ATKTAKQNEVVQLKILIEE 202
            EIRFNL+++V D+KM YEK++A    Q  +D  +D     +  ++ Q+E+ + ++LIEE
Sbjct: 185 GEIRFNLMSIVSDRKMIYEKKIAELQAQLTEDEPMDTDQSSSFLSSIQSEIAKYQLLIEE 244

Query: 203 EAAKLESYRIENIRRKHNYLPLIMNLLKLLAKQGQLVNLYQKAVELNSSKK 253
           E  KL+ Y+IENIRRKHNYLP IM LLK LA+  QL+ L +KA E  S+KK
Sbjct: 245 ENQKLKRYKIENIRRKHNYLPFIMELLKTLAEYQQLMPLVEKAKEKQSAKK 295

Source: Oryzias latipes

Species: Oryzias latipes

Genus: Oryzias

Family: Adrianichthyidae

Order: Beloniformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|410921992|ref|XP_003974467.1| PREDICTED: ubiquitin carboxyl-terminal hydrolase isozyme L5-like isoform 2 [Takifugu rubripes]

 Score =  299 bits (765), Expect = 9e-79,   Method: Compositional matrix adjust.
 Identities = 156/298 (52%), Positives = 195/298 (65%), Gaps = 48/298 (16%)

Query: 4   AGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDTEP 63
           AG WCL+ESDPGVFTELI+GFG +G QVEE+WS+EPEN   L+PVHGLIFLFK +   EP
Sbjct: 5   AGEWCLMESDPGVFTELIKGFGCKGAQVEEIWSMEPENFDNLKPVHGLIFLFKWQPGEEP 64

Query: 64  AGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFDPT 123
           AGSIVQDSRL+ IFFAKQV+NNACATQAI+S+LLN    ++ LG  LTEF++F QSFD  
Sbjct: 65  AGSIVQDSRLDQIFFAKQVINNACATQAIVSVLLNCFHSDMSLGDTLTEFREFSQSFDAA 124

Query: 124 MKGYALSNSQPIRTVHNSFA---------------------------------------- 143
           MKG ALSNS+ IR VHN FA                                        
Sbjct: 125 MKGLALSNSEVIRQVHNGFASYVPVNGRLYELDGLREGPIDLGVCNQDDWISAVRPVIEK 184

Query: 144 ---RYSSEEIRFNLLAVVCDKKMKYEKELAA-ATQALKDPSLDAATK----TAKQNEVVQ 195
              +YS  EIRFNL+A+V D+KM YE+++A   TQ  +D  +D        ++ Q+E+ +
Sbjct: 185 RIQKYSEGEIRFNLMAIVSDRKMIYERKIAELQTQLTQDEPMDTDQSSTFLSSIQSEIAK 244

Query: 196 LKILIEEEAAKLESYRIENIRRKHNYLPLIMNLLKLLAKQGQLVNLYQKAVELNSSKK 253
            ++LIEEE  KL+ Y++ENIRRKHNYLP IM LLK LA+  QL+ L +KA E  S+KK
Sbjct: 245 YQLLIEEENQKLKRYKVENIRRKHNYLPFIMELLKTLAEHQQLMPLVEKAKEKQSAKK 302

Source: Takifugu rubripes

Species: Takifugu rubripes

Genus: Takifugu

Family: Tetraodontidae

Order: Tetraodontiformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|213515214|ref|NP_001133540.1| ubiquitin carboxyl-terminal hydrolase isozyme L5 [Salmo salar] gi|209154410|gb|ACI33437.1| Ubiquitin carboxyl-terminal hydrolase isozyme L5 [Salmo salar]

 Score =  289 bits (739), Expect = 1e-75,   Method: Compositional matrix adjust.
 Identities = 150/289 (51%), Positives = 191/289 (66%), Gaps = 39/289 (13%)

Query: 4   AGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDTEP 63
           AG WCL+ESDPGVFTELI+GFG +G QVEE+WS+EPEN + L+PVHGLIFLFK +    P
Sbjct: 5   AGEWCLMESDPGVFTELIKGFGCKGAQVEEIWSMEPENFENLKPVHGLIFLFKWQPGEAP 64

Query: 64  AGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFDPT 123
           AGSIVQDSRL+ IFFAKQV+NNACATQAI+S+LLN +  ++ LG  LTEF++F  SFD  
Sbjct: 65  AGSIVQDSRLDNIFFAKQVINNACATQAIVSVLLNCTHSDMLLGETLTEFREFSLSFDAA 124

Query: 124 MKGYALSNSQPIRTVHNS----------------------------------FARYSSEE 149
           MKG ALSNS+ IR VHN                                     +YS  E
Sbjct: 125 MKGLALSNSEVIRQVHNGRLYELDGLREGPIDLGVCNQDDWINAVRPVIEKRIQKYSEGE 184

Query: 150 IRFNLLAVVCDKKMKYEKELAA-----ATQALKDPSLDAATKTAKQNEVVQLKILIEEEA 204
           IRFNL+A+V D+KM YE+++A      A +   D    +   ++ Q+E+ + ++LI+EE 
Sbjct: 185 IRFNLMAIVSDRKMIYERKIAELQIQLAEEEPMDTDQSSTLLSSIQSEIAKYQLLIDEEN 244

Query: 205 AKLESYRIENIRRKHNYLPLIMNLLKLLAKQGQLVNLYQKAVELNSSKK 253
            KL+ Y+IENIRRKHNYLP IM LLK LA+  QL+ L +KA E  S+KK
Sbjct: 245 QKLKRYKIENIRRKHNYLPFIMELLKTLAEYQQLIPLVEKAKEKQSAKK 293

Source: Salmo salar

Species: Salmo salar

Genus: Salmo

Family: Salmonidae

Order: Salmoniformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|348577983|ref|XP_003474763.1| PREDICTED: ubiquitin carboxyl-terminal hydrolase isozyme L5-like [Cavia porcellus]

 Score =  281 bits (719), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 154/313 (49%), Positives = 193/313 (61%), Gaps = 61/313 (19%)

Query: 2   SDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDT 61
            +AG WCL+ESDPGVFTELI+GFG +G QVEE+WSLEPEN + L+PVHGLIFLFK +   
Sbjct: 3   GNAGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGE 62

Query: 62  EPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFD 121
           EPAGS+VQDSRL+TIFFAKQV+NNACATQAI+S+LLN +  +V LG  L+EFK+F QSFD
Sbjct: 63  EPAGSVVQDSRLDTIFFAKQVINNACATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFD 122

Query: 122 PTMKGYALSNSQPIRTVHNSFARY----------SSEEIRFNLLA--------------- 156
             MKG ALSNS  IR VHNSFAR           + EE  F+ ++               
Sbjct: 123 AAMKGLALSNSDVIRQVHNSFARQQMFEFDAKTSAKEEDAFHFVSYVPVNGRLYELDGLR 182

Query: 157 -------------------------------VVCDKKMKYEKELAAATQALK-----DPS 180
                                          +V D+KM YE+++A   + L      D  
Sbjct: 183 EGPIDLVQLRPVIEKWIQKYSEGEIRFNLMAIVSDRKMIYEQKIAELQRQLAEEEPMDTD 242

Query: 181 LDAATKTAKQNEVVQLKILIEEEAAKLESYRIENIRRKHNYLPLIMNLLKLLAKQGQLVN 240
                 +A Q+EV + ++LIEEE  KL+ Y+IENIRRKHNYLP IM LLK LA+  QL+ 
Sbjct: 243 QGNNMLSAIQSEVAKNQMLIEEEVQKLKRYKIENIRRKHNYLPFIMELLKTLAEHQQLIP 302

Query: 241 LYQKAVELNSSKK 253
           L +KA E  ++KK
Sbjct: 303 LVEKAKEKQNAKK 315

Source: Cavia porcellus

Species: Cavia porcellus

Genus: Cavia

Family: Caviidae

Order: Rodentia

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|57529689|ref|NP_001006530.1| ubiquitin carboxyl-terminal hydrolase isozyme L5 [Gallus gallus] gi|53131115|emb|CAG31792.1| hypothetical protein RCJMB04_11d7 [Gallus gallus]

 Score =  279 bits (714), Expect = 8e-73,   Method: Compositional matrix adjust.
 Identities = 149/288 (51%), Positives = 192/288 (66%), Gaps = 36/288 (12%)

Query: 2   SDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDT 61
           S AG WCL+ESDPGVFTELI+GFG +G QVEE+WSLEPEN + L+P+HGLIFLFK +   
Sbjct: 5   SSAGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPIHGLIFLFKWQPGE 64

Query: 62  EPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFD 121
           EPAGS+VQDSRL+TIFFAKQV+NNACATQAI+S+LLN +  +++LG  L+EFK+F QSFD
Sbjct: 65  EPAGSVVQDSRLDTIFFAKQVINNACATQAIVSVLLNCAHQDIRLGETLSEFKEFSQSFD 124

Query: 122 PTMKGYALSNSQPIRTVHNSFARY----------SSEEIRFNLLAVVCDKKMKYE----- 166
             MKG ALSNS+ IR VHNSFAR           + EE  F+ ++ V      YE     
Sbjct: 125 AAMKGLALSNSEVIRQVHNSFARQQMFEFDAKSSAKEEDAFHFVSYVPVNGRLYELDGLR 184

Query: 167 ---KELAAATQ----ALKDPSLDAATK--------------TAKQNEVVQLKILIEEEAA 205
               +L +  Q    +   P ++   +              ++ Q+EV + ++LIEEE  
Sbjct: 185 EGPIDLGSCNQDDWISAVRPVIEKRIQKEEPMETDQSSNMLSSIQSEVAKYQMLIEEENQ 244

Query: 206 KLESYRIENIRRKHNYLPLIMNLLKLLAKQGQLVNLYQKAVELNSSKK 253
           KL+ Y+IENIRRKHNYLP IM LLK LA+  QL+ L +KA E  ++KK
Sbjct: 245 KLKRYKIENIRRKHNYLPFIMELLKTLAEHQQLIPLVEKAKEKQNAKK 292

Source: Gallus gallus

Species: Gallus gallus

Genus: Gallus

Family: Phasianidae

Order: Galliformes

Class: Aves

Phylum: Chordata

Superkingdom: Eukaryota

>gi|66499314|ref|XP_397252.2| PREDICTED: ubiquitin carboxyl-terminal hydrolase isozyme L5 [Apis mellifera]

 Score =  263 bits (671), Expect = 8e-68,   Method: Compositional matrix adjust.
 Identities = 155/311 (49%), Positives = 191/311 (61%), Gaps = 55/311 (17%)

Query: 1   MSD-AGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLRE 59
           M+D AGNWCLIESDPGVFTELI+ FGVQG QVEELWSL+ E    L+P+HGLIFLFK  +
Sbjct: 1   MADSAGNWCLIESDPGVFTELIKEFGVQGAQVEELWSLDDEQFDNLKPIHGLIFLFKWVQ 60

Query: 60  DTEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQS 119
           D EP+GSIV D+RL+ IFFAKQV+NNACATQAILS+LLN    ++ LG  L EFK+FCQS
Sbjct: 61  DDEPSGSIVLDNRLDKIFFAKQVINNACATQAILSVLLNCKHSDISLGPNLEEFKNFCQS 120

Query: 120 FDPTMKGYALSNSQPIRTVHNSFAR-----YSSEEIR-----FNLLAVVCDKKMKYEKE- 168
           FD  M+G ALSNS  IR VHNSF+R     Y S++       F+ ++ V      YE + 
Sbjct: 121 FDANMRGLALSNSDVIREVHNSFSRQTIFEYDSKQASKDDDVFHFVSYVPIDGRLYELDG 180

Query: 169 -----LAAATQALKDPSLDAAT--------------------------KTAKQNEVV--- 194
                +      L D  + AA                           KT  + ++    
Sbjct: 181 LKDGPMDLGPCPLGDQWVQAAKPIIQKRINKYNEGEIHFNLMAIVTDRKTVYERQIANVC 240

Query: 195 ------QLKILIEEEAAKLESYRIENIRRKHNYLPLIMNLLKLLAKQGQLVNLYQKAVEL 248
                 +L+ LIE+E  K + Y+IENIRRKHNYLPLIM LLK+LAK+G+LV LYQ+A E 
Sbjct: 241 DPTELERLQTLIEKEIRKSKRYQIENIRRKHNYLPLIMELLKMLAKEGKLVPLYQRAKEK 300

Query: 249 ---NSSKKEKV 256
                SKK KV
Sbjct: 301 ALEKESKKNKV 311

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350401284|ref|XP_003486108.1| PREDICTED: ubiquitin carboxyl-terminal hydrolase isozyme L5-like [Bombus impatiens]

 Score =  262 bits (670), Expect = 9e-68,   Method: Compositional matrix adjust.
 Identities = 157/317 (49%), Positives = 189/317 (59%), Gaps = 67/317 (21%)

Query: 1   MSD-AGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLRE 59
           M+D AGNWCLIESDPGVFTELI+ FGVQG QVEELWSL+ E    L+P+HGLIFLFK  +
Sbjct: 1   MADSAGNWCLIESDPGVFTELIKEFGVQGAQVEELWSLDDEQFDNLKPIHGLIFLFKWVQ 60

Query: 60  DTEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQS 119
           D EP+GSIV D+RL+ IFFAKQV+NNACATQAILS+LLN    +V LG  L EFK+FCQS
Sbjct: 61  DDEPSGSIVLDNRLDKIFFAKQVINNACATQAILSVLLNCKHSDVSLGPNLEEFKNFCQS 120

Query: 120 FDPTMKGYALSNSQPIRTVHNSFAR-----YSSEEIR-----FNLLAVVCDKKMKYEKEL 169
           FD  M+G ALSNS  IR VHNSF+R     Y S++       F+ ++ V      YE   
Sbjct: 121 FDANMRGLALSNSDVIREVHNSFSRQTIFEYDSKQASKDDDVFHFVSYVPIDGRLYE--- 177

Query: 170 AAATQALKDPSLDAA-----------------TKTAKQNE-------------------- 192
                 LKD  +D                    +  K NE                    
Sbjct: 178 ---LDGLKDGPMDLGPCPLGDQWVQSAKPIIQKRINKYNEGEIHFNLMAIVTDRKVVYER 234

Query: 193 ----------VVQLKILIEEEAAKLESYRIENIRRKHNYLPLIMNLLKLLAKQGQLVNLY 242
                     + +L+ LIE+E  K + Y+IENIRRKHNYLPLIM LLK+LAK+G+LV LY
Sbjct: 235 QIANVCDPAELERLQTLIEKEIRKSKRYQIENIRRKHNYLPLIMELLKMLAKEGKLVPLY 294

Query: 243 QKAVEL---NSSKKEKV 256
           Q+A E      SKK KV
Sbjct: 295 QRAKEKALEKESKKNKV 311

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340720665|ref|XP_003398753.1| PREDICTED: ubiquitin carboxyl-terminal hydrolase isozyme L5-like [Bombus terrestris]

 Score =  262 bits (669), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 156/317 (49%), Positives = 189/317 (59%), Gaps = 67/317 (21%)

Query: 1   MSD-AGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLRE 59
           M+D AGNWCLIESDPGVFTELI+ FGVQG QVEELWSL+ E    L+P+HGLIFLFK  +
Sbjct: 1   MADSAGNWCLIESDPGVFTELIKEFGVQGAQVEELWSLDDEQFDNLKPIHGLIFLFKWVQ 60

Query: 60  DTEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQS 119
           D EP+GSIV D+RL+ IFFAKQV+NNACATQAILS+LLN    ++ LG  L EFK+FCQS
Sbjct: 61  DDEPSGSIVLDNRLDKIFFAKQVINNACATQAILSVLLNCKHSDISLGPNLEEFKNFCQS 120

Query: 120 FDPTMKGYALSNSQPIRTVHNSFAR-----YSSEEIR-----FNLLAVVCDKKMKYEKEL 169
           FD  M+G ALSNS  IR VHNSF+R     Y S++       F+ ++ V      YE   
Sbjct: 121 FDANMRGLALSNSDVIREVHNSFSRQTIFEYDSKQASKDDDVFHFVSYVPIDGRLYE--- 177

Query: 170 AAATQALKDPSLDAA-----------------TKTAKQNE-------------------- 192
                 LKD  +D                    +  K NE                    
Sbjct: 178 ---LDGLKDGPMDLGPCPLGDQWVQSAKPIIQKRINKYNEGEIHFNLMAIVTDRKVVYER 234

Query: 193 ----------VVQLKILIEEEAAKLESYRIENIRRKHNYLPLIMNLLKLLAKQGQLVNLY 242
                     + +L+ LIE+E  K + Y+IENIRRKHNYLPLIM LLK+LAK+G+LV LY
Sbjct: 235 QIANVCDPAELERLQTLIEKEIRKSKRYQIENIRRKHNYLPLIMELLKMLAKEGKLVPLY 294

Query: 243 QKAVEL---NSSKKEKV 256
           Q+A E      SKK KV
Sbjct: 295 QRAKEKALEKESKKNKV 311

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

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	258
UNIPROTKB|E1BU61	331	UCHL5 "Uncharacterized protein	0.554	0.432	0.720	8.4e-79
UNIPROTKB|Q9XSJ0	328	UCHL5 "Ubiquitin carboxyl-term	0.550	0.432	0.725	8.4e-79
UNIPROTKB|Q5LJA5	355	UCHL5 "Ubiquitin carboxyl-term	0.550	0.4	0.725	1.7e-78
MGI|MGI:1914848	329	Uchl5 "ubiquitin carboxyl-term	0.554	0.434	0.727	2.2e-78
UNIPROTKB|Q06AT3	329	UCHL5 "Ubiquitin carboxyl-term	0.550	0.431	0.725	2.2e-78
UNIPROTKB|E2QWM9	329	UCHL5 "Uncharacterized protein	0.550	0.431	0.725	2.8e-78
UNIPROTKB|Q9Y5K5	329	UCHL5 "Ubiquitin carboxyl-term	0.550	0.431	0.725	2.8e-78
UNIPROTKB|Q5LJA9	368	UCHL5 "Ubiquitin carboxyl-term	0.550	0.385	0.725	9.5e-78
ZFIN|ZDB-GENE-040426-2051	329	uchl5 "ubiquitin carboxyl-term	0.546	0.428	0.716	2.5e-77
RGD|1305414	324	Uchl5 "ubiquitin carboxyl-term	0.554	0.441	0.734	4.1e-77

UNIPROTKB|E1BU61 UCHL5 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 550 (198.7 bits), Expect = 8.4e-79, Sum P(2) = 8.4e-79
 Identities = 103/143 (72%), Positives = 122/143 (85%)

Query:     2 SDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDT 61
             S AG WCL+ESDPGVFTELI+GFG +G QVEE+WSLEPEN + L+PVHGLIFLFK +   
Sbjct:     5 SSAGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGE 64

Query:    62 EPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFD 121
             EPAGS+VQDSRL+TIFFAKQV+NNACATQAI+S+LLN +  +++LG  L+EFK+F QSFD
Sbjct:    65 EPAGSVVQDSRLDTIFFAKQVINNACATQAIVSVLLNCAHQDIRLGETLSEFKEFSQSFD 124

Query:   122 PTMKGYALSNSQPIRTVHNSFAR 144
               MKG ALSNS+ IR VHNSFAR
Sbjct:   125 AAMKGLALSNSEVIRQVHNSFAR 147

GO:0004221 "ubiquitin thiolesterase activity" evidence=IEA

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

GO:0008242 "omega peptidase activity" evidence=IEA

GO:0004843 "ubiquitin-specific protease activity" evidence=IEA

GO:0004866 "endopeptidase inhibitor activity" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0016579 "protein deubiquitination" evidence=IEA

GO:0021670 "lateral ventricle development" evidence=IEA

GO:0030901 "midbrain development" evidence=IEA

GO:0031011 "Ino80 complex" evidence=IEA

GO:0048853 "forebrain morphogenesis" evidence=IEA

GO:0061136 "regulation of proteasomal protein catabolic process" evidence=IEA

GO:0070628 "proteasome binding" evidence=IEA

UNIPROTKB|Q9XSJ0 UCHL5 "Ubiquitin carboxyl-terminal hydrolase isozyme L5" [Bos taurus (taxid:9913)]

 Score = 543 (196.2 bits), Expect = 8.4e-79, Sum P(2) = 8.4e-79
 Identities = 103/142 (72%), Positives = 120/142 (84%)

Query:     3 DAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDTE 62
             +AG WCL+ESDPGVFTELI+GFG +G QVEE+WSLEPEN + L+PVHGLIFLFK +   E
Sbjct:     4 NAGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGEE 63

Query:    63 PAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFDP 122
             PAGS+VQDSRL+TIFFAKQV+NNACATQAI+S+LLN +  +V LG  L+EFK+F QSFD 
Sbjct:    64 PAGSVVQDSRLDTIFFAKQVINNACATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFDA 123

Query:   123 TMKGYALSNSQPIRTVHNSFAR 144
              MKG ALSNS  IR VHNSFAR
Sbjct:   124 AMKGLALSNSDVIRQVHNSFAR 145

GO:0004221 "ubiquitin thiolesterase activity" evidence=IDA

GO:0070628 "proteasome binding" evidence=IDA

GO:0031011 "Ino80 complex" evidence=ISS

GO:0005829 "cytosol" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

GO:0004843 "ubiquitin-specific protease activity" evidence=ISS

GO:0016579 "protein deubiquitination" evidence=ISS

GO:0061136 "regulation of proteasomal protein catabolic process" evidence=IEA

GO:0048853 "forebrain morphogenesis" evidence=IEA

GO:0030901 "midbrain development" evidence=IEA

GO:0021670 "lateral ventricle development" evidence=IEA

GO:0004866 "endopeptidase inhibitor activity" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006310 "DNA recombination" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

GO:0008242 "omega peptidase activity" evidence=IEA

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

UNIPROTKB|Q5LJA5 UCHL5 "Ubiquitin carboxyl-terminal hydrolase isozyme L5" [Homo sapiens (taxid:9606)]

 Score = 543 (196.2 bits), Expect = 1.7e-78, Sum P(2) = 1.7e-78
 Identities = 103/142 (72%), Positives = 120/142 (84%)

Query:     3 DAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDTE 62
             +AG WCL+ESDPGVFTELI+GFG +G QVEE+WSLEPEN + L+PVHGLIFLFK +   E
Sbjct:     4 NAGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGEE 63

Query:    63 PAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFDP 122
             PAGS+VQDSRL+TIFFAKQV+NNACATQAI+S+LLN +  +V LG  L+EFK+F QSFD 
Sbjct:    64 PAGSVVQDSRLDTIFFAKQVINNACATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFDA 123

Query:   123 TMKGYALSNSQPIRTVHNSFAR 144
              MKG ALSNS  IR VHNSFAR
Sbjct:   124 AMKGLALSNSDVIRQVHNSFAR 145

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

GO:0004221 "ubiquitin thiolesterase activity" evidence=IEA

GO:0008242 "omega peptidase activity" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

MGI|MGI:1914848 Uchl5 "ubiquitin carboxyl-terminal esterase L5" [Mus musculus (taxid:10090)]

 Score = 545 (196.9 bits), Expect = 2.2e-78, Sum P(2) = 2.2e-78
 Identities = 104/143 (72%), Positives = 121/143 (84%)

Query:     2 SDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDT 61
             S+AG WCL+ESDPGVFTELI+GFG +G QVEE+WSLEPE+ + L+PVHGLIFLFK +   
Sbjct:     3 SNAGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPESFEKLKPVHGLIFLFKWQPGE 62

Query:    62 EPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFD 121
             EPAGS+VQDSRLETIFFAKQV+NNACATQAI+S+LLN +  +V LG  L+EFK+F QSFD
Sbjct:    63 EPAGSVVQDSRLETIFFAKQVINNACATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFD 122

Query:   122 PTMKGYALSNSQPIRTVHNSFAR 144
               MKG ALSNS  IR VHNSFAR
Sbjct:   123 AAMKGLALSNSDVIRQVHNSFAR 145

GO:0000502 "proteasome complex" evidence=IEA

GO:0004221 "ubiquitin thiolesterase activity" evidence=IEA

GO:0004843 "ubiquitin-specific protease activity" evidence=ISO

GO:0004866 "endopeptidase inhibitor activity" evidence=ISO

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISO

GO:0005737 "cytoplasm" evidence=IEA

GO:0005829 "cytosol" evidence=ISO

GO:0006281 "DNA repair" evidence=IEA

GO:0006310 "DNA recombination" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

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

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

GO:0008233 "peptidase activity" evidence=IEA

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

GO:0008242 "omega peptidase activity" evidence=IEA

GO:0010951 "negative regulation of endopeptidase activity" evidence=ISO

GO:0016579 "protein deubiquitination" evidence=ISO

GO:0016787 "hydrolase activity" evidence=IEA

GO:0021670 "lateral ventricle development" evidence=IMP

GO:0030901 "midbrain development" evidence=IMP

GO:0031011 "Ino80 complex" evidence=ISO

GO:0048853 "forebrain morphogenesis" evidence=IMP

GO:0061136 "regulation of proteasomal protein catabolic process" evidence=ISO

GO:0070628 "proteasome binding" evidence=ISO

UNIPROTKB|Q06AT3 UCHL5 "Ubiquitin carboxyl-terminal hydrolase isozyme L5" [Sus scrofa (taxid:9823)]

 Score = 543 (196.2 bits), Expect = 2.2e-78, Sum P(2) = 2.2e-78
 Identities = 103/142 (72%), Positives = 120/142 (84%)

Query:     3 DAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDTE 62
             +AG WCL+ESDPGVFTELI+GFG +G QVEE+WSLEPEN + L+PVHGLIFLFK +   E
Sbjct:     4 NAGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGEE 63

Query:    63 PAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFDP 122
             PAGS+VQDSRL+TIFFAKQV+NNACATQAI+S+LLN +  +V LG  L+EFK+F QSFD 
Sbjct:    64 PAGSVVQDSRLDTIFFAKQVINNACATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFDA 123

Query:   123 TMKGYALSNSQPIRTVHNSFAR 144
              MKG ALSNS  IR VHNSFAR
Sbjct:   124 AMKGLALSNSDVIRQVHNSFAR 145

GO:0005829 "cytosol" evidence=ISS

GO:0031011 "Ino80 complex" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

GO:0004843 "ubiquitin-specific protease activity" evidence=ISS

GO:0016579 "protein deubiquitination" evidence=ISS

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006310 "DNA recombination" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

GO:0008242 "omega peptidase activity" evidence=IEA

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

GO:0004221 "ubiquitin thiolesterase activity" evidence=IEA

UNIPROTKB|E2QWM9 UCHL5 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 543 (196.2 bits), Expect = 2.8e-78, Sum P(2) = 2.8e-78
 Identities = 103/142 (72%), Positives = 120/142 (84%)

Query:     3 DAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDTE 62
             +AG WCL+ESDPGVFTELI+GFG +G QVEE+WSLEPEN + L+PVHGLIFLFK +   E
Sbjct:     4 NAGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGEE 63

Query:    63 PAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFDP 122
             PAGS+VQDSRL+TIFFAKQV+NNACATQAI+S+LLN +  +V LG  L+EFK+F QSFD 
Sbjct:    64 PAGSVVQDSRLDTIFFAKQVINNACATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFDA 123

Query:   123 TMKGYALSNSQPIRTVHNSFAR 144
              MKG ALSNS  IR VHNSFAR
Sbjct:   124 AMKGLALSNSDVIRQVHNSFAR 145

GO:0070628 "proteasome binding" evidence=IEA

GO:0061136 "regulation of proteasomal protein catabolic process" evidence=IEA

GO:0048853 "forebrain morphogenesis" evidence=IEA

GO:0031011 "Ino80 complex" evidence=IEA

GO:0030901 "midbrain development" evidence=IEA

GO:0021670 "lateral ventricle development" evidence=IEA

GO:0016579 "protein deubiquitination" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0004866 "endopeptidase inhibitor activity" evidence=IEA

GO:0004843 "ubiquitin-specific protease activity" evidence=IEA

GO:0008242 "omega peptidase activity" evidence=IEA

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

GO:0004221 "ubiquitin thiolesterase activity" evidence=IEA

UNIPROTKB|Q9Y5K5 UCHL5 "Ubiquitin carboxyl-terminal hydrolase isozyme L5" [Homo sapiens (taxid:9606)]

 Score = 543 (196.2 bits), Expect = 2.8e-78, Sum P(2) = 2.8e-78
 Identities = 103/142 (72%), Positives = 120/142 (84%)

Query:     3 DAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDTE 62
             +AG WCL+ESDPGVFTELI+GFG +G QVEE+WSLEPEN + L+PVHGLIFLFK +   E
Sbjct:     4 NAGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGEE 63

Query:    63 PAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFDP 122
             PAGS+VQDSRL+TIFFAKQV+NNACATQAI+S+LLN +  +V LG  L+EFK+F QSFD 
Sbjct:    64 PAGSVVQDSRLDTIFFAKQVINNACATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFDA 123

Query:   123 TMKGYALSNSQPIRTVHNSFAR 144
              MKG ALSNS  IR VHNSFAR
Sbjct:   124 AMKGLALSNSDVIRQVHNSFAR 145

GO:0004221 "ubiquitin thiolesterase activity" evidence=IEA

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

GO:0008242 "omega peptidase activity" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

GO:0006310 "DNA recombination" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0021670 "lateral ventricle development" evidence=IEA

GO:0030901 "midbrain development" evidence=IEA

GO:0048853 "forebrain morphogenesis" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0070628 "proteasome binding" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0031011 "Ino80 complex" evidence=IDA

GO:0004843 "ubiquitin-specific protease activity" evidence=IDA

GO:0016579 "protein deubiquitination" evidence=IDA

GO:0004866 "endopeptidase inhibitor activity" evidence=IMP

GO:0061136 "regulation of proteasomal protein catabolic process" evidence=IMP

GO:0007179 "transforming growth factor beta receptor signaling pathway" evidence=TAS

GO:0030512 "negative regulation of transforming growth factor beta receptor signaling pathway" evidence=TAS

GO:0005737 "cytoplasm" evidence=IDA

GO:0010951 "negative regulation of endopeptidase activity" evidence=IMP

UNIPROTKB|Q5LJA9 UCHL5 "Ubiquitin carboxyl-terminal hydrolase isozyme L5" [Homo sapiens (taxid:9606)]

 Score = 543 (196.2 bits), Expect = 9.5e-78, Sum P(2) = 9.5e-78
 Identities = 103/142 (72%), Positives = 120/142 (84%)

Query:     3 DAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDTE 62
             +AG WCL+ESDPGVFTELI+GFG +G QVEE+WSLEPEN + L+PVHGLIFLFK +   E
Sbjct:    16 NAGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGEE 75

Query:    63 PAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFDP 122
             PAGS+VQDSRL+TIFFAKQV+NNACATQAI+S+LLN +  +V LG  L+EFK+F QSFD 
Sbjct:    76 PAGSVVQDSRLDTIFFAKQVINNACATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFDA 135

Query:   123 TMKGYALSNSQPIRTVHNSFAR 144
              MKG ALSNS  IR VHNSFAR
Sbjct:   136 AMKGLALSNSDVIRQVHNSFAR 157

GO:0004221 "ubiquitin thiolesterase activity" evidence=IEA

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

GO:0008242 "omega peptidase activity" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

ZFIN|ZDB-GENE-040426-2051 uchl5 "ubiquitin carboxyl-terminal hydrolase L5" [Danio rerio (taxid:7955)]

 Score = 537 (194.1 bits), Expect = 2.5e-77, Sum P(2) = 2.5e-77
 Identities = 101/141 (71%), Positives = 118/141 (83%)

Query:     4 AGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDTEP 63
             AG WCL+ESDPGVFTELI+GFG +G QVEE+WS+EPEN + L+PVHGLIFLFK +   EP
Sbjct:     5 AGEWCLMESDPGVFTELIKGFGCKGAQVEEIWSMEPENFENLKPVHGLIFLFKWQPGEEP 64

Query:    64 AGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFDPT 123
             AGSIVQDSRL+ IFFAKQV+NNACATQAI+S+LLN + P++ LG  LTEFK+F  SFD  
Sbjct:    65 AGSIVQDSRLDQIFFAKQVINNACATQAIISVLLNCTHPDMLLGETLTEFKEFSNSFDAA 124

Query:   124 MKGYALSNSQPIRTVHNSFAR 144
             MKG ALSNS+ IR VHN FAR
Sbjct:   125 MKGLALSNSEVIRQVHNGFAR 145

GO:0004221 "ubiquitin thiolesterase activity" evidence=IEA

GO:0008242 "omega peptidase activity" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

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

GO:0016787 "hydrolase activity" evidence=IEA

RGD|1305414 Uchl5 "ubiquitin carboxyl-terminal hydrolase L5" [Rattus norvegicus (taxid:10116)]

 Score = 550 (198.7 bits), Expect = 4.1e-77, Sum P(2) = 4.1e-77
 Identities = 105/143 (73%), Positives = 121/143 (84%)

Query:     2 SDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDT 61
             S+AG WCL+ESDPGVFTELI+GFG +G QVEE+WSLEPEN + L+PVHGLIFLFK +   
Sbjct:     3 SNAGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGE 62

Query:    62 EPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFD 121
             EPAGS+VQDSRLETIFFAKQV+NNACATQAI+S+LLN +  +V LG  L+EFK+F QSFD
Sbjct:    63 EPAGSVVQDSRLETIFFAKQVINNACATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFD 122

Query:   122 PTMKGYALSNSQPIRTVHNSFAR 144
               MKG ALSNS  IR VHNSFAR
Sbjct:   123 AAMKGLALSNSDVIRQVHNSFAR 145

GO:0004221 "ubiquitin thiolesterase activity" evidence=IEA

GO:0004843 "ubiquitin-specific protease activity" evidence=IEA;ISO

GO:0004866 "endopeptidase inhibitor activity" evidence=IEA;ISO

GO:0005634 "nucleus" evidence=ISO

GO:0005737 "cytoplasm" evidence=ISO

GO:0005829 "cytosol" evidence=IEA;ISO

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

GO:0008242 "omega peptidase activity" evidence=IEA

GO:0010951 "negative regulation of endopeptidase activity" evidence=ISO

GO:0016579 "protein deubiquitination" evidence=IEA;ISO

GO:0021670 "lateral ventricle development" evidence=IEA;ISO

GO:0030901 "midbrain development" evidence=IEA;ISO

GO:0031011 "Ino80 complex" evidence=IEA;ISO

GO:0048853 "forebrain morphogenesis" evidence=IEA;ISO

GO:0061136 "regulation of proteasomal protein catabolic process" evidence=IEA;ISO

GO:0070628 "proteasome binding" evidence=IEA;ISO

---

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)
Q54N38	UCHL5_DICDI	3, ., 4, ., 1, 9, ., 1, 2	0.5244	0.5310	0.3994	yes	N/A
Q9WUP7	UCHL5_MOUSE	3, ., 4, ., 1, 9, ., 1, 2	0.7272	0.5348	0.4194	yes	N/A
Q06AT3	UCHL5_PIG	3, ., 4, ., 1, 9, ., 1, 2	0.7202	0.5271	0.4133	yes	N/A
Q9UUB6	UBLH2_SCHPO	3, ., 4, ., 1, 9, ., 1, 2	0.3741	0.9496	0.8166	yes	N/A
Q9XSJ0	UCHL5_BOVIN	3, ., 4, ., 1, 9, ., 1, 2	0.7202	0.5310	0.4176	yes	N/A
Q9Y5K5	UCHL5_HUMAN	3, ., 4, ., 1, 9, ., 1, 2	0.7202	0.5271	0.4133	yes	N/A
Q09444	UBH4_CAEEL	3, ., 4, ., 1, 9, ., 1, 2	0.3885	0.9689	0.7788	yes	N/A

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.4.19	0.921
3rd Layer	3.4.19.12	0.914

---

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	258
cd09617	219	cd09617, Peptidase_C12_UCH37_BAP1, Cysteine peptid	2e-80
pfam01088	211	pfam01088, Peptidase_C12, Ubiquitin carboxyl-termi	1e-64
cd02255	222	cd02255, Peptidase_C12, Cysteine peptidase C12 con	5e-61
cd09616	222	cd09616, Peptidase_C12_UCH_L1_L3, Cysteine peptida	3e-19

>gnl|CDD|187738 cd09617, Peptidase_C12_UCH37_BAP1, Cysteine peptidase C12 containing ubiquitin carboxyl-terminal hydrolase (UCH) families UCH37 (UCH-L5) and BAP1

 Score =  240 bits (616), Expect = 2e-80
 Identities = 87/138 (63%), Positives = 105/138 (76%), Gaps = 1/138 (0%)

Query: 7   WCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDTEPAGS 66
           WC IESDPGVFTEL+  FGV+GVQVEEL+SL+ ++L+ L PV+GLIFLFK +E  E  GS
Sbjct: 1   WCEIESDPGVFTELLEEFGVKGVQVEELYSLDADSLEQLPPVYGLIFLFKWQEGEEDEGS 60

Query: 67  IVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFDPTMKG 126
           +V D     IFFA QV+ NACATQA+LS+LL N   EV LG  L+EFK+F + FDP MKG
Sbjct: 61  VVDDEIPSNIFFANQVIPNACATQALLSVLL-NCSDEVDLGETLSEFKEFTKGFDPEMKG 119

Query: 127 YALSNSQPIRTVHNSFAR 144
            A+ NS+ IR VHNSFAR
Sbjct: 120 EAIGNSEEIRKVHNSFAR 137

This ubiquitin C-terminal hydrolase (UCH) family includes UCH37 (also known as UCH-L5) and BRCA1-associated protein-1 (BAP1). They contain a UCH catalytic domain as well as an additional C-terminal extension which plays a role in protein-protein interactions. UCH37 is responsible for ubiquitin (Ub) isopeptidase activity in the 19S proteasome regulatory complex; it disassembles Lys48-linked poly-ubiquitin from the distal end of the chain. It is also associated with the human Ino80 chromatin-remodeling complex (hINO80) in the nucleus and can be activated through transient association of hINO80 with hRpn13 that is bound to the 19S regulatory particle or the proteasome. UCH37 possibly plays a role in oncogenesis; it competes with Smad ubiquitination regulatory factor 2 (Smurf2, ubiquitin ligase) in binding concurrently to Smad7 in order to deubiquitinate the activated type I transforming growth factor beta (TGF-beta) receptor, thus rescuing it from proteasomal degradation. BAP1 binds to the wild-type BRCA1 RING finger domain, localized in the nucleus. In addition to the UCH catalytic domain, BAP1 contains a UCH37-like domain (ULD), binding domains for BRCA1 and BARD1, which form a tumor suppressor heterodimeric complex, and a binding domain for HCFC1, which interacts with histone-modifying complexes during cell division. The full-length human BRCA1 is a ubiquitin ligase. However, BAP1 does not appear to function in the deubiquitination of autoubiquitinated BRCA1. BAP1 exhibits tumor suppressor activity in cancer cells, and gene mutations have been reported in a small number of breast and lung cancer samples. In metastasis of uveal melanoma, the most common primary cancer of the eye, inactivating somatic mutations have been identified in the gene encoding BAP1 on chromosome 3p21.1. These mutations include several that cause premature protein termination as well as affect its UCH domain, thus implicating loss of BAP1 and suggesting that the BAP1 pathway may be a valuable therapeutic target. Length = 219

>gnl|CDD|216294 pfam01088, Peptidase_C12, Ubiquitin carboxyl-terminal hydrolase, family 1

 Score =  200 bits (511), Expect = 1e-64
 Identities = 72/153 (47%), Positives = 94/153 (61%), Gaps = 9/153 (5%)

Query: 6   NWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLK-ILQPVHGLIFLFKLRED---- 60
            WC +ES+PGVFTEL+   GV+GVQ E+++SL+ E L  + +PV+ LIFLF   E     
Sbjct: 1   GWCPLESNPGVFTELLEKLGVKGVQFEDVYSLDDELLAMLPRPVYALIFLFPWTEAYEEF 60

Query: 61  --TEPAGSIVQDSRL-ETIFFAKQVVNNACATQAILSILLNNSDP-EVKLGSVLTEFKDF 116
              E A    +D    E +FFAKQ + NAC TQA+L  LLNN D  E++LGS L +F +F
Sbjct: 61  REEEDATIKEKDQAASEGVFFAKQTIGNACGTQALLHALLNNEDKIEIELGSELKKFLEF 120

Query: 117 CQSFDPTMKGYALSNSQPIRTVHNSFARYSSEE 149
            +   P  +G AL NS+ IR  HNSFAR    E
Sbjct: 121 TKGLSPEERGKALENSEEIREAHNSFAREGQTE 153

Length = 211

>gnl|CDD|187736 cd02255, Peptidase_C12, Cysteine peptidase C12 contains ubiquitin carboxyl-terminal hydrolase (UCH) families L1, L3, L5 and BAP1

 Score =  191 bits (486), Expect = 5e-61
 Identities = 36/148 (24%), Positives = 68/148 (45%), Gaps = 10/148 (6%)

Query: 7   WCLIESDPGVFTELIRGFGVQ-GVQVEELWSLEPENLKILQP-VHGLIFLFKLREDTEPA 64
           W  +E++P V  + ++  G+    Q  +++ ++PE L ++   V  ++ LF + E  E  
Sbjct: 1   WLPLEANPEVTNQFLKQLGLHPNWQFVDVYGMDPELLSMVPRPVCAVLLLFPITEKYEVF 60

Query: 65  GSIVQDSRL-------ETIFFAKQVVNNACATQAILSILLNNSDPEVK-LGSVLTEFKDF 116
            +  ++           +++F KQ ++NAC T  ++  + NN D      GS L +F + 
Sbjct: 61  RTEEEEKIKSQGQDVTSSVYFMKQTISNACGTIGLIHAIANNKDKMHFESGSTLKKFLEE 120

Query: 117 CQSFDPTMKGYALSNSQPIRTVHNSFAR 144
             S  P  +   L N   IR  H + A 
Sbjct: 121 SVSMSPEERARYLENYDAIRVTHETSAH 148

The ubiquitin C-terminal hydrolase (UCH; ubiquitinyl hydrolase; ubiquitin thiolesterase) family of deubiquitinating enzymes (DUBs) consists of four members to date: UCH-L1, UCH-L3, UCH-L5 (UCH37) and BRCA1-associated protein-1 (BAP1), all containing a conserved catalytic domain with cysteine peptidase activity. UCH-L1 hydrolyzes carboxyl terminal esters and amides of ubiquitin (Ub). Dysfunction of this hydrolase activity can lead to an accumulation of alpha-synuclein, which is linked to Parkinson's disease (PD) and neurofibrillary tangles, linked to Alzheimer's disease (AD). UCH-L1, in its dimeric form, has additional enzymatic activity as a ubiquitin ligase. UCH-L3 hydrolyzes isopeptide bonds at the C-terminal glycine of either Ub or Nedd8, a ubiquitin-like protein. UCH-L3 can also interact with Lys48-linked Ub dimers to protect it from degradation while inhibiting its hydrolase activity at the same time. UCH-L1 and UCH-L3 are the most closely related of the UCH members. UCH-L5 (UCH37) is involved in the deubiquitinating activity in the 19S proteasome regulatory complex. It is also associated with the human Ino80 chromatin-remodeling complex (hINO80) in the nucleus. BAP1 binds to the wild-type BRCA1 RING finger domain, localized in the nucleus. It consists of the N-terminal UCH domain and two predicted nuclear localization signals (NLSs), only one of which is functional. The full-length human BRCA1 is a ubiquitin ligase. However, BAP1 does not appear to function in the deubiquitination of autoubiquitinated BRCA1. There is growing evidence that UCH enzymes and human malignancies are closely correlated. Studies show that UCH enzymes play a crucial role in some signaling pathways and in cell-cycle regulation. Length = 222

>gnl|CDD|187737 cd09616, Peptidase_C12_UCH_L1_L3, Cysteine peptidase C12 containing ubiquitin carboxyl-terminal hydrolase (UCH) families L1 and L3

 Score = 83.1 bits (206), Expect = 3e-19
 Identities = 41/150 (27%), Positives = 71/150 (47%), Gaps = 14/150 (9%)

Query: 7   WCLIESDPGVFTELIRGFGVQ-GVQVEELWSLEPENLK-ILQPVHGLIFLF--------- 55
           W  +ES+P V  + +   GV  G +  +++ L+PE L  + +PV  ++ LF         
Sbjct: 1   WIPLESNPEVMNKFLHKLGVSPGWEFVDVYGLDPELLAFVPRPVLAVLLLFPITKAYEEF 60

Query: 56  KLREDTEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKL-GSVLTEFK 114
           +  E+ E      + S  E+++F KQ + NAC T A++  + NN D    L GS L +F 
Sbjct: 61  RKEEEEEIKEKGQEVS--ESVYFMKQTIGNACGTIALIHAVANNEDRINILEGSFLKKFL 118

Query: 115 DFCQSFDPTMKGYALSNSQPIRTVHNSFAR 144
           +  +   P  +   L  S+ +   H + A 
Sbjct: 119 EEAKGLSPEERAKLLEKSEALEKAHAAAAT 148

This ubiquitin C-terminal hydrolase (UCH) family includes UCH-L1 and UCH-L3, the two members sharing around 53% sequence identity as well as conserved catalytic residues. Both enzymes hydrolyze carboxyl terminal esters and amides of ubiquitin (Ub). UCH-L1, in dimeric form, has additional enzymatic activity as a ubiquitin ligase. It is highly abundant in the brain, constituting up to 2% of total protein, and is expressed exclusively in neurons and testes. Abnormal expression of UCH-L1 has been shown to correlate with several forms of cancer, including several primary lung tumors, lung tumor cell lines, and colorectal cancers. Mutations in the UCH-L1 gene have been linked to susceptibility to and protection from Parkinson's disease (PD); dysfunction of the hydrolase activity can lead to an accumulation of alpha-synuclein, which is linked to Parkinson's disease (PD), while accumulation of neurofibrillary tangles is linked to Alzheimer's disease (AD). UCH-L3 hydrolyzes isopeptide bonds at the C-terminal glycine of either Ub or Nedd8, a ubiquitin-like protein. It can also interact with Lys48-linked Ub dimers to protect them from degradation while inhibiting its hydrolase activity at the same time. Unlike UCH-L1, neither dimerization nor ligase activity have been observed for UCH-L3. It has been shown that levels of Nedd8 and the apoptotic protein p53 and Bax are elevated in UCH-L3 knockout mice upon cryptorchid injury, possibly contributing to profound germ cell loss via apoptosis. Length = 222

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	258
KOG2778|consensus	328		100.0
PF01088	214	Peptidase_C12: Ubiquitin carboxyl-terminal hydrola	100.0
KOG1415|consensus	222		100.0

>KOG2778|consensus

Probab=100.00  E-value=6e-81  Score=565.34  Aligned_cols=243  Identities=55%  Similarity=0.898  Sum_probs=222.1

Q ss_pred             CCcccccCCHHHHHHHHHhcCCCcceEEEeccCChhhhhhcCCcceEEeeeeccCCCCcCCCCccCCccccccchhhhcc
Q psy6731           5 GNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDTEPAGSIVQDSRLETIFFAKQVVN   84 (258)
Q Consensus         5 ~~W~pLESdP~VFt~li~~LGv~~~qf~DVysLD~~~L~~l~PV~glIfLFp~~~~~~~~~~~~~d~~~~~vfFakQtI~   84 (258)
                      ++||+|||||||||+|+++|||+|+||+||||||.+.+..++||||+||||+|.++.++.+....|. .++||||+|||+
T Consensus         1 ~~W~~iESDPGvFTeli~~fgv~gvQVEElysLd~~~~~~~~piyGlIFLFKW~~ed~~~g~v~~D~-~~niFFA~QvIn   79 (328)
T KOG2778|consen    1 MSWCLIESDPGVFTELIEGFGVKGVQVEELYSLDSDSLRPLRPIYGLIFLFKWIEEDKPAGSVIDDS-VSNIFFAKQVIN   79 (328)
T ss_pred             CCceeeccCCcHHHHHHHhcCCCceeEeeeeccCcchhccCCCceeEEEEEEeccCCCCCccccccc-ccchhhhhhhcc
Confidence            3799999999999999999999999999999999999999999999999999999888878777665 578999999999


Q ss_pred             chhHHHHHHHHhcCCCCCCCCCCChhhHHHhhccCCChhhHHhhhcCChHHHHHhhhhcc--------------------
Q psy6731          85 NACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFDPTMKGYALSNSQPIRTVHNSFAR--------------------  144 (258)
Q Consensus        85 NACgT~AlLh~L~N~~~~~i~~gs~L~~f~~~t~~~~p~~Rg~~L~ns~~i~~aHns~A~--------------------  144 (258)
                      |||||||||++|+|+.+.+|++|++|++||+||++|+|+.||++|+|+++||.+||||||                    
T Consensus        80 NACATqAlLsvLlN~~~~~idLG~tLs~~K~f~k~f~Pe~KGlal~Nse~Ir~~HNSfARp~~~~~~e~~a~~~~~~dd~  159 (328)
T KOG2778|consen   80 NACATQALLSVLLNCSHEDIDLGPTLSELKEFTKGFDPELKGLALGNSEEIRCAHNSFARPEPFRPEEVDAATSAKEDDV  159 (328)
T ss_pred             cHHHHHHHHHHHHcCCccccchhhHHHHHHHHhhcCChhhcccccCCcHHHHHHhccccCCCCcchhhhhcccccccccc
Confidence            999999999999999888999999999999999999999999999999999999999998                    


Q ss_pred             -------------------------------------------------cCCcCcceEEEEEEecCh----hhHHHHHHH
Q psy6731         145 -------------------------------------------------YSSEEIRFNLLAVVCDKK----MKYEKELAA  171 (258)
Q Consensus       145 -------------------------------------------------~~~~ei~fh~~A~V~d~~----~~~E~~l~~  171 (258)
                                                                       |+++||||||||+|+|++    +.|+++++.
T Consensus       160 yHFVsyvPI~g~lyELDGLke~PI~lg~~~~eqeW~d~vrpVIqeRi~~ys~gEIrFNLMAvV~dRk~a~l~~~~~~~e~  239 (328)
T KOG2778|consen  160 YHFVSYVPINGRLYELDGLKEGPIDLGPCEKEQEWLDKVRPVIQERIQRYSEGEIRFNLMAVVPDRKTAELKELQRKREI  239 (328)
T ss_pred             eeEEEEEeeCCEEEeccCCccCCcccCCCCccHhHHHHHHHHHHHHHhhCCcceeEEEEEEEeccchHHHHHHHHHHHHH
Confidence                                                             888999999999999999    888888887


Q ss_pred             HHHhhcCCCcchhhhhhhHHHHHHHHHHHHHHHHHHHhhHHHHhhhccCchHHHHHHHHHHHHcCcchHHHHHHHHhhh
Q psy6731         172 ATQALKDPSLDAATKTAKQNEVVQLKILIEEEAAKLESYRIENIRRKHNYLPLIMNLLKLLAKQGQLVNLYQKAVELNS  250 (258)
Q Consensus       172 l~~~~~~~~~~~~~~~~~~~e~~~~~~~l~~E~~kr~~~~~En~rR~hny~pfi~~llk~la~~g~l~~~~~~a~~~~~  250 (258)
                      |...+..+ .+... ...+++|+.+...|..|.+|+++|++||+||||||+|||++|+|.||++|+|.+++++||++..
T Consensus       240 l~~~l~~~-~~~~~-~~~q~~ia~~~~~i~~e~~K~~~~k~en~rr~hny~pfl~ellk~lae~~~L~~~~~kak~~~~  316 (328)
T KOG2778|consen  240 LLQQLQKQ-EATEA-DKEQSEIANLSSHIRPEDEKLKRYKKENIRRKHNYLPFLVELLKILAEEGQLAPLVEKAKPKSM  316 (328)
T ss_pred             HHHHHHhh-hccch-hhhhhhhcccccccCcchhHhhhcchhhhhhhhcccHHHHHHHHHHhhhcchhhhhhhhcchhh
Confidence            76544320 01111 1257888999999999999999999999999999999999999999999999999999997776

>PF01088 Peptidase_C12: Ubiquitin carboxyl-terminal hydrolase, family 1; InterPro: IPR001578 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families

Probab=100.00  E-value=6.8e-56  Score=392.56  Aligned_cols=161  Identities=44%  Similarity=0.729  Sum_probs=137.2

Q ss_pred             CcccccCCHHHHHHHHHhcCCCcceEEEeccCCh-hhhhhc-CCcceEEeeeeccCCCCcC-------CCCccCCccccc
Q psy6731           6 NWCLIESDPGVFTELIRGFGVQGVQVEELWSLEP-ENLKIL-QPVHGLIFLFKLREDTEPA-------GSIVQDSRLETI   76 (258)
Q Consensus         6 ~W~pLESdP~VFt~li~~LGv~~~qf~DVysLD~-~~L~~l-~PV~glIfLFp~~~~~~~~-------~~~~~d~~~~~v   76 (258)
                      +|+||||||+|||+|+++|||++++|+||||||+ ++|+++ +|||||||||||++..+..       .....+..+++|
T Consensus         1 ~w~pLESnP~vfn~l~~~lGv~~~~f~Dv~sld~~~lL~~ip~Pv~alI~lfp~~~~~~~~~~~~~~~~~~~~~~~~~~v   80 (214)
T PF01088_consen    1 GWIPLESNPEVFNELLRKLGVSGVQFEDVYSLDDPELLAMIPRPVYALIFLFPWTEEYEERRAEEDAKIEEKGQDIPENV   80 (214)
T ss_dssp             BS--EESSHHHHHHHHHHTTBTSEEEEEESTSSHHHHHTTSSSSEEEEEEEEE--HHHHHHHHHHHHHHCCHSCTCGTTS
T ss_pred             CcccccCCHHHHHHHHHHcCCceeEEEEcccccchHhhhhcCccceeEEEEEecchhhhhhhccccccccccccCCCCCc
Confidence            5999999999999999999999999999999998 679999 9999999999999753321       011122335689


Q ss_pred             cchhhhccchhHHHHHHHHhcCCCC-CCCCCCChhhHHHhhccCCChhhHHhhhcCChHHHHHhhhhcc-----c----C
Q psy6731          77 FFAKQVVNNACATQAILSILLNNSD-PEVKLGSVLTEFKDFCQSFDPTMKGYALSNSQPIRTVHNSFAR-----Y----S  146 (258)
Q Consensus        77 fFakQtI~NACgT~AlLh~L~N~~~-~~i~~gs~L~~f~~~t~~~~p~~Rg~~L~ns~~i~~aHns~A~-----~----~  146 (258)
                      ||+||||+|||||+||||+|+|+++ ..|.+||.|++|+++|.+|+|++||.+|++++.|+++||++|+     .    .
T Consensus        81 ~f~kQti~NACgt~AlLh~l~N~~~~~~i~~gs~L~~f~~~t~~~~p~~Rg~~l~~~~~l~~aH~s~A~~g~t~~~~~~~  160 (214)
T PF01088_consen   81 FFAKQTIGNACGTIALLHALLNNPDRIEIEPGSILDQFKEFTKDLSPEERGKALENSKELRKAHNSFARQGQTEAPDDEA  160 (214)
T ss_dssp             -EES-SSBTGHHHHHHHHHHHTCCCTTCBBTTSHHHHHHHHHTTSTHHHHHHHHHTHHHHHHHHHHHHCHCSSTS-H--T
T ss_pred             eEeeecCCchhhHHHHHHHHhcccccccccCCchHHHHHHHHhcCCHHHHHHHHhCcHHHHHHHHHHhccCCcCCCcccc
Confidence            9999999999999999999999873 3589999999999999999999999999999999999999998     1    3


Q ss_pred             CcCcceEEEEEEecChhhHH
Q psy6731         147 SEEIRFNLLAVVCDKKMKYE  166 (258)
Q Consensus       147 ~~ei~fh~~A~V~d~~~~~E  166 (258)
                      ++++.|||||||+.+|++||
T Consensus       161 ~~~~~~HFI~fV~~~G~LyE  180 (214)
T PF01088_consen  161 DDEVDFHFIAFVPVDGHLYE  180 (214)
T ss_dssp             TSCGCEEEEEEEEETTEEEE
T ss_pred             CCCCCccEEEEEeECCeEEE
Confidence            67899999999999999998

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 C12 (ubiquitin C-terminal hydrolase 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. The type example is the human ubiquitin C-terminal hydrolase UCH-L1. 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 and 100-200 kDa, IPR001394 from INTERPRO) []: this family are the 20-30 kDa ppeptides which includes the yeast yuh1. Yeast yuh1 protease is known to be active only against small ubiquitin conjugates, being inactive against conjugated beta-galactosidase []. A mammalian homologue, UCH (ubiquitin conjugate hydrolase), is one of the most abundant proteins in the brain []. 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, 0005622 intracellular; PDB: 1CMX_A 4DM9_A 2ETL_A 3IRT_A 3KW5_A 3IFW_A 2LEN_A 3KVF_A 2WDT_C 2WE6_B ....

>KOG1415|consensus

Probab=100.00  E-value=5.6e-49  Score=342.40  Aligned_cols=162  Identities=28%  Similarity=0.549  Sum_probs=145.1

Q ss_pred             CCcccccCCHHHHHHHHHhcCCCc-ceEEEeccCChhhhhhc-CCcceEEeeeeccCCCCcCCC-Cc--cCCccccccch
Q psy6731           5 GNWCLIESDPGVFTELIRGFGVQG-VQVEELWSLEPENLKIL-QPVHGLIFLFKLREDTEPAGS-IV--QDSRLETIFFA   79 (258)
Q Consensus         5 ~~W~pLESdP~VFt~li~~LGv~~-~qf~DVysLD~~~L~~l-~PV~glIfLFp~~~~~~~~~~-~~--~d~~~~~vfFa   79 (258)
                      ..|.||||||+|+|.|+++|||++ |+|.||||||++.|+++ +||+|||||||.++..+.... ..  ....+++||||
T Consensus         3 ~~w~PLEsNPEv~n~~l~klGv~~~~~~~DVy~ldee~L~~vPrPv~A~lllFP~~e~~e~~~~~~~e~~k~~~~~V~fm   82 (222)
T KOG1415|consen    3 RRWTPLESNPEVLNPFLHKLGVAGEWSVVDVYGLDEESLEFVPRPVKALLLLFPITEKREEFRKEQIEEIKEQSDKVFFM   82 (222)
T ss_pred             CccccccCCHHHHHHHHHHhCCCCceEEEEeeecChhhhhhcCccceEEEEEecccchhhHhhhhhHhhhhcCCCceEEE
Confidence            479999999999999999999998 99999999999999999 999999999999987654321 10  01224689999


Q ss_pred             hhhccchhHHHHHHHHhcCCCC-CCCCCCChhhHHHhhccCCChhhHHhhhcCChHHHHHhhhhcc----cCCcCcceEE
Q psy6731          80 KQVVNNACATQAILSILLNNSD-PEVKLGSVLTEFKDFCQSFDPTMKGYALSNSQPIRTVHNSFAR----YSSEEIRFNL  154 (258)
Q Consensus        80 kQtI~NACgT~AlLh~L~N~~~-~~i~~gs~L~~f~~~t~~~~p~~Rg~~L~ns~~i~~aHns~A~----~~~~ei~fh~  154 (258)
                      ||||+|||||+||||+|.|+.+ ..+..||.|++|++.+.+++|++|+.+|+++++|+.+|..+|.    ..++++++||
T Consensus        83 kQti~NACGTiaLlHslaN~~~r~~l~~Gs~l~~fl~~~~~~s~eeRa~~le~d~~l~~~H~a~a~eGqte~~~~vd~HF  162 (222)
T KOG1415|consen   83 KQTIGNACGTIALLHSLANNEDRVKLEDGSFLKKFLEEAEKMSPEERADLLENDEELEAAHEAAAQEGQTEADEDVDLHF  162 (222)
T ss_pred             eccccchhHHHHHHHHHhccccccccCCchHHHHHHHHhhcCCHHHHHHHhcccHHHHHHHHHHHhcCCCCCccccceEE
Confidence            9999999999999999999973 4688899999999999999999999999999999999999997    3467899999


Q ss_pred             EEEEecChhhHH
Q psy6731         155 LAVVCDKKMKYE  166 (258)
Q Consensus       155 ~A~V~d~~~~~E  166 (258)
                      ||||.++|++||
T Consensus       163 I~~v~~~G~lYE  174 (222)
T KOG1415|consen  163 ICFVNKNGHLYE  174 (222)
T ss_pred             EEEEccCCeEEE
Confidence            999999999998

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	258
3ris_A	245	Crystal Structure Of The Catalytic Domain Of Uchl5,		6e-59
3ihr_A	328	Crystal Structure Of Uch37 Length = 328		1e-58
3ihr_A	328	Crystal Structure Of Uch37 Length = 328		3e-21
3a7s_A	228	Catalytic Domain Of Uch37 Length = 228		7e-58
3tb3_A	229	Crystal Structure Of The Uch Domain Of Uch-L5 With		9e-58
3rii_A	233	Crystal Structure Of The Catalytic Domain Of Uchl5,		2e-56
1xd3_A	230	Crystal Structure Of Uchl3-Ubvme Complex Length = 2		6e-09
1cmx_A	235	Structural Basis For The Specificity Of Ubiquitin C		4e-06
3irt_A	228	Crystal Structure Of The I93m Mutant Of Ubiquitin C		4e-04
2len_A	231	Solution Structure Of Uchl1 S18y Variant Length = 2		8e-04
2etl_A	228	Crystal Structure Of Ubiquitin Carboxy-terminal Hyd		8e-04

>pdb|3RIS|A Chain A, Crystal Structure Of The Catalytic Domain Of Uchl5, A Proteasome- Associated Human Deubiquitinating Enzyme, Reveals An Unproductive Form Of The Enzyme Length = 245

Iteration: 1
 Score =  223 bits (569), Expect = 6e-59,   Method: Compositional matrix adjust.
 Identities = 103/143 (72%), Positives = 120/143 (83%)
Query: 2   SDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDT 61
            +AG WCL+ESDPGVFTELI+GFG +G QVEE+WSLEPEN + L+PVHGLIFLFK +   
Sbjct: 8   GNAGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGE 67
Query: 62  EPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFD 121
           EPAGS+VQDSRL+TIFFAKQV+NNACATQAI+S+LLN +  +V LG  L+EFK+F QSFD
Sbjct: 68  EPAGSVVQDSRLDTIFFAKQVINNACATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFD 127
Query: 122 PTMKGYALSNSQPIRTVHNSFAR 144
             MKG ALSNS  IR VHNSFAR
Sbjct: 128 AAMKGLALSNSDVIRQVHNSFAR 150

>pdb|3IHR|A Chain A, Crystal Structure Of Uch37 Length = 328

Iteration: 1
 Score =  222 bits (566), Expect = 1e-58,   Method: Compositional matrix adjust.
 Identities = 102/143 (71%), Positives = 118/143 (82%)
Query: 2   SDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDT 61
            +AG WCL ESDPGVFTELI+GFG +G QVEE+WSLEPEN + L+PVHGLIFLFK +   
Sbjct: 3   GNAGEWCLXESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGE 62
Query: 62  EPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFD 121
           EPAGS+VQDSRL+TIFFAKQV+NNACATQAI+S+LLN +  +V LG  L+EFK+F QSFD
Sbjct: 63  EPAGSVVQDSRLDTIFFAKQVINNACATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFD 122
Query: 122 PTMKGYALSNSQPIRTVHNSFAR 144
              KG ALSNS  IR VHNSFAR
Sbjct: 123 AAXKGLALSNSDVIRQVHNSFAR 145

>pdb|3IHR|A Chain A, Crystal Structure Of Uch37 Length = 328

Iteration: 1
 Score = 98.6 bits (244), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 57/129 (44%), Positives = 81/129 (62%), Gaps = 6/129 (4%)
Query: 129 LSNSQPIRTVHNSFARYSSEEIRFNLLAVVCDKKMKYEKELAAATQALKDPSLDA----A 184
           +S  +P+  +     +YS  EIRFNL A+V D+K  YE+++A   + L +   D     +
Sbjct: 197 ISAVRPV--IEKRIQKYSEGEIRFNLXAIVSDRKXIYEQKIAELQRQLAEEPXDTDQGNS 254
Query: 185 TKTAKQNEVVQLKILIEEEAAKLESYRIENIRRKHNYLPLIMNLLKLLAKQGQLVNLYQK 244
             +A Q+EV + + LIEEE  KL+ Y+IENIRRKHNYLP I  LLK LA+  QL+ L +K
Sbjct: 255 XLSAIQSEVAKNQXLIEEEVQKLKRYKIENIRRKHNYLPFIXELLKTLAEHQQLIPLVEK 314
Query: 245 AVELNSSKK 253
           A E  ++KK
Sbjct: 315 AKEKQNAKK 323

>pdb|3A7S|A Chain A, Catalytic Domain Of Uch37 Length = 228

Iteration: 1
 Score =  220 bits (560), Expect = 7e-58,   Method: Compositional matrix adjust.
 Identities = 102/143 (71%), Positives = 119/143 (83%)
Query: 2   SDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDT 61
            +AG WCL+ESDPGVFTELI+GFG +G QVEE+WSLEPEN + L+PVHGLIFLFK +   
Sbjct: 3   GNAGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGE 62
Query: 62  EPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFD 121
           EPAGS+VQDSRL+TIFFAKQV+NNA ATQAI+S+LLN +  +V LG  L+EFK+F QSFD
Sbjct: 63  EPAGSVVQDSRLDTIFFAKQVINNAAATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFD 122
Query: 122 PTMKGYALSNSQPIRTVHNSFAR 144
             MKG ALSNS  IR VHNSFAR
Sbjct: 123 AAMKGLALSNSDVIRQVHNSFAR 145

>pdb|3TB3|A Chain A, Crystal Structure Of The Uch Domain Of Uch-L5 With 6 Residues Deleted Length = 229

Iteration: 1
 Score =  219 bits (559), Expect = 9e-58,   Method: Compositional matrix adjust.
 Identities = 102/143 (71%), Positives = 119/143 (83%)
Query: 2   SDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDT 61
            +AG WCL+ESDPGVFTELI+GFG +G QVEE+WSLEPEN + L+PVHGLIFLFK +   
Sbjct: 5   GNAGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGE 64
Query: 62  EPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFD 121
           EPAGS+VQDSRL+TIFFAKQV+NNA ATQAI+S+LLN +  +V LG  L+EFK+F QSFD
Sbjct: 65  EPAGSVVQDSRLDTIFFAKQVINNAAATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFD 124
Query: 122 PTMKGYALSNSQPIRTVHNSFAR 144
             MKG ALSNS  IR VHNSFAR
Sbjct: 125 AAMKGLALSNSDVIRQVHNSFAR 147

>pdb|3RII|A Chain A, Crystal Structure Of The Catalytic Domain Of Uchl5, A Proteasome- Associated Human Deubiquitinating Enzyme, Reveals An Unproductive Form Of The Enzyme Length = 233

Iteration: 1
 Score =  215 bits (547), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 101/143 (70%), Positives = 117/143 (81%)
Query: 2   SDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDT 61
            +AG WCL ESDPGVFTELI+GFG +G QVEE+WSLEPEN + L+PVHGLIFLFK +   
Sbjct: 8   GNAGEWCLXESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGE 67
Query: 62  EPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFD 121
           EPAGS+VQDSRL+TIFFAKQV+NNA ATQAI+S+LLN +  +V LG  L+EFK+F QSFD
Sbjct: 68  EPAGSVVQDSRLDTIFFAKQVINNASATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFD 127
Query: 122 PTMKGYALSNSQPIRTVHNSFAR 144
              KG ALSNS  IR VHNSFAR
Sbjct: 128 AAXKGLALSNSDVIRQVHNSFAR 150

>pdb|1XD3|A Chain A, Crystal Structure Of Uchl3-Ubvme Complex Length = 230

Iteration: 1
 Score = 57.8 bits (138), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 41/154 (26%), Positives = 73/154 (47%), Gaps = 12/154 (7%)
Query: 7   WCLIESDPGVFTELIRGFGVQ-GVQVEELWSLEPENLKIL-QPVHGLIFLFKLRE----- 59
           W  +E++P V  + ++  G+    Q  +++ ++PE L ++ +PV  ++ LF + E     
Sbjct: 6   WLPLEANPEVTNQFLKQLGLHPNWQFVDVYGMDPELLSMVPRPVCAVLLLFPITEKYEVF 65
Query: 60  ---DTEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDP-EVKLGSVLTEFKD 115
              + E   S  QD    +++F KQ ++NAC T  ++  + NN D    + GS L +F +
Sbjct: 66  RTEEEEKIKSQGQDVT-SSVYFMKQTISNACGTIGLIHAIANNKDKMHFESGSTLKKFLE 124
Query: 116 FCQSFDPTMKGYALSNSQPIRTVHNSFARYSSEE 149
              S  P  +   L N   IR  H + A     E
Sbjct: 125 ESVSMSPEERARYLENYDAIRVTHETSAHEGQTE 158

>pdb|1CMX|A Chain A, Structural Basis For The Specificity Of Ubiquitin C- Terminal Hydrolases Length = 235

Iteration: 1
 Score = 48.5 bits (114), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 37/93 (39%), Positives = 51/93 (54%), Gaps = 4/93 (4%)
Query: 10  IESDPGVFTELIRGFGVQGVQVE-ELWSL-EPENLKIL-QPVHGLIFLFKLREDTEPAGS 66
           IES+P VFT      G++      +++SL EPE L  L +PV  ++ LF + ED + + S
Sbjct: 11  IESNPEVFTNFAHKLGLKNEWAYFDIYSLTEPELLAFLPRPVKAIVLLFPINEDRKSSTS 70
Query: 67  IVQDSRLETIFFAKQVVNNACATQAILSILLNN 99
               S  + I+F KQ V NAC   AIL  L NN
Sbjct: 71  QQITSSYDVIWF-KQSVKNACGLYAILHSLSNN 102

>pdb|3IRT|A Chain A, Crystal Structure Of The I93m Mutant Of Ubiquitin Carboxy-Te Hydrolase L1 Length = 228

Iteration: 1
 Score = 42.0 bits (97), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 34/147 (23%), Positives = 66/147 (44%), Gaps = 16/147 (10%)
Query: 10  IESDPGVFTELIRGFGVQGV-QVEELWSLEPENL-KILQPVHGLIFLFKLREDTEPAGSI 67
           +E +P +  +++   GV G  +  ++  LE E+L  +  P   L+ LF L    E     
Sbjct: 11  MEINPEMLNKVLSRLGVAGQWRFVDVLGLEEESLGSVPAPACALLLLFPLTAQHEN---- 66
Query: 68  VQDSRLE---------TIFFAKQVVNNACATQAILSILLNNSDP-EVKLGSVLTEFKDFC 117
            +  ++E          ++F KQ + N+C T  ++  + NN D    + GSVL +F    
Sbjct: 67  FRKKQIEELKGQEVSPKVYFMKQTIGNSCGTMGLIHAVANNQDKLGFEDGSVLKQFLSET 126
Query: 118 QSFDPTMKGYALSNSQPIRTVHNSFAR 144
           +   P  +      ++ I+  H++ A+
Sbjct: 127 EKMSPEDRAKCFEKNEAIQAAHDAVAQ 153

>pdb|2LEN|A Chain A, Solution Structure Of Uchl1 S18y Variant Length = 231

Iteration: 1
 Score = 40.8 bits (94), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 35/147 (23%), Positives = 66/147 (44%), Gaps = 16/147 (10%)
Query: 10  IESDPGVFTELIRGFGVQGV-QVEELWSLEPENL-KILQPVHGLIFLFKL---------R 58
           +E +P +  +++   GV G  +  ++  LE E+L  +  P   L+ LF L         +
Sbjct: 6   MEINPEMLNKVLYRLGVAGQWRFVDVLGLEEESLGSVPAPACALLLLFPLTAQHENFRKK 65
Query: 59  EDTEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDP-EVKLGSVLTEFKDFC 117
           +  E  G  V       ++F KQ + N+C T  ++  + NN D    + GSVL +F    
Sbjct: 66  QIEELKGQEVSPK----VYFMKQTIGNSCGTIGLIHAVANNQDKLGFEDGSVLKQFLSET 121
Query: 118 QSFDPTMKGYALSNSQPIRTVHNSFAR 144
           +   P  +      ++ I+  H++ A+
Sbjct: 122 EKMSPEDRAKCFEKNEAIQAAHDAVAQ 148

>pdb|2ETL|A Chain A, Crystal Structure Of Ubiquitin Carboxy-terminal Hydrolase L1 (uch-l1) Length = 228

Iteration: 1
 Score = 40.8 bits (94), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 34/147 (23%), Positives = 66/147 (44%), Gaps = 16/147 (10%)
Query: 10  IESDPGVFTELIRGFGVQGV-QVEELWSLEPENL-KILQPVHGLIFLFKLREDTEPAGSI 67
           +E +P +  +++   GV G  +  ++  LE E+L  +  P   L+ LF L    E     
Sbjct: 11  MEINPEMLNKVLSRLGVAGQWRFVDVLGLEEESLGSVPAPACALLLLFPLTAQHEN---- 66
Query: 68  VQDSRLE---------TIFFAKQVVNNACATQAILSILLNNSDP-EVKLGSVLTEFKDFC 117
            +  ++E          ++F KQ + N+C T  ++  + NN D    + GSVL +F    
Sbjct: 67  FRKKQIEELKGQEVSPKVYFMKQTIGNSCGTIGLIHAVANNQDKLGFEDGSVLKQFLSET 126
Query: 118 QSFDPTMKGYALSNSQPIRTVHNSFAR 144
           +   P  +      ++ I+  H++ A+
Sbjct: 127 EKMSPEDRAKCFEKNEAIQAAHDAVAQ 153

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	258
3rii_A	233	Ubiquitin carboxyl-terminal hydrolase isozyme L5;	7e-57
3ihr_A	328	Ubiquitin carboxyl-terminal hydrolase isozyme L5;	1e-53
3ihr_A	328	Ubiquitin carboxyl-terminal hydrolase isozyme L5;	1e-25
2wdt_A	232	Ubiquitin carboxyl-terminal hydrolase L3; hydrolas	7e-51
1cmx_A	235	Protein (ubiquitin YUH1-UBAL); ubiquitin hydrolase	9e-47
1xd3_A	230	Ubiquitin carboxyl-terminal esterase L3; enzyme-li	5e-45
4dm9_A	228	Ubiquitin carboxyl-terminal hydrolase isozyme L1;	2e-44
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-04

>3rii_A Ubiquitin carboxyl-terminal hydrolase isozyme L5; alpha-beta-alpha fold, thiol hydroalse, cysteine protease, deubiquitinating enzyme; 2.00A {Homo sapiens} PDB: 3ris_A 3sqa_A 3tb3_A 3a7s_A Length = 233

 Score =  180 bits (458), Expect = 7e-57
 Identities = 103/148 (69%), Positives = 120/148 (81%)

Query: 2   SDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDT 61
            +AG WCL+ESDPGVFTELI+GFG +G QVEE+WSLEPEN + L+PVHGLIFLFK +   
Sbjct: 8   GNAGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGE 67

Query: 62  EPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFD 121
           EPAGS+VQDSRL+TIFFAKQV+NNA ATQAI+S+LLN +  +V LG  L+EFK+F QSFD
Sbjct: 68  EPAGSVVQDSRLDTIFFAKQVINNASATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFD 127

Query: 122 PTMKGYALSNSQPIRTVHNSFARYSSEE 149
             MKG ALSNS  IR VHNSFAR    E
Sbjct: 128 AAMKGLALSNSDVIRQVHNSFARQQMFE 155

>3ihr_A Ubiquitin carboxyl-terminal hydrolase isozyme L5; center for eukaryotic structural genomics, UCH37, UCH-L5, ubiquitin hydrolase, proteasome, INO80; 2.95A {Homo sapiens} Length = 328

 Score =  175 bits (445), Expect = 1e-53
 Identities = 104/148 (70%), Positives = 121/148 (81%)

Query: 2   SDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDT 61
            +AG WCL+ESDPGVFTELI+GFG +G QVEE+WSLEPEN + L+PVHGLIFLFK +   
Sbjct: 3   GNAGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGE 62

Query: 62  EPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFD 121
           EPAGS+VQDSRL+TIFFAKQV+NNACATQAI+S+LLN +  +V LG  L+EFK+F QSFD
Sbjct: 63  EPAGSVVQDSRLDTIFFAKQVINNACATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFD 122

Query: 122 PTMKGYALSNSQPIRTVHNSFARYSSEE 149
             MKG ALSNS  IR VHNSFAR    E
Sbjct: 123 AAMKGLALSNSDVIRQVHNSFARQQMFE 150

>3ihr_A Ubiquitin carboxyl-terminal hydrolase isozyme L5; center for eukaryotic structural genomics, UCH37, UCH-L5, ubiquitin hydrolase, proteasome, INO80; 2.95A {Homo sapiens} Length = 328

 Score =  102 bits (254), Expect = 1e-25
 Identities = 57/118 (48%), Positives = 79/118 (66%), Gaps = 4/118 (3%)

Query: 142 FARYSSEEIRFNLLAVVCDKKMKYEKELAAATQALKDPSLDAATKT----AKQNEVVQLK 197
             +YS  EIRFNL+A+V D+KM YE+++A   + L +  +D         A Q+EV + +
Sbjct: 208 IQKYSEGEIRFNLMAIVSDRKMIYEQKIAELQRQLAEEPMDTDQGNSMLSAIQSEVAKNQ 267

Query: 198 ILIEEEAAKLESYRIENIRRKHNYLPLIMNLLKLLAKQGQLVNLYQKAVELNSSKKEK 255
           +LIEEE  KL+ Y+IENIRRKHNYLP IM LLK LA+  QL+ L +KA E  ++KK +
Sbjct: 268 MLIEEEVQKLKRYKIENIRRKHNYLPFIMELLKTLAEHQQLIPLVEKAKEKQNAKKAQ 325

>2wdt_A Ubiquitin carboxyl-terminal hydrolase L3; hydrolase-protein binding complex, enzyme-ligand complex, UB isopeptidase, UCH-L superfamily, cystein proteinase, peptid hydrolase; 2.30A {Plasmodium falciparum} PDB: 2we6_A Length = 232

 Score =  165 bits (419), Expect = 7e-51
 Identities = 33/153 (21%), Positives = 65/153 (42%), Gaps = 6/153 (3%)

Query: 1   MSDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKIL-QPVHGLIFLFKLRE 59
           M+    W  +ES+P          G   ++  +++    + L ++ QPV  +IFL+ + +
Sbjct: 1   MAKNDIWTPLESNPDSLYLYSCKLGQSKLKFVDIYGFNNDLLDMIPQPVQAVIFLYPVND 60

Query: 60  DTE----PAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSD-PEVKLGSVLTEFK 114
           +                 + ++F KQ + N+C T A+L +  N  +  E+   SVL +F 
Sbjct: 61  NIVSENNTNDKHNLKENFDNVWFIKQYIPNSCGTIALLHLYGNLRNKFELDKDSVLDDFF 120

Query: 115 DFCQSFDPTMKGYALSNSQPIRTVHNSFARYSS 147
           +         +G  L N++ I  +H+ F     
Sbjct: 121 NKVNEMSAEKRGQELKNNKSIENLHHEFCGQVE 153

>1cmx_A Protein (ubiquitin YUH1-UBAL); ubiquitin hydrolase, deubiquitinating enzyme, cysteine protease, enzyme specificity; 2.25A {Synthetic} SCOP: d.3.1.6 Length = 235

 Score =  154 bits (391), Expect = 9e-47
 Identities = 41/154 (26%), Positives = 65/154 (42%), Gaps = 7/154 (4%)

Query: 1   MS-DAGNWCLIESDPGVFTELIRGFGVQGVQVE-ELWSLEPENL--KILQPVHGLIFLFK 56
           MS +      IES+P VFT      G++      +++SL    L   + +PV  ++ LF 
Sbjct: 1   MSGENRAVVPIESNPEVFTNFAHKLGLKNEWAYFDIYSLTEPELLAFLPRPVKAIVLLFP 60

Query: 57  LREDTEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEF-KD 115
           + ED + + S    S    + + KQ V NAC   AIL  L NN    ++ GS L  F K 
Sbjct: 61  INEDRKSSTSQQITSS-YDVIWFKQSVKNACGLYAILHSLSNNQS-LLEPGSDLDNFLKS 118

Query: 116 FCQSFDPTMKGYALSNSQPIRTVHNSFARYSSEE 149
              +     +   ++  Q +  V     +  S  
Sbjct: 119 QSDTSSSKNRFDDVTTDQFVLNVIKENVQTFSTG 152

>1xd3_A Ubiquitin carboxyl-terminal esterase L3; enzyme-ligand complex, active site crossover loop, hydrolase; HET: GVE; 1.45A {Homo sapiens} SCOP: d.3.1.6 PDB: 1uch_A* Length = 230

 Score =  150 bits (379), Expect = 5e-45
 Identities = 37/152 (24%), Positives = 70/152 (46%), Gaps = 10/152 (6%)

Query: 3   DAGNWCLIESDPGVFTELIRGFGVQ-GVQVEELWSLEPENLKIL-QPVHGLIFLFKL--- 57
           +   W  +E++P V  + ++  G+    Q  +++ ++PE L ++ +PV  ++ LF +   
Sbjct: 2   EGQRWLPLEANPEVTNQFLKQLGLHPNWQFVDVYGMDPELLSMVPRPVCAVLLLFPITEK 61

Query: 58  ----REDTEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSD-PEVKLGSVLTE 112
               R + E            +++F KQ ++NAC T  ++  + NN D    + GS L +
Sbjct: 62  YEVFRTEEEEKIKSQGQDVTSSVYFMKQTISNACGTIGLIHAIANNKDKMHFESGSTLKK 121

Query: 113 FKDFCQSFDPTMKGYALSNSQPIRTVHNSFAR 144
           F +   S  P  +   L N   IR  H + A 
Sbjct: 122 FLEESVSMSPEERARYLENYDAIRVTHETSAH 153

>4dm9_A Ubiquitin carboxyl-terminal hydrolase isozyme L1; ubiquitin hydrolase, ligase, hydrolase, ligase-inhibitor COM; HET: PHQ GME; 2.35A {Homo sapiens} PDB: 3kw5_A 2etl_A* 3irt_A 3kvf_A 3ifw_A Length = 228

 Score =  148 bits (375), Expect = 2e-44
 Identities = 33/156 (21%), Positives = 64/156 (41%), Gaps = 8/156 (5%)

Query: 2   SDAGNWCLIESDPGVFTELIRGFGVQGV-QVEELWSLEPENLKIL-QPVHGLIFLFKLRE 59
             +     +E +P +  +++   GV G  +  ++  LE E+L  +  P   L+ LF L  
Sbjct: 3   LGSMQLKPMEINPEMLNKVLSRLGVAGQWRFVDVLGLEEESLGSVPAPACALLLLFPLTA 62

Query: 60  DTE-----PAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDP-EVKLGSVLTEF 113
             E         +        ++F KQ + N+C T  ++  + NN D    + GSVL +F
Sbjct: 63  QHENFRKKQIEELKGQEVSPKVYFMKQTIGNSCGTIGLIHAVANNQDKLGFEDGSVLKQF 122

Query: 114 KDFCQSFDPTMKGYALSNSQPIRTVHNSFARYSSEE 149
               +   P  +      ++ I+  H++ A+     
Sbjct: 123 LSETEKMSPEDRAKCFEKNEAIQAAHDAVAQEGQCR 158

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 41.0 bits (95), Expect = 3e-04
 Identities = 45/312 (14%), Positives = 90/312 (28%), Gaps = 83/312 (26%)

Query: 1   MSDAGNWCLIES---DPGVFTELIRGFGVQGVQVEELW-SL----EPEN-LKILQPV-HG 50
           +  +G   +         V  +    F +        W +L     PE  L++LQ + + 
Sbjct: 158 VLGSGKTWVALDVCLSYKV--QCKMDFKI-------FWLNLKNCNSPETVLEMLQKLLYQ 208

Query: 51  LIFLFKLREDTEPAGSIVQDS---RLETIFFAKQVVNNACATQAILSILLNNSDPEV--- 104
           +   +  R D      +   S    L  +  +K   N  C     L +LLN  + +    
Sbjct: 209 IDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYEN--C-----LLVLLNVQNAKAWNA 261

Query: 105 -KLGS---VLTEFKDFCQSFDP-TMKGYALSNSQPIRTVHNS---FARY--------SSE 148
             L     + T FK         T    +L +     T         +Y          E
Sbjct: 262 FNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPRE 321

Query: 149 EIRFNLLAV-VCDKKMK--------YEKELAAATQALKDPSLDAATKTAKQNEVVQLKIL 199
            +  N   + +  + ++        ++         + + SL+       +    +L + 
Sbjct: 322 VLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVF 381

Query: 200 ----------------------IEEEAAKLESYRIENIRRKHN--YLPLIMNLLKLLAKQ 235
                                 +     KL  Y +   + K +   +P I   L+L  K 
Sbjct: 382 PPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSI--YLELKVKL 439

Query: 236 GQLVNLYQKAVE 247
                L++  V+
Sbjct: 440 ENEYALHRSIVD 451

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	258
3ihr_A	328	Ubiquitin carboxyl-terminal hydrolase isozyme L5;	100.0
3rii_A	233	Ubiquitin carboxyl-terminal hydrolase isozyme L5;	100.0
1xd3_A	230	Ubiquitin carboxyl-terminal esterase L3; enzyme-li	100.0
2wdt_A	232	Ubiquitin carboxyl-terminal hydrolase L3; hydrolas	100.0
4dm9_A	228	Ubiquitin carboxyl-terminal hydrolase isozyme L1;	100.0
1cmx_A	235	Protein (ubiquitin YUH1-UBAL); ubiquitin hydrolase	100.0
3ihr_A	328	Ubiquitin carboxyl-terminal hydrolase isozyme L5;	86.75

>3ihr_A Ubiquitin carboxyl-terminal hydrolase isozyme L5; center for eukaryotic structural genomics, UCH37, UCH-L5, UB hydrolase, proteasome, INO80; 2.95A {Homo sapiens}

Probab=100.00  E-value=1.2e-81  Score=585.25  Aligned_cols=252  Identities=63%  Similarity=1.002  Sum_probs=195.6

Q ss_pred             CCCcccccCCHHHHHHHHHhcCCCcceEEEeccCChhhhhhcCCcceEEeeeeccCCCCcCCCCccCCccccccchhhhc
Q psy6731           4 AGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDTEPAGSIVQDSRLETIFFAKQVV   83 (258)
Q Consensus         4 ~~~W~pLESdP~VFt~li~~LGv~~~qf~DVysLD~~~L~~l~PV~glIfLFp~~~~~~~~~~~~~d~~~~~vfFakQtI   83 (258)
                      +++||||||||+|||+|+++|||++++|+||||||+++|++++|||||||||||++..+..+....+...++|||+||||
T Consensus         5 ~~~W~pLESnP~Vft~ll~~LGv~~~~f~DVysLD~e~L~~l~Pv~alIfLFp~~~~~e~~~~~~~~~~~~~v~f~kQtI   84 (328)
T 3ihr_A            5 AGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGEEPAGSVVQDSRLDTIFFAKQVI   84 (328)
T ss_dssp             --CCCCCCCCHHHHHHHHHHHTCBSEEEEECCCCCHHHHHTTCSEEEEEEEEECCSCCCCSSEECCSTTTTTSCCCCCCS
T ss_pred             CCceeeecCCHHHHHHHHHHcCCCceEEEEeccCCHHHHhcccCceEEEEEEecCchhhhcccccccCcccccchHHHhc
Confidence            57899999999999999999999999999999999999999999999999999998765555444444446899999999


Q ss_pred             cchhHHHHHHHHhcCCCCCCCCCCChhhHHHhhccCCChhhHHhhhcCChHHHHHhhhhcc-------------------
Q psy6731          84 NNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFDPTMKGYALSNSQPIRTVHNSFAR-------------------  144 (258)
Q Consensus        84 ~NACgT~AlLh~L~N~~~~~i~~gs~L~~f~~~t~~~~p~~Rg~~L~ns~~i~~aHns~A~-------------------  144 (258)
                      +||||||||||+|+|+++..|++||.|++|+++|.+|+|++||.+|+|++.|+.+|||||+                   
T Consensus        85 ~NACGT~ALLh~l~N~~~~~I~~Gs~L~~f~~~t~~l~P~~Rg~~L~ns~~i~~aHns~A~~g~~~~dt~~~~~d~~~~H  164 (328)
T 3ihr_A           85 NNACATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFDAAMKGLALSNSDVIRQVHNSFARQQMFEFDTKTSAKEEDAFH  164 (328)
T ss_dssp             GGGHHHHHHHHHHHTCCCTTCBCHHHHHHHHHHHTTSCHHHHHHHHHTCHHHHHHHHTTC-----------------CEE
T ss_pred             cchHHHHHHHHHHHcCCcccCCCCcHHHHHHHHhcCCCHHHHHHHHhcCHHHHHHHHHHhccCCccCCCCCCCCcCccee
Confidence            9999999999999999755799999999999999999999999999999999999999997                   


Q ss_pred             ----------------------------------------------cCCcCcceEEEEEEecChhhHHHHHHHHHHhhcC
Q psy6731         145 ----------------------------------------------YSSEEIRFNLLAVVCDKKMKYEKELAAATQALKD  178 (258)
Q Consensus       145 ----------------------------------------------~~~~ei~fh~~A~V~d~~~~~E~~l~~l~~~~~~  178 (258)
                                                                    |++++|+||+||+++|+...|+++|+.|++.+..
T Consensus       165 FIafV~~dG~LyELDG~k~gPI~hG~~~~e~~l~~a~~vi~~ri~~y~~~eirFslmAL~~d~~~~~~~~l~~l~~~~~~  244 (328)
T 3ihr_A          165 FVSYVPVNGRLYELDGLREGPIDLGACNQDDWISAVRPVIEKRIQKYSEGEIRFNLMAIVSDRKMIYEQKIAELQRQLAE  244 (328)
T ss_dssp             EEEEEEETTEEEEEETTSSSCEEEEECBTTBCHHHHHHHHHHHHHHHHHHCCCEEEEEEEECHHHHHHHHHHHHHHHHHH
T ss_pred             EEEEEeeCCEEEEcCCCCCCCcccCCCCchhHHHHHHHHHHHHHHhcCCCCceEEEEEecCChHHHHHHHHHHHHhhhhc
Confidence                                                          2223455555555555555555555544331110


Q ss_pred             CCcchhhh------hhhHHHHHHHHHHHHHHHHHHHhhHHHHhhhccCchHHHHHHHHHHHHcCcchHHHHHHHHhhhhh
Q psy6731         179 PSLDAATK------TAKQNEVVQLKILIEEEAAKLESYRIENIRRKHNYLPLIMNLLKLLAKQGQLVNLYQKAVELNSSK  252 (258)
Q Consensus       179 ~~~~~~~~------~~~~~e~~~~~~~l~~E~~kr~~~~~En~rR~hny~pfi~~llk~la~~g~l~~~~~~a~~~~~~~  252 (258)
                        .+|+.+      ..++.+|..+++.|++|++||++|++||+||||||+|||++|||+||++|+|.++|++||+|++++
T Consensus       245 --~~~~~~~~~~~~~~~~~ei~~~~~~l~~E~~kr~~w~~En~rRrhny~pfi~~llk~la~~~~l~~~~e~ak~~~~~~  322 (328)
T 3ihr_A          245 --EPMDTDQGNSMLSAIQSEVAKNQMLIEEEVQKLKRYKIENIRRKHNYLPFIMELLKTLAEHQQLIPLVEKAKEKQNAK  322 (328)
T ss_dssp             --SCCCC------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHGGGSSSTTTTTC-----------
T ss_pred             --ccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence              012111      235788999999999999999999999999999999999999999999999999999999999988


Q ss_pred             hhhcC
Q psy6731         253 KEKVK  257 (258)
Q Consensus       253 ~~~~~  257 (258)
                      .+++.
T Consensus       323 ~~~~~  327 (328)
T 3ihr_A          323 KAQET  327 (328)
T ss_dssp             -----
T ss_pred             HHhhc
Confidence            77653

>3rii_A Ubiquitin carboxyl-terminal hydrolase isozyme L5; alpha-beta-alpha fold, thiol hydroalse, cysteine protease, deubiquitinating enzyme; 2.00A {Homo sapiens} SCOP: d.3.1.0 PDB: 3ris_A 3sqa_A 3tb3_A 3a7s_A

Probab=100.00  E-value=2e-60  Score=425.19  Aligned_cols=166  Identities=65%  Similarity=1.036  Sum_probs=148.2

Q ss_pred             CCCCCCcccccCCHHHHHHHHHhcCCCcceEEEeccCChhhhhhcCCcceEEeeeeccCCCCcCCCCccCCccccccchh
Q psy6731           1 MSDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDTEPAGSIVQDSRLETIFFAK   80 (258)
Q Consensus         1 M~~~~~W~pLESdP~VFt~li~~LGv~~~qf~DVysLD~~~L~~l~PV~glIfLFp~~~~~~~~~~~~~d~~~~~vfFak   80 (258)
                      |+++++||||||||+|||+|+++|||++++|+||||||+++|++++|||||||||||++.++..++...+...++|||+|
T Consensus         7 ~~~~~~w~pLESnP~Vft~l~~~LGv~~~~f~DVysLD~~~L~~l~Pv~alIfLFp~~~~~~~~~~~~~~~~~~~v~f~k   86 (233)
T 3rii_A            7 TGNAGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGEEPAGSVVQDSRLDTIFFAK   86 (233)
T ss_dssp             ----CCSCCCCCCHHHHHHHHHHTTCBSEEEEECSCSSTTTTTTTCSEEEEEEEECCCTTCCCSSEECCSGGGGTSCCCC
T ss_pred             cccCCCeeeecCCHHHHHHHHHHhCCCCcEEEEcccCCHHHHhhccCceEEEEEEeccchhhhccCccccCCcccceEee
Confidence            44458999999999999999999999999999999999999999999999999999998765554444444346899999


Q ss_pred             hhccchhHHHHHHHHhcCCCCCCCCCCChhhHHHhhccCCChhhHHhhhcCChHHHHHhhhhccc----------CCcCc
Q psy6731          81 QVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFDPTMKGYALSNSQPIRTVHNSFARY----------SSEEI  150 (258)
Q Consensus        81 QtI~NACgT~AlLh~L~N~~~~~i~~gs~L~~f~~~t~~~~p~~Rg~~L~ns~~i~~aHns~A~~----------~~~ei  150 (258)
                      |||+||||||||||+|+|+++..|++||.|++|+++|.+|+|++||.+|+|++.|+.+|||||+.          .++++
T Consensus        87 QtI~NACgT~ALLh~l~N~~~~~i~~gs~L~~f~~~t~~~~p~~Rg~~L~n~~~i~~aH~s~A~~g~~~~dt~~~~~~~~  166 (233)
T 3rii_A           87 QVINNASATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFDAAMKGLALSNSDVIRQVHNSFARQQMFEFDTKTSAKEED  166 (233)
T ss_dssp             CCCGGGHHHHHHHHHHHTCCCTTCBCCHHHHHHHHHHTTCCHHHHHHHHHTCHHHHHHHHHTSCC----------CCGGG
T ss_pred             hhccccHHHHHHHHHHHcCCcccccCCcHHHHHHHHhcCCCHHHHHHHHhcCHHHHHHHHHHhhcCCccCCCCCCCccCc
Confidence            99999999999999999997557999999999999999999999999999999999999999983          24578


Q ss_pred             ceEEEEEEecChhhHH
Q psy6731         151 RFNLLAVVCDKKMKYE  166 (258)
Q Consensus       151 ~fh~~A~V~d~~~~~E  166 (258)
                      .|||||||+.+|++||
T Consensus       167 ~~HFIafV~~dG~LyE  182 (233)
T 3rii_A          167 AFHFVSYVPVNGRLYE  182 (233)
T ss_dssp             GSEEEEEEEETTEEEE
T ss_pred             ceeEEEEEEeCCeEEE
Confidence            9999999999999998

>1xd3_A Ubiquitin carboxyl-terminal esterase L3; enzyme-ligand complex, active site crossover loop, hydrolase; HET: GVE; 1.45A {Homo sapiens} SCOP: d.3.1.6 PDB: 1uch_A*

Probab=100.00  E-value=2.6e-58  Score=410.84  Aligned_cols=165  Identities=27%  Similarity=0.501  Sum_probs=143.5

Q ss_pred             CCCCCCcccccCCHHHHHHHHHhcCCCc-ceEEEeccCChhhhhhc-CCcceEEeeeeccCCCCcCCC-----C--ccCC
Q psy6731           1 MSDAGNWCLIESDPGVFTELIRGFGVQG-VQVEELWSLEPENLKIL-QPVHGLIFLFKLREDTEPAGS-----I--VQDS   71 (258)
Q Consensus         1 M~~~~~W~pLESdP~VFt~li~~LGv~~-~qf~DVysLD~~~L~~l-~PV~glIfLFp~~~~~~~~~~-----~--~~d~   71 (258)
                      |+. .+||||||||+|||+|+++|||++ ++|+||||||+|+|+++ +|||||||||||++.++..+.     .  ....
T Consensus         1 ~~~-~~w~plESnP~Vft~l~~~lGv~~~~~f~DVysld~e~L~~lP~Pv~alIfLFp~~~~~e~~r~~~~~~~~~~~~~   79 (230)
T 1xd3_A            1 MEG-QRWLPLEANPEVTNQFLKQLGLHPNWQFVDVYGMDPELLSMVPRPVCAVLLLFPITEKYEVFRTEEEEKIKSQGQD   79 (230)
T ss_dssp             -CC-CBCCCCBCCHHHHHHHHHHTTBCTTEEEEECCCSSHHHHTTSCSCEEEEEEEEECCHHHHHHHHHHHHHHHHHCCC
T ss_pred             CCC-CccccccCCHHHHHHHHHHcCCCceEEEEEeccCCHHHHhhCCCCceEEEEEEECChhhhhhhhhhhcccccccCC
Confidence            765 479999999999999999999997 99999999999999999 999999999999975433211     0  0112


Q ss_pred             ccccccchhhhccchhHHHHHHHHhcCCCC-CCCCCCChhhHHHhhccCCChhhHHhhhcCChHHHHHhhhhcc------
Q psy6731          72 RLETIFFAKQVVNNACATQAILSILLNNSD-PEVKLGSVLTEFKDFCQSFDPTMKGYALSNSQPIRTVHNSFAR------  144 (258)
Q Consensus        72 ~~~~vfFakQtI~NACgT~AlLh~L~N~~~-~~i~~gs~L~~f~~~t~~~~p~~Rg~~L~ns~~i~~aHns~A~------  144 (258)
                      .+++|||+||||+||||||||||+|+|+++ ..|..||.|++|+++|.+|+|++||.+|+|++.|+.+|||||+      
T Consensus        80 ~~~~v~f~kQtI~NACgT~AlLh~l~N~~~~i~l~~gs~L~~f~~~t~~~~p~~Rg~~L~n~~~i~~aHns~A~~g~t~~  159 (230)
T 1xd3_A           80 VTSSVYFMKQTISNACGTIGLIHAIANNKDKMHFESGSTLKKFLEESVSMSPEERARYLENYDAIRVTHETSAHEGQTEA  159 (230)
T ss_dssp             CCTTCCCCCCCSBTCHHHHHHHHHHHTTGGGCCBCTTCHHHHHHHHHTTSCHHHHHHHHHTCHHHHHHHHHHHTCSSSCC
T ss_pred             CCcCcEEeehhccccHHHHHHHHHHHcCcCCcccCCCchHHHHHHHccCCCHHHHHHHhcCcHHHHHHHHHHhccCCCCC
Confidence            236799999999999999999999999873 3455699999999999999999999999999999999999998      


Q ss_pred             -cCCcCcceEEEEEEecChhhHH
Q psy6731         145 -YSSEEIRFNLLAVVCDKKMKYE  166 (258)
Q Consensus       145 -~~~~ei~fh~~A~V~d~~~~~E  166 (258)
                       ..++++.|||||||+.+|++||
T Consensus       160 p~~~~~~~~HFI~fV~~~G~LyE  182 (230)
T 1xd3_A          160 PSIDEKVDLHFIALVHVDGHLYE  182 (230)
T ss_dssp             CCTTSCCCEEEEEEEEETTEEEE
T ss_pred             CCCCCCcCeEEEEEEeeCCEEEE
Confidence             1256899999999999999998

>2wdt_A Ubiquitin carboxyl-terminal hydrolase L3; hydrolase-protein binding complex, enzyme-ligand complex, UB isopeptidase, UCH-L superfamily, cystein proteinase, peptid hydrolase; 2.30A {Plasmodium falciparum} PDB: 2we6_A

Probab=100.00  E-value=5e-58  Score=409.50  Aligned_cols=166  Identities=21%  Similarity=0.398  Sum_probs=138.5

Q ss_pred             CCCCCCcccccCCHHHHHHHHHhcCCCcceEEEeccCChhhhhhc-CCcceEEeeeeccCCCCcC---CCCccC-Ccccc
Q psy6731           1 MSDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKIL-QPVHGLIFLFKLREDTEPA---GSIVQD-SRLET   75 (258)
Q Consensus         1 M~~~~~W~pLESdP~VFt~li~~LGv~~~qf~DVysLD~~~L~~l-~PV~glIfLFp~~~~~~~~---~~~~~d-~~~~~   75 (258)
                      ||+.++||||||||+|||+|+++|||++++|+||||||+|+|+++ +|||||||||||++.++..   .....+ ...++
T Consensus         1 Ma~~~~w~plESnP~Vft~l~~~lGv~~~~f~DVysld~e~L~~lP~Pv~alIfLFp~~~~~e~~~~~~~~~~~~~~~~~   80 (232)
T 2wdt_A            1 MAKNDIWTPLESNPDSLYLYSCKLGQSKLKFVDIYGFNNDLLDMIPQPVQAVIFLYPVNDNIVSENNTNDKHNLKENFDN   80 (232)
T ss_dssp             ----CCCCCCBCCHHHHHHHHHHHTCCSEEEEECCCSSHHHHTTSCSCCCEEEEEEECC------------------CTT
T ss_pred             CCCCCcceeecCCHHHHHHHHHHhCCCCeEEEEcccCCHHHHhhCCCCceEEEEEEECCcccchhhccccccccccCCCC
Confidence            877678999999999999999999999999999999999999999 9999999999999865443   111100 12367


Q ss_pred             ccchhhhccchhHHHHHHHHhcCCCC-CCCCCCChhhHHHhhccCCChhhHHhhhcCChHHHHHhhhhccc-----CCcC
Q psy6731          76 IFFAKQVVNNACATQAILSILLNNSD-PEVKLGSVLTEFKDFCQSFDPTMKGYALSNSQPIRTVHNSFARY-----SSEE  149 (258)
Q Consensus        76 vfFakQtI~NACgT~AlLh~L~N~~~-~~i~~gs~L~~f~~~t~~~~p~~Rg~~L~ns~~i~~aHns~A~~-----~~~e  149 (258)
                      |||+||||+||||||||||+|+|+++ ..|++||.|++|+++|.+|+|++||.+|+|++.|+.+||||+..     .+++
T Consensus        81 v~f~kQtI~NACgT~AlLh~l~N~~~~i~l~~gs~L~~f~~~t~~~~p~~Rg~~L~n~~~i~~aHns~~g~t~~p~~~~~  160 (232)
T 2wdt_A           81 VWFIKQYIPNSCGTIALLHLYGNLRNKFELDKDSVLDDFFNKVNEMSAEKRGQELKNNKSIENLHHEFCGQVENRDDILD  160 (232)
T ss_dssp             SCCCCCCSTTCHHHHHHHHHHHHSTTTSCCCTTSHHHHHHHHTTTSCHHHHHHHHHHCHHHHHHHTTSSCCCCSHHHHHC
T ss_pred             cEEeeeccccchHHHHHHHHHhcCccccccCCChHHHHHHHHccCCCHHHHHHHhhccHHHHHHHHhccCccCCCCCCCC
Confidence            99999999999999999999999863 24588999999999999999999999999999999999999642     2467


Q ss_pred             cceEEEEEEecChhhHH
Q psy6731         150 IRFNLLAVVCDKKMKYE  166 (258)
Q Consensus       150 i~fh~~A~V~d~~~~~E  166 (258)
                      +.|||||||+.+|++||
T Consensus       161 v~~HFI~fV~~~G~LyE  177 (232)
T 2wdt_A          161 VDTHFIVFVQIEGKIIE  177 (232)
T ss_dssp             CCEEEEEEEESSSEEEE
T ss_pred             CCeEEEEEEEeCCEEEE
Confidence            89999999999999998

>4dm9_A Ubiquitin carboxyl-terminal hydrolase isozyme L1; ubiquitin hydrolase, ligase, hydrolase, ligase-inhibitor COM; HET: PHQ GME; 2.35A {Homo sapiens} PDB: 3kw5_A 2etl_A* 3irt_A 3kvf_A 3ifw_A 2len_A

Probab=100.00  E-value=2e-57  Score=404.71  Aligned_cols=162  Identities=22%  Similarity=0.410  Sum_probs=142.9

Q ss_pred             CCcccccCCHHHHHHHHHhcCCCc-ceEEEeccCChhhhhhc-CCcceEEeeeeccCCCCcCC-----CCccCCcccccc
Q psy6731           5 GNWCLIESDPGVFTELIRGFGVQG-VQVEELWSLEPENLKIL-QPVHGLIFLFKLREDTEPAG-----SIVQDSRLETIF   77 (258)
Q Consensus         5 ~~W~pLESdP~VFt~li~~LGv~~-~qf~DVysLD~~~L~~l-~PV~glIfLFp~~~~~~~~~-----~~~~d~~~~~vf   77 (258)
                      ..||||||||+|||+|+++|||++ ++|+||||||+|+|+++ +|||||||||||++.++..+     ........++||
T Consensus         6 ~~w~pLESnP~Vft~l~~~LGv~~~~~f~DVysLD~dlL~~lP~Pv~alIfLFP~~~~~e~~r~~~~~~~~~~~~~~~v~   85 (228)
T 4dm9_A            6 MQLKPMEINPEMLNKVLSRLGVAGQWRFVDVLGLEEESLGSVPAPACALLLLFPLTAQHENFRKKQIEELKGQEVSPKVY   85 (228)
T ss_dssp             CCCCCCCCSHHHHHHHHHHTTBCSSEEEEEECCSSHHHHHTSCSCEEEEEEEEECCHHHHHHHHHHHHHHTTTTSCTTSC
T ss_pred             CceeeccCCHHHHHHHHHHcCCCCceEEEEeecCCHHHHhhCCCCceEEEEEecccchhhhhhhhhhccccccCCCcccE
Confidence            589999999999999999999997 99999999999999999 99999999999987654211     001111236799


Q ss_pred             chhhhccchhHHHHHHHHhcCCCC-CCCCCCChhhHHHhhccCCChhhHHhhhcCChHHHHHhhhhccc----CCcCcce
Q psy6731          78 FAKQVVNNACATQAILSILLNNSD-PEVKLGSVLTEFKDFCQSFDPTMKGYALSNSQPIRTVHNSFARY----SSEEIRF  152 (258)
Q Consensus        78 FakQtI~NACgT~AlLh~L~N~~~-~~i~~gs~L~~f~~~t~~~~p~~Rg~~L~ns~~i~~aHns~A~~----~~~ei~f  152 (258)
                      |+||||+||||||||||+|+|+++ ..|++||.|++|+++|.+|+|++||.+|+|++.|+.+|||||+.    .++++.|
T Consensus        86 f~kQtI~NACgt~ALLh~l~N~~~~i~i~~gs~L~~f~~~t~~~~p~~Rg~~L~n~~~i~~aHns~A~~g~t~~~~~~~~  165 (228)
T 4dm9_A           86 FMKQTIGNSCGTIGLIHAVANNQDKLGFEDGSVLKQFLSETEKMSPEDRAKCFEKNEAIQAAHDAVAQEGQCRVDDKVNF  165 (228)
T ss_dssp             CCCCCSTTCHHHHHHHHHHHTTTTTCCBCTTCHHHHHHHHTTTSCHHHHHHHHHTCHHHHHHHHHHHTTSSCCCCTTCCE
T ss_pred             EeeeeccccHHHHHHHHHHhcCccccccCCCcHHHHHHHHhccCCHHHHHHHHhcCHHHHHHHHHHhccCCCCCCCCCCc
Confidence            999999999999999999999862 23559999999999999999999999999999999999999983    4668999


Q ss_pred             EEEEEEecChhhHH
Q psy6731         153 NLLAVVCDKKMKYE  166 (258)
Q Consensus       153 h~~A~V~d~~~~~E  166 (258)
                      ||||||+.+|++||
T Consensus       166 HFIafV~~dG~LyE  179 (228)
T 4dm9_A          166 HFILFNNVDGHLYE  179 (228)
T ss_dssp             EEEEEEEETTEEEE
T ss_pred             eEEEEEEeCCeEEE
Confidence            99999999999998

>1cmx_A Protein (ubiquitin YUH1-UBAL); ubiquitin hydrolase, deubiquitinating enzyme, cysteine protease, enzyme specificity; 2.25A {Synthetic} SCOP: d.3.1.6

Probab=100.00  E-value=4.7e-57  Score=403.67  Aligned_cols=164  Identities=26%  Similarity=0.379  Sum_probs=137.4

Q ss_pred             CCCC-CCcccccCCHHHHHHHHHhcCC-CcceEEEeccC-Chhhhhhc-CCcceEEeeeeccCCCCcCCCCccCCccccc
Q psy6731           1 MSDA-GNWCLIESDPGVFTELIRGFGV-QGVQVEELWSL-EPENLKIL-QPVHGLIFLFKLREDTEPAGSIVQDSRLETI   76 (258)
Q Consensus         1 M~~~-~~W~pLESdP~VFt~li~~LGv-~~~qf~DVysL-D~~~L~~l-~PV~glIfLFp~~~~~~~~~~~~~d~~~~~v   76 (258)
                      ||+. ++||||||||+|||+|+++||| ++++|+||||| |+|+|+++ +|||||||||||++.++..+....+ ..++|
T Consensus         1 Ms~~~k~w~plESnP~Vft~l~~~lGv~~~~~f~DVysLdd~e~L~~lP~Pv~alIfLFp~~~~~e~~r~~~~~-~~~~v   79 (235)
T 1cmx_A            1 MSGENRAVVPIESNPEVFTNFAHKLGLKNEWAYFDIYSLTEPELLAFLPRPVKAIVLLFPINEDRKSSTSQQIT-SSYDV   79 (235)
T ss_dssp             -----CBCCCEECCHHHHHHHHHHHTBCTTEEEEEECCSSCTTGGGSSCSSCCEEEEEEECC----------------CC
T ss_pred             CCCCCCceeeecCCHHHHHHHHHHcCCCCCcEEEEcccCCCHHHHhcCCCCcEEEEEEEeCCcccccccccccc-cccCc
Confidence            7763 6899999999999999999999 68999999999 56999999 9999999999999876554332222 23679


Q ss_pred             cchhhhccchhHHHHHHHHhcCCCCCCCCCCChhhHHHhhccCCChhhHHh--hhcCChHHHHHhh--hhcc-------c
Q psy6731          77 FFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFDPTMKGY--ALSNSQPIRTVHN--SFAR-------Y  145 (258)
Q Consensus        77 fFakQtI~NACgT~AlLh~L~N~~~~~i~~gs~L~~f~~~t~~~~p~~Rg~--~L~ns~~i~~aHn--s~A~-------~  145 (258)
                      ||+||||+||||||||||+|+|+. ..|++||.|++|+++|.+|+|++||.  +|+|++.|+.+||  +||+       .
T Consensus        80 ~f~kQtI~NACgT~AlLh~l~N~~-~~i~~gs~L~~f~~~t~~~~p~~Rg~~~~L~n~~~i~~aHn~~s~A~~g~t~~p~  158 (235)
T 1cmx_A           80 IWFKQSVKNACGLYAILHSLSNNQ-SLLEPGSDLDNFLKSQSDTSSSKNRFDDVTTDQFVLNVIKENVQTFSTGQSEAPE  158 (235)
T ss_dssp             CEECCCSBTCHHHHHHHHHHHTCG-GGBCTTSHHHHHHHHHHHHTSCSSEECSHHHHHHHHHHHHTCHHHHHCSSSCCCC
T ss_pred             EeehhhhcccHHHHHHHHHHhccC-ccCCCCcHHHHHHHHhcCCCHHHhcchhhccccHHHHHHhChhhhhcccCCCCCC
Confidence            999999999999999999999983 46999999999999999999999999  9999999999999  9998       1


Q ss_pred             CCcCcceEEEEEEecChhhHH
Q psy6731         146 SSEEIRFNLLAVVCDKKMKYE  166 (258)
Q Consensus       146 ~~~ei~fh~~A~V~d~~~~~E  166 (258)
                      .++++.|||||||+.+|++||
T Consensus       159 ~~~~~~~HFI~fV~~~G~LyE  179 (235)
T 1cmx_A          159 ATADTNLHYITYVEENGGIFE  179 (235)
T ss_dssp             TTSCCSEEEEEEEECSSEEEE
T ss_pred             CCCCCCeEEEEEEeeCCEEEE
Confidence            256899999999999999998

>3ihr_A Ubiquitin carboxyl-terminal hydrolase isozyme L5; center for eukaryotic structural genomics, UCH37, UCH-L5, UB hydrolase, proteasome, INO80; 2.95A {Homo sapiens}

Probab=86.75  E-value=0.14  Score=47.47  Aligned_cols=18  Identities=28%  Similarity=0.296  Sum_probs=15.4

Q ss_pred             CcceEEEEEEecChhhHH
Q psy6731         149 EIRFNLLAVVCDKKMKYE  166 (258)
Q Consensus       149 ei~fh~~A~V~d~~~~~E  166 (258)
                      ++.|||||||+.+|++||
T Consensus       160 ~~~~HFIafV~~dG~LyE  177 (328)
T 3ihr_A          160 EDAFHFVSYVPVNGRLYE  177 (328)
T ss_dssp             --CEEEEEEEEETTEEEE
T ss_pred             CcceeEEEEEeeCCEEEE
Confidence            478999999999999998

---

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	258
d1xd3a_	229	d.3.1.6 (A:) Ubiquitin carboxyl-terminal hydrolase	3e-50
d2etla1	223	d.3.1.6 (A:1-223) Ubiquitin carboxyl-terminal hydr	3e-46
d1cmxa_	229	d.3.1.6 (A:) Ubiquitin carboxyl-terminal hydrolase	1e-37

>d1xd3a_ d.3.1.6 (A:) Ubiquitin carboxyl-terminal hydrolase UCH-l3 {Human (Homo sapiens) [TaxId: 9606]} Length = 229

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Ubiquitin carboxyl-terminal hydrolase UCH-L
domain: Ubiquitin carboxyl-terminal hydrolase UCH-l3
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  162 bits (411), Expect = 3e-50
 Identities = 37/152 (24%), Positives = 69/152 (45%), Gaps = 10/152 (6%)

Query: 3   DAGNWCLIESDPGVFTELIRGFGVQ-GVQVEELWSLEPENLK-ILQPVHGLIFLFKL--- 57
           +   W  +E++P V  + ++  G+    Q  +++ ++PE L  + +PV  ++ LF +   
Sbjct: 1   EGQRWLPLEANPEVTNQFLKQLGLHPNWQFVDVYGMDPELLSMVPRPVCAVLLLFPITEK 60

Query: 58  ----REDTEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDP-EVKLGSVLTE 112
               R + E            +++F KQ ++NAC T  ++  + NN D    + GS L +
Sbjct: 61  YEVFRTEEEEKIKSQGQDVTSSVYFMKQTISNACGTIGLIHAIANNKDKMHFESGSTLKK 120

Query: 113 FKDFCQSFDPTMKGYALSNSQPIRTVHNSFAR 144
           F +   S  P  +   L N   IR  H + A 
Sbjct: 121 FLEESVSMSPEERARYLENYDAIRVTHETSAH 152

>d2etla1 d.3.1.6 (A:1-223) Ubiquitin carboxyl-terminal hydrolase isozyme l1 {Human (Homo sapiens) [TaxId: 9606]} Length = 223

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Ubiquitin carboxyl-terminal hydrolase UCH-L
domain: Ubiquitin carboxyl-terminal hydrolase isozyme l1
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  151 bits (384), Expect = 3e-46
 Identities = 36/172 (20%), Positives = 71/172 (41%), Gaps = 12/172 (6%)

Query: 7   WCLIESDPGVFTELIRGFGVQGV-QVEELWSLEPENLKIL-QPVHGLIFLFKLREDTE-- 62
              +E +P +  +++   GV G  +  ++  LE E+L  +  P   L+ LF L    E  
Sbjct: 3   LKPMEINPEMLNKVLSRLGVAGQWRFVDVLGLEEESLGSVPAPACALLLLFPLTAQHENF 62

Query: 63  ---PAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDP-EVKLGSVLTEFKDFCQ 118
                  +        ++F KQ + N+C T  ++  + NN D    + GSVL +F    +
Sbjct: 63  RKKQIEELKGQEVSPKVYFMKQTIGNSCGTIGLIHAVANNQDKLGFEDGSVLKQFLSETE 122

Query: 119 SFDPTMKGYALSNSQPIRTVHNSFAR----YSSEEIRFNLLAVVCDKKMKYE 166
              P  +      ++ I+  H++ A+       +++ F+ +         YE
Sbjct: 123 KMSPEDRAKCFEKNEAIQAAHDAVAQEGQCRVDDKVNFHFILFNNVDGHLYE 174

>d1cmxa_ d.3.1.6 (A:) Ubiquitin carboxyl-terminal hydrolase UCH-l3 {Synthetic, based on Saccharomyces cerevisiae sequence} Length = 229

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Ubiquitin carboxyl-terminal hydrolase UCH-L
domain: Ubiquitin carboxyl-terminal hydrolase UCH-l3
species: Synthetic, based on Saccharomyces cerevisiae sequence

 Score =  130 bits (327), Expect = 1e-37
 Identities = 43/144 (29%), Positives = 66/144 (45%), Gaps = 6/144 (4%)

Query: 10  IESDPGVFTELIRGFGVQG-VQVEELWSL-EPENLKIL-QPVHGLIFLFKLREDTEPAGS 66
           IES+P VFT      G++      +++SL EPE L  L +PV  ++ LF + ED + + S
Sbjct: 6   IESNPEVFTNFAHKLGLKNEWAYFDIYSLTEPELLAFLPRPVKAIVLLFPINEDRKSSTS 65

Query: 67  IVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEF-KDFCQSFDPTMK 125
               S  + + + KQ V NAC   AIL  L NN    ++ GS L  F K    +     +
Sbjct: 66  QQITSSYD-VIWFKQSVKNACGLYAILHSLSNNQS-LLEPGSDLDNFLKSQSDTSSSKNR 123

Query: 126 GYALSNSQPIRTVHNSFARYSSEE 149
              ++  Q +  V     +  S  
Sbjct: 124 FDDVTTDQFVLNVIKENVQTFSTG 147

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	258
d1xd3a_	229	Ubiquitin carboxyl-terminal hydrolase UCH-l3 {Huma	100.0
d2etla1	223	Ubiquitin carboxyl-terminal hydrolase isozyme l1 {	100.0
d1cmxa_	229	Ubiquitin carboxyl-terminal hydrolase UCH-l3 {Synt	100.0

>d1xd3a_ d.3.1.6 (A:) Ubiquitin carboxyl-terminal hydrolase UCH-l3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Ubiquitin carboxyl-terminal hydrolase UCH-L
domain: Ubiquitin carboxyl-terminal hydrolase UCH-l3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.7e-57  Score=401.98  Aligned_cols=163  Identities=26%  Similarity=0.488  Sum_probs=144.0

Q ss_pred             CCCcccccCCHHHHHHHHHhcCCC-cceEEEeccCChhhhhhc-CCcceEEeeeeccCCCCcCC-------CCccCCccc
Q psy6731           4 AGNWCLIESDPGVFTELIRGFGVQ-GVQVEELWSLEPENLKIL-QPVHGLIFLFKLREDTEPAG-------SIVQDSRLE   74 (258)
Q Consensus         4 ~~~W~pLESdP~VFt~li~~LGv~-~~qf~DVysLD~~~L~~l-~PV~glIfLFp~~~~~~~~~-------~~~~d~~~~   74 (258)
                      .+.||||||||+|||+|+++|||+ +++|+||||||+|+|+++ +|||||||||||++..+...       ....+...+
T Consensus         2 ~~~W~pLESnP~vft~~~~~lGv~~~~~f~Dvysld~d~L~~ip~Pv~avI~Lfp~~~~~e~~~~~~~~~~~~~~~~~~~   81 (229)
T d1xd3a_           2 GQRWLPLEANPEVTNQFLKQLGLHPNWQFVDVYGMDPELLSMVPRPVCAVLLLFPITEKYEVFRTEEEEKIKSQGQDVTS   81 (229)
T ss_dssp             CCBCCCCBCCHHHHHHHHHHTTBCTTEEEEECCCSSHHHHTTSCSCEEEEEEEEECCHHHHHHHHHHHHHHHHHCCCCCT
T ss_pred             CCeeeeecCCHHHHHHHHHHhCCCCCCEEEEeccCCHHHHhhcCCCcEEEEEEEECCchhhhhhcccccccccccCCCCc
Confidence            368999999999999999999998 899999999999999999 99999999999997543210       011122246


Q ss_pred             cccchhhhccchhHHHHHHHHhcCCCC-CCCCCCChhhHHHhhccCCChhhHHhhhcCChHHHHHhhhhcc-------cC
Q psy6731          75 TIFFAKQVVNNACATQAILSILLNNSD-PEVKLGSVLTEFKDFCQSFDPTMKGYALSNSQPIRTVHNSFAR-------YS  146 (258)
Q Consensus        75 ~vfFakQtI~NACgT~AlLh~L~N~~~-~~i~~gs~L~~f~~~t~~~~p~~Rg~~L~ns~~i~~aHns~A~-------~~  146 (258)
                      +|||+||||+|||||+||||+|+|+++ ..|++||+|++|+++|.+|+|++||.+|+|++.|+.+||+||+       ..
T Consensus        82 ~v~f~kQti~NACgT~Allh~l~N~~~~~~i~~gs~L~~f~~~t~~~~p~eRg~~l~~~~~l~~aH~s~A~~g~t~~p~~  161 (229)
T d1xd3a_          82 SVYFMKQTISNACGTIGLIHAIANNKDKMHFESGSTLKKFLEESVSMSPEERARYLENYDAIRVTHETSAHEGQTEAPSI  161 (229)
T ss_dssp             TCCCCCCCSBTCHHHHHHHHHHHTTGGGCCBCTTCHHHHHHHHHTTSCHHHHHHHHHTCHHHHHHHHHHHTCSSSCCCCT
T ss_pred             cceehhhhhhhhhHHHHHHHHHhcCccccccCCcHHHHHHHHHcCCCCHHHHHHHhhcCHHHHHHHHHhccccCCCCCCc
Confidence            799999999999999999999999962 3589999999999999999999999999999999999999997       23


Q ss_pred             CcCcceEEEEEEecChhhHH
Q psy6731         147 SEEIRFNLLAVVCDKKMKYE  166 (258)
Q Consensus       147 ~~ei~fh~~A~V~d~~~~~E  166 (258)
                      ++++.|||||||+.+|++||
T Consensus       162 ~~~~~~HFI~fV~~~G~lyE  181 (229)
T d1xd3a_         162 DEKVDLHFIALVHVDGHLYE  181 (229)
T ss_dssp             TSCCCEEEEEEEEETTEEEE
T ss_pred             ccccceeEEEEEeeCCEEEE
Confidence            46789999999999999998

>d2etla1 d.3.1.6 (A:1-223) Ubiquitin carboxyl-terminal hydrolase isozyme l1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Ubiquitin carboxyl-terminal hydrolase UCH-L
domain: Ubiquitin carboxyl-terminal hydrolase isozyme l1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.7e-56  Score=394.16  Aligned_cols=161  Identities=22%  Similarity=0.422  Sum_probs=143.3

Q ss_pred             CcccccCCHHHHHHHHHhcCCCc-ceEEEeccCChhhhhhc-CCcceEEeeeeccCCCCcC-----CCCccCCccccccc
Q psy6731           6 NWCLIESDPGVFTELIRGFGVQG-VQVEELWSLEPENLKIL-QPVHGLIFLFKLREDTEPA-----GSIVQDSRLETIFF   78 (258)
Q Consensus         6 ~W~pLESdP~VFt~li~~LGv~~-~qf~DVysLD~~~L~~l-~PV~glIfLFp~~~~~~~~-----~~~~~d~~~~~vfF   78 (258)
                      .|.||||||+|||+|+++|||++ ++|+||||||+|+|+++ +|||||||||||++..+..     ........+++|||
T Consensus         2 ~~~PLESnP~Vft~l~~~LGv~~~~~f~DVysld~~~L~~ip~Pv~alIfLfp~~~~~~~~~~~~~~~~~~~~~~~~v~f   81 (223)
T d2etla1           2 QLKPMEINPEMLNKVLSRLGVAGQWRFVDVLGLEEESLGSVPAPACALLLLFPLTAQHENFRKKQIEELKGQEVSPKVYF   81 (223)
T ss_dssp             BCCCCCCSHHHHHHHHHHTTBCSSEEEEECCCCSSTTSSSSCSCEEEEEEEEECCHHHHHHHHHHHHHHTTTTCCTTSCC
T ss_pred             CCCCcccCHHHHHHHHHHcCCCCCcEEEEeeeCCHHHHhcCCCCceEEEEEEecCchhhhhccccccccccCCCCcccEE
Confidence            59999999999999999999997 59999999999999999 9999999999998754331     11111222467999


Q ss_pred             hhhhccchhHHHHHHHHhcCCCC-CCCCCCChhhHHHhhccCCChhhHHhhhcCChHHHHHhhhhcc----cCCcCcceE
Q psy6731          79 AKQVVNNACATQAILSILLNNSD-PEVKLGSVLTEFKDFCQSFDPTMKGYALSNSQPIRTVHNSFAR----YSSEEIRFN  153 (258)
Q Consensus        79 akQtI~NACgT~AlLh~L~N~~~-~~i~~gs~L~~f~~~t~~~~p~~Rg~~L~ns~~i~~aHns~A~----~~~~ei~fh  153 (258)
                      +||||+|||||+||||+|+|+++ ..|.+||+|++|+++|.+|+|++||.+|+|++.|+.+||+||+    ..++++.||
T Consensus        82 ~kQtI~NACgT~AlLh~l~N~~~~~~i~~gs~L~~f~~~t~~~~p~eRg~~l~~~~~i~~aH~~~a~~~~~~~dd~~~~H  161 (223)
T d2etla1          82 MKQTIGNSCGTIGLIHAVANNQDKLGFEDGSVLKQFLSETEKMSPEDRAKCFEKNEAIQAAHDAVAQEGQCRVDDKVNFH  161 (223)
T ss_dssp             CCCCSBTCHHHHHHHHHHHTTTTTCCBCTTCHHHHHHHHTTTSCHHHHHHHHHHCHHHHHHHHHHHTTCSCCCCCCCCEE
T ss_pred             eHHhhcchhhHHHHHHHHhcCcccccccchhHHHHHHHHccCCCHHHHHHHhhcCHHHHHHHHHHhcccCCCCCCCcceE
Confidence            99999999999999999999973 3589999999999999999999999999999999999999998    446789999


Q ss_pred             EEEEEecChhhHH
Q psy6731         154 LLAVVCDKKMKYE  166 (258)
Q Consensus       154 ~~A~V~d~~~~~E  166 (258)
                      |||||+.+|++||
T Consensus       162 FI~fV~~~G~lyE  174 (223)
T d2etla1         162 FILFNNVDGHLYE  174 (223)
T ss_dssp             EEEEEEETTEEEE
T ss_pred             EEEEEEeCCEEEE
Confidence            9999999999998

>d1cmxa_ d.3.1.6 (A:) Ubiquitin carboxyl-terminal hydrolase UCH-l3 {Synthetic, based on Saccharomyces cerevisiae sequence}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Ubiquitin carboxyl-terminal hydrolase UCH-L
domain: Ubiquitin carboxyl-terminal hydrolase UCH-l3
species: Synthetic, based on Saccharomyces cerevisiae sequence

Probab=100.00  E-value=2.4e-51  Score=363.61  Aligned_cols=160  Identities=27%  Similarity=0.370  Sum_probs=132.4

Q ss_pred             CCcccccCCHHHHHHHHHhcCCCc-ceEEEeccC-Chhhhhhc-CCcceEEeeeeccCCCCcCCCCccCCccccccchhh
Q psy6731           5 GNWCLIESDPGVFTELIRGFGVQG-VQVEELWSL-EPENLKIL-QPVHGLIFLFKLREDTEPAGSIVQDSRLETIFFAKQ   81 (258)
Q Consensus         5 ~~W~pLESdP~VFt~li~~LGv~~-~qf~DVysL-D~~~L~~l-~PV~glIfLFp~~~~~~~~~~~~~d~~~~~vfFakQ   81 (258)
                      +.|+||||||+|||+|+++|||++ ++|+||||| |+++|+++ +|||||||||||++..+..... +.....++||+||
T Consensus         1 ~~~iPLESnP~Vft~l~~~lGv~~~~~f~Dv~slde~~ll~~ip~Pv~alIfLfp~~~~~~~~~~~-~~~~~~~v~f~kQ   79 (229)
T d1cmxa_           1 RAVVPIESNPEVFTNFAHKLGLKNEWAYFDIYSLTEPELLAFLPRPVKAIVLLFPINEDRKSSTSQ-QITSSYDVIWFKQ   79 (229)
T ss_dssp             CBCCCEECCHHHHHHHHHHHTBCTTEEEEEECCSSCTTGGGSSCSSCCEEEEEEECC----------------CCCEECC
T ss_pred             CCeecccCChHHHHHHHHHhCCCCceEEEEcccCCcHHHHhhcCCcceEEEEEEeccccccccccc-ccCCCcCceehhh
Confidence            469999999999999999999986 899999999 56999999 9999999999999765433221 1122357999999


Q ss_pred             hccchhHHHHHHHHhcCCCCCCCCCCChhhHHHhhc-cCCChhhHHhhhcCChHHHHHhhhhcc----------cCCcCc
Q psy6731          82 VVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFC-QSFDPTMKGYALSNSQPIRTVHNSFAR----------YSSEEI  150 (258)
Q Consensus        82 tI~NACgT~AlLh~L~N~~~~~i~~gs~L~~f~~~t-~~~~p~~Rg~~L~ns~~i~~aHns~A~----------~~~~ei  150 (258)
                      ||+|||||+||||+|+|++ ..|.+||.|++|++++ ..++|++||.+|+|++.++.+|+++++          ..++++
T Consensus        80 tI~NACgTiAlLh~l~N~~-~~i~~gs~L~~fl~~~~~~~~~~~r~~~l~~~~~~~~~h~~~~~~~~~g~s~~p~~~~~~  158 (229)
T d1cmxa_          80 SVKNACGLYAILHSLSNNQ-SLLEPGSDLDNFLKSQSDTSSSKNRFDDVTTDQFVLNVIKENVQTFSTGQSEAPEATADT  158 (229)
T ss_dssp             CSBTCHHHHHHHHHHHTCG-GGBCTTSHHHHHHHHHHHHTSCSSEECSHHHHHHHHHHHHTCHHHHHCSSSCCCCTTSCC
T ss_pred             hhcccHHHHHHHHHHhcCc-hhccccchHHHHHHHhcccCChhhhhhhhcCCHHHHHHHHHHHHHHhccCCCCCCcCCCc
Confidence            9999999999999999986 3599999999997665 556899999999999999999998875          234578


Q ss_pred             ceEEEEEEecChhhHH
Q psy6731         151 RFNLLAVVCDKKMKYE  166 (258)
Q Consensus       151 ~fh~~A~V~d~~~~~E  166 (258)
                      .|||||||+.+|++||
T Consensus       159 ~~HFIafV~~~G~lyE  174 (229)
T d1cmxa_         159 NLHYITYVEENGGIFE  174 (229)
T ss_dssp             SEEEEEEEECSSEEEE
T ss_pred             CeeEEEEEEECCEEEE
Confidence            8999999999999998