Citrus Sinensis ID: 012310

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460------
Protein Sequence
MEDQATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDHITFNLVLRLLGGKGGFGSLLRGAATKAGQKKTNNFDACRDMSGRRLRHVNAEKKLEEWKAEEEERRLEKIAEEFLKKAAKKGKKGVGDGEAEKYVKKYRDESAVCMAKVEEAVRRACADGKRKAVKSNEMEAKRMKIWMGKRKLGESDDEDSSEDDDDEENEKSIVLNNGHHSDTNKETEGSSGSVTGGKQDRVLSGGGSCESGSEEEKDILVQQSSESGAEDVSREENDMVEPEIHVGMVMQTTSTSCLDTALVSETKAAQAEKHDCCGEFASESVEEIIGQPPIPNVLNSENEESSEKRSVDAEPSGSSDSKSAINDGAIVANTTLAELERPLNFDEFNSAAEMEVLGLERLKSELQARGLKCGGTLQERAARLFLLKSTPVEKLPKKLLAKK
Secondary Structure (PSIPRED)
ccccccccccEEEEEEcccccEEEEEEccccccHHHHHHHHHHHcccccccEEEEccccccccccccccccEEEEEEEEccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHccccHHHHHHHHHHccccccccccccccccccccHHHHHHHccccccccccccccccccccccccccccccccccccccccHHHHHHHHHcccccccccccccccccccccHHccccccccccccccccHHHHHHHHHHHccccccccccccHHHcccccccccccccccHHccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHcHHHHHHHHHHccccccccHHHHHHHHHHccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHcccccHHHHHEEHcccccEEEEEcccccHHHHHHHHHHHHHcccHHHEEEEEccEEcccccEccccccccccEEEEEcccccHHHHHHHHHHcccccccccHHHHHHcccccHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHccEEEcccccccccccccccccccccccccccccccccccccccccccccccHcccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHccccHHHHHHHcHHHHHHHHHHccccccccHHHHHHHHHHHccccHHHccHHHHccc
Coil and Loop (DISEMBL)
MEDQATSPKALQLFVKLLngktttlnfttCHVYGHEIKNRIYEATKIPTHLQRLIYSglqlkdrtvisddhITFNLVLRLLggkggfgslLRGAatkagqkktnnfdacrDMSGRRLRHVNAEKKLEEWKAEEEERRLEKIAEEFLKKAAKKgkkgvgdgeAEKYVKKYRDESAVCMAKVEEAVRRACADGKRKAVKSNEMEAKRMKIWMgkrklgesddedsseddddeeneksivlnnghhsdtnketegssgsvtggkqdrvlsgggscesgseeEKDILVQQssesgaedvsreendmvepeiHVGMVMqttstscldtALVSETKAAQAekhdccgefaSESVEeiigqppipnvlnseneessekrsvdaepsgssdsksaindgaiVANTTLAelerplnfdefnsAAEMEVLGLERLKSELQARGLKCGGTLQERAARLFLlkstpveklpkkllakk
Flexible Loop (DISEMBL)
medqatspkALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDHITFNLVLRLLGGKGGFGSLLRGaatkagqkktnnfdacrdmsgrrlrhvnaekkleewkaeeeERRLEKIAEEFLKKaakkgkkgvgdgeaekyvKKYRDESAVCMAKVEEAVrracadgkrkavksnemeakrmkiwmgkrklgesddedsseddddeeNEKSIvlnnghhsdtnketegssgsvtggkqdRVLSGGGSCESGSEEEKDILVQqssesgaedvsreenDMVEPEIHVGMVMQTTSTSCLDTALVSETKAAQAEKHDCCGEFASESVEEIIGQPPIPNVLNSENEESSekrsvdaepsgssdsksaindGAIVANTTLAELERPLNFDEFNSAAEMEVLGLERLKSELQARGLKCGGTLQERAARlfllkstpveklpkkllakk
Low Complexity Region (SEG)
MEDQATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDHITFNlvlrllggkggfgsllrgAATKAGQKKTNNFDACRDMSGRRLRHVNAekkleewkaeeeerrlekiaeeflkkaakkgkkgvgdgeaekYVKKYRDESAVCMAKVEEAVRRACADGKRKAVKSNEMEAKRMKIWMGKRKLGesddedsseddddeeNEKSIVLNNGHHSDTNKetegssgsvtggKQDRVLsgggscesgseeeKDILVQQSSESGAEDVSREENDMVEPEIHVGMVMQTTSTSCLDTALVSETKAAQAEKHDCCGEFASESVEEIIGQPPIPNVLnseneesseKRSVDAEPSGSSDSKSAINDGAIVANTTLAELERPLNFDEFNSAAEMEVLGLERLKSELQARGLKCGGTLQERAARLFLLKSTPVEKLPKKLLAKK
Disordered region (IsUnstruct)
**********LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDHITFNLVLRLLGGKGGFGSLLRGAA*****************************************************************************SAVCMAKVEEAV***************************************************************************************************************************HVGMVMQTTSTSCLDTALV***********DCCGEF************************************************AIVANTTLAELERPLNFDEFNSAAEMEVLGLERLKSELQARGLKCGGTLQERAARLFLLK***************
Disordered Region (DISOPRED)
************LFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDHITFNLVLRLLGGKGGFGSLLRGAATKAG*****************LRHVNAE****************************************KYVKKYRDE***************************************************************************************************************************************************************************************************************************************RPLNFDEFNSAAEMEVLGLERLKSELQARGLKCGGTLQERAARLFLLKSTPVEKLPKKLLA**
Disordered Region (DISEMBL)
********KALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDHITFNLVLRLLGGKGGFGSLLRGAATKAGQKKTNNFDACRDMSGRRLRHVNAEKKLEEWKAEEEERRLEKIAEEFLKK*************AEKYVKKYRDESAVCMAKVEEAVR***************MEAKRMKIWMGKR********************KSIVLNNGHHS***************GKQD************************************NDMVEPEIHVGMVMQTTSTSCLDTALVSE********HDCCGEFASESVEEIIGQPPIPNVLN***********************SAINDGAIVANTTLAELERPLNFDEFNSAAEMEVLGLERLKSELQARGLKCGGTLQERAARLFLLKSTPVEKLPKKLLAKK
Disordered Region (DISPRO)
******SPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDHITFNLVLRLLGGKGGFGSLLRGAATKAGQKKTNNFDACRDMSGRRLRHVNAEKKLEEWKAEEEERRLEKIAEEFLKKAAKKGKKGVGDGEAEKYVKKYRDESAVCMAKVEEAVRRACADG********************************************************************************************************************************************************************************************************************RPLNFDEFNSAAEMEVLGLERLKSELQARGLKCGGTLQERAARLFLLKSTPVEKLPKKLL***
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEDQATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDHITFNLVLRLLGGKGGFGSLLRGAATKAGQKKTNNFDACRDMSGRRxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxKGKKGVGDGEAEKYVKKYRDESAVCMAKVEEAVRRACADGKRKAVKSNEMEAKRMKIWMGKRKLGESDDEDSSEDDDDEENEKSIVLNNGHHSDTNKETEGSSGSVTGGKQDRVLSGGGSCESGSEEEKDILVQQSSESGAEDVSREENDMVEPEIHVGMVMQTTSTSCLDTALVSETKAAQAEKHDCCGEFASESVEEIIGQPPIPNVLNSENEESSEKRSVDAEPSGSSDSKSAINDGAIVANTTLAELERPLNFDEFxxxxxxxxxxxxxxxxxxxxxGLKCGGTLQERAARLFLLKSTPVEKLPKKLLAKK
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	466	2.2.26 [Sep-21-2011]
Q7T293	467	Protein SDE2 homolog OS=D	yes	no	0.145	0.145	0.514	1e-11
Q8K1J5	448	Protein SDE2 homolog OS=M	yes	no	0.128	0.133	0.583	7e-11
O14113	263	Telomere maintenance prot	yes	no	0.246	0.437	0.370	2e-09
Q12874	501	Splicing factor 3A subuni	yes	no	0.128	0.119	0.55	2e-08
Q9D554	501	Splicing factor 3A subuni	no	no	0.128	0.119	0.55	2e-08
P62976	658	Polyubiquitin OS=Cricetul	no	no	0.225	0.159	0.354	5e-07
O46106	503	Splicing factor 3A subuni	no	no	0.126	0.117	0.540	6e-07
P22589	229	Polyubiquitin OS=Phytopht	N/A	no	0.214	0.436	0.352	7e-07
P0CG75	381	Polyubiquitin OS=Kluyvero	yes	no	0.214	0.262	0.352	8e-07
P0CG63	381	Polyubiquitin OS=Saccharo	yes	no	0.214	0.262	0.352	8e-07

>sp|Q7T293|SDE2_DANRE Protein SDE2 homolog OS=Danio rerio GN=sde2 PE=2 SV=2

 Score = 71.6 bits (174), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 35/68 (51%), Positives = 47/68 (69%)

Query: 398 TLAELERPLNFDEFNSAAEMEVLGLERLKSELQARGLKCGGTLQERAARLFLLKSTPVEK 457
            L+++E PL+    +   ++E LGLERLK EL  RG+KCGGTLQERAARLF +K    ++
Sbjct: 393 VLSQVEDPLDLLSVSGPEQLEALGLERLKKELMERGMKCGGTLQERAARLFSVKGLTPDQ 452

Query: 458 LPKKLLAK 465
           +   LLAK
Sbjct: 453 IDPSLLAK 460

Danio rerio (taxid: 7955)

>sp|Q8K1J5|SDE2_MOUSE Protein SDE2 homolog OS=Mus musculus GN=Sde2 PE=1 SV=1

 Score = 69.3 bits (168), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 35/60 (58%), Positives = 42/60 (70%)

Query: 406 LNFDEFNSAAEMEVLGLERLKSELQARGLKCGGTLQERAARLFLLKSTPVEKLPKKLLAK 465
           ++   F+SAAE+E LGLERLK EL   GLKCGGTLQERAARLF ++    E +   L AK
Sbjct: 382 VDLSAFSSAAELESLGLERLKCELMVLGLKCGGTLQERAARLFSVRGLTKELIDPALFAK 441

Mus musculus (taxid: 10090)

>sp|O14113|SDE2_SCHPO Telomere maintenance protein SDE2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=sde2 PE=3 SV=1

 Score = 64.7 bits (156), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 47/127 (37%), Positives = 65/127 (51%), Gaps = 12/127 (9%)

Query: 31  HVYGHEIKNRIYEATKIPTHLQRLIYSGLQL-KDRTVISDDHITFNLVLRLLGGKGGFGS 89
           HV G   +  +  A    TH  R+++  +QL K     +  H+   L  R+LGGKGGFGS
Sbjct: 33  HVLGDSYETVLERA--YLTHQSRIVHPDIQLCKLEGKSTSAHLNLTLCTRVLGGKGGFGS 90

Query: 90  LLRGAATKAGQKKT--NNFDACRDMSGRRLRHVNAEKKLEEWKAEEEERRLEKIAEEFLK 147
            LR A  +  +K+    N D+CRD+ G RL  +   K+L E+ A       +K AE   K
Sbjct: 91  QLRAAGGRMSKKRNEQENQDSCRDLDGNRLGTIRQAKELSEYLA-------KKPAETRAK 143

Query: 148 KAAKKGK 154
           K AKK K
Sbjct: 144 KEAKKQK 150

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

>sp|Q12874|SF3A3_HUMAN Splicing factor 3A subunit 3 OS=Homo sapiens GN=SF3A3 PE=1 SV=1

 Score = 61.2 bits (147), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 33/60 (55%), Positives = 39/60 (65%)

Query: 406 LNFDEFNSAAEMEVLGLERLKSELQARGLKCGGTLQERAARLFLLKSTPVEKLPKKLLAK 465
           L+   F+S  E+  LGL+RLKS L A GLKCGGTL+ERA RLF  K   +E L   L AK
Sbjct: 244 LDLSAFSSWEELASLGLDRLKSALLALGLKCGGTLEERAQRLFSTKGKSLESLDTSLFAK 303

Subunit of the splicing factor SF3A required for 'A' complex assembly formed by the stable binding of U2 snRNP to the branchpoint sequence (BPS) in pre-mRNA. Sequence independent binding of SF3A/SF3B complex upstream of the branch site is essential, it may anchor U2 snRNP to the pre-mRNA. May also be involved in the assembly of the 'E' complex.

Homo sapiens (taxid: 9606)

>sp|Q9D554|SF3A3_MOUSE Splicing factor 3A subunit 3 OS=Mus musculus GN=Sf3a3 PE=2 SV=2

 Score = 61.2 bits (147), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 33/60 (55%), Positives = 39/60 (65%)

Query: 406 LNFDEFNSAAEMEVLGLERLKSELQARGLKCGGTLQERAARLFLLKSTPVEKLPKKLLAK 465
           L+   F+S  E+  LGL+RLKS L A GLKCGGTL+ERA RLF  K   +E L   L AK
Sbjct: 244 LDLSAFSSWEELASLGLDRLKSALLALGLKCGGTLEERAQRLFSTKGKSLESLDTSLFAK 303

Subunit of the splicing factor SF3A required for 'A' complex assembly formed by the stable binding of U2 snRNP to the branchpoint sequence (BPS) in pre-mRNA. Sequence independent binding of SF3A/SF3B complex upstream of the branch site is essential, it may anchor U2 snRNP to the pre-mRNA. May also be involved in the assembly of the 'E' complex.

Mus musculus (taxid: 10090)

>sp|P62976|UBIQP_CRIGR Polyubiquitin OS=Cricetulus griseus PE=2 SV=2

 Score = 56.2 bits (134), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 39/110 (35%), Positives = 53/110 (48%), Gaps = 5/110 (4%)

Query: 10  ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
            +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD
Sbjct: 532 GMQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKQGIPPDQQRLIFAGKQLEDGRTLSD 590

Query: 70  DHI----TFNLVLRLLGGKGGFGSLLRGAATKAGQKKTNNFDACRDMSGR 115
            +I    T +LVLRL GG   F   L G       + +N     +   GR
Sbjct: 591 YNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSNTIKKSKQEDGR 640

Ubiquitin exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked: Lys-6-linked may be involved in DNA repair; Lys-11-linked is involved in ERAD (endoplasmic reticulum-associated degradation) and in cell-cycle regulation; Lys-29-linked is involved in lysosomal degradation; Lys-33-linked is involved in kinase modification; Lys-48-linked is involved in protein degradation via the proteasome; Lys-63-linked is involved in endocytosis, DNA-damage responses as well as in signaling processes leading to activation of the transcription factor NF-kappa-B. Linear polymer chains formed via attachment by the initiator Met lead to cell signaling. Ubiquitin is usually conjugated to Lys residues of target proteins, however, in rare cases, conjugation to Cys or Ser residues has been observed. When polyubiquitin is free (unanchored-polyubiquitin), it also has distinct roles, such as in activation of protein kinases, and in signaling.

Cricetulus griseus (taxid: 10029)

>sp|O46106|NOI_DROME Splicing factor 3A subunit 3 OS=Drosophila melanogaster GN=noi PE=1 SV=1

 Score = 56.2 bits (134), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 33/61 (54%), Positives = 39/61 (63%), Gaps = 2/61 (3%)

Query: 406 LNFDEFNSAAEMEVLGLERLKSELQARGLKCGGTLQERAARLFLLKSTPVEKLPKKLLAK 465
           L+   F+S  E+  LGL+RLKS L A GLKCGGTL+ERA RLF  K      L   L+AK
Sbjct: 244 LDLSAFSSWEELASLGLDRLKSALVALGLKCGGTLEERAQRLFSTKGKST--LDPALMAK 301

Query: 466 K 466
           K
Sbjct: 302 K 302

Probable subunit of a splicing factor complex required for 'A' complex assembly formed by the stable binding of U2 snRNP to the branchpoint sequence (BPS) in pre-mRNA (By similarity). Involved in male fertility.

Drosophila melanogaster (taxid: 7227)

>sp|P22589|UBIQP_PHYIN Polyubiquitin OS=Phytophthora infestans PE=1 SV=2

 Score = 55.8 bits (133), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 37/105 (35%), Positives = 55/105 (52%), Gaps = 5/105 (4%)

Query: 10  ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
            +Q+FVK L GKT TL+        + +K +I +   IP   QRLI++G QL+D   +SD
Sbjct: 76  GMQIFVKTLTGKTITLDVEPSDSIDN-VKQKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 134

Query: 70  DHI----TFNLVLRLLGGKGGFGSLLRGAATKAGQKKTNNFDACR 110
            +I    T +LVLRL GG   F   L G       + +++ D  +
Sbjct: 135 YNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLDVEPSDSIDNVK 179

Ubiquitin exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked: Lys-6-linked may be involved in DNA repair; Lys-11-linked is involved in ERAD (endoplasmic reticulum-associated degradation) and in cell-cycle regulation; Lys-29-linked is involved in lysosomal degradation; Lys-33-linked is involved in kinase modification; Lys-48-linked is involved in protein degradation via the proteasome; Lys-63-linked is involved in endocytosis, DNA-damage responses as well as in signaling processes leading to activation of the transcription factor NF-kappa-B. Linear polymer chains formed via attachment by the initiator Met lead to cell signaling. Ubiquitin is usually conjugated to Lys residues of target proteins, however, in rare cases, conjugation to Cys or Ser residues has been observed. When polyubiquitin is free (unanchored-polyubiquitin), it also has distinct roles, such as in activation of protein kinases, and in signaling.

Phytophthora infestans (taxid: 4787)

>sp|P0CG75|UBI4P_KLULA Polyubiquitin OS=Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) GN=ubi4 PE=1 SV=1

 Score = 55.5 bits (132), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 37/105 (35%), Positives = 55/105 (52%), Gaps = 5/105 (4%)

Query: 10  ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
            +Q+FVK L GKT TL   +     + +K++I +   IP   QRLI++G QL+D   +SD
Sbjct: 76  GMQIFVKTLTGKTITLEVESSDTIDN-VKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 134

Query: 70  DHI----TFNLVLRLLGGKGGFGSLLRGAATKAGQKKTNNFDACR 110
            +I    T +LVLRL GG   F   L G       + ++  D  +
Sbjct: 135 YNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVESSDTIDNVK 179

Ubiquitin exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked: Lys-6-linked may be involved in DNA repair; Lys-11-linked is involved in ERAD (endoplasmic reticulum-associated degradation) and in cell-cycle regulation; Lys-29-linked is involved in lysosomal degradation; Lys-33-linked is involved in kinase modification; Lys-48-linked is involved in protein degradation via the proteasome; Lys-63-linked is involved in endocytosis, and DNA-damage responses. Linear polymer chains formed via attachment by the initiator Met lead to cell signaling. Ubiquitin is usually conjugated to Lys residues of target proteins, however, in rare cases, conjugation to Cys or Ser residues has been observed. When polyubiquitin is free (unanchored-polyubiquitin), it also has distinct roles, such as in activation of protein kinases, and in signaling.

Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (taxid: 284590)

>sp|P0CG63|UBI4P_YEAST Polyubiquitin OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=UBI4 PE=1 SV=1

 Score = 55.5 bits (132), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 37/105 (35%), Positives = 55/105 (52%), Gaps = 5/105 (4%)

Query: 10  ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
            +Q+FVK L GKT TL   +     + +K++I +   IP   QRLI++G QL+D   +SD
Sbjct: 76  GMQIFVKTLTGKTITLEVESSDTIDN-VKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 134

Query: 70  DHI----TFNLVLRLLGGKGGFGSLLRGAATKAGQKKTNNFDACR 110
            +I    T +LVLRL GG   F   L G       + ++  D  +
Sbjct: 135 YNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVESSDTIDNVK 179

Ubiquitin exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked: Lys-6-linked may be involved in DNA repair; Lys-11-linked is involved in ERAD (endoplasmic reticulum-associated degradation) and in cell-cycle regulation; Lys-29-linked is involved in lysosomal degradation; Lys-33-linked is involved in kinase modification; Lys-48-linked is involved in protein degradation via the proteasome; Lys-63-linked is involved in endocytosis, and DNA-damage responses. Linear polymer chains formed via attachment by the initiator Met lead to cell signaling. Ubiquitin is usually conjugated to Lys residues of target proteins, however, in rare cases, conjugation to Cys or Ser residues has been observed. When polyubiquitin is free (unanchored-polyubiquitin), it also has distinct roles, such as in activation of protein kinases, and in signaling.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

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	466
255564723	441	conserved hypothetical protein [Ricinus	0.931	0.984	0.575	1e-113
225454520	441	PREDICTED: UPF0667 protein C1orf55 homol	0.881	0.931	0.569	1e-112
209967435	370	ubiquitin family protein [Vernicia fordi	0.774	0.975	0.593	6e-96
297810065	407	ubiquitin family protein [Arabidopsis ly	0.828	0.948	0.475	2e-93
15234038	415	ubiquitin family protein [Arabidopsis th	0.860	0.966	0.484	7e-92
357512561	466	hypothetical protein MTR_7g117320 [Medic	0.912	0.912	0.485	9e-89
356571240	453	PREDICTED: UPF0667 protein C1orf55 homol	0.948	0.975	0.504	2e-88
356506065	455	PREDICTED: UPF0667 protein C1orf55 homol	0.957	0.980	0.494	3e-86
449445660	467	PREDICTED: uncharacterized protein LOC10	0.948	0.946	0.563	3e-86
224064238	401	predicted protein [Populus trichocarpa]	0.811	0.942	0.512	2e-85

>gi|255564723|ref|XP_002523356.1| conserved hypothetical protein [Ricinus communis] gi|223537444|gb|EEF39072.1| conserved hypothetical protein [Ricinus communis]

 Score =  416 bits (1069), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 272/473 (57%), Positives = 337/473 (71%), Gaps = 39/473 (8%)

Query: 1   MEDQATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQ 60
           MED   + + LQ+FVKLL+GKT  L FT        IK RI+E TKIPTH QRLI +G Q
Sbjct: 1   MED---TNRLLQIFVKLLDGKTAILRFTGPQADAQLIKQRIFEITKIPTHTQRLICNGAQ 57

Query: 61  LKDRTVISDDHITFNLVLRLLGGKGGFGSLLRGAATKAGQKKTNNFDACRDMSGRRLRHV 120
           L++ +VIS    T +L+LRL+GGKGGFGSLLRGAATKAGQKKTNNFDACRDMSGRRLRHV
Sbjct: 58  LRENSVISTPECTVHLLLRLIGGKGGFGSLLRGAATKAGQKKTNNFDACRDMSGRRLRHV 117

Query: 121 NAEKKLEEWKAEEEERRLEKIAEEFLKKAAKKGKKGVGDGEAEKYVKKYRDESAVCMAKV 180
           NAEK+LEEWKAEEEERR+EKIAEEF+KK  KKGKKGVGDGEA+KYV KYR++SA C  +V
Sbjct: 118 NAEKRLEEWKAEEEERRMEKIAEEFIKKNVKKGKKGVGDGEADKYVAKYREDSAKCAKEV 177

Query: 181 EEAVRRACADG----KRKAVKSNEMEAKRMKIWMGKRKLGESDDEDSSEDDDDEENEKSI 236
           EEAVR ACA+G    K K VK+  ++AKR+KIWMGKR LG+SD ED+S+   DEENEKS 
Sbjct: 178 EEAVREACANGNGKRKGKVVKAVGLDAKRLKIWMGKRTLGDSDSEDNSD---DEENEKSA 234

Query: 237 VLNNGHHSDTNKETEGSSGSVTGGKQDRVLSGGGSCESGSEEEKDILVQQSS---ESGAE 293
           VLN G++SD +KE +GSS SVTGGKQ+   SGG SCESGSEEEKD    + +    S  E
Sbjct: 235 VLNIGNNSDISKEADGSSDSVTGGKQEGDCSGGASCESGSEEEKDAATAEQTLQFSSNGE 294

Query: 294 DVSREENDMVEPEIHVGMVMQTTSTSCLDTALVSETKAAQAEKHDCCGEFASESVEEIIG 353
            V  E +  VE E+      Q  + +C + A+V+     +AEK++  G   S+SV+  + 
Sbjct: 295 TVPSEGDGGVELEVK---EQQNAAITCSEAAVVTGIDVIKAEKNENDG-LDSQSVQ--VS 348

Query: 354 QPPIPNVLNSENEESSEKRSVDAEPSGSSDSKSAINDGAIVANTTLAELERPLNFDEFNS 413
            P    V+       ++  +VD+E               +V N    +LE+PLNFD++N+
Sbjct: 349 SPARVEVI------ETKPITVDSE--------------TVVVNEKATDLEKPLNFDDYNA 388

Query: 414 AAEMEVLGLERLKSELQARGLKCGGTLQERAARLFLLKSTPVEKLPKKLLAKK 466
             E+E LG+ERLK+ELQARGLKCGGTLQERAARLFLLK+TP++KLP+KL AKK
Sbjct: 389 VDELEALGIERLKTELQARGLKCGGTLQERAARLFLLKTTPLDKLPRKLFAKK 441

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225454520|ref|XP_002281690.1| PREDICTED: UPF0667 protein C1orf55 homolog [Vitis vinifera]

 Score =  411 bits (1056), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 258/453 (56%), Positives = 314/453 (69%), Gaps = 42/453 (9%)

Query: 12  QLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD- 70
            LF KLL+GKT T+  T+  + G  IK  ++  T IP HLQRL+    Q+ D T+IS D 
Sbjct: 5   HLFAKLLDGKTLTIRLTSPTISGDVIKGHLHRITSIPVHLQRLVSQSRQISDETLISADK 64

Query: 71  ----HITFNLVLRLLGGKGGFGSLLRGAATKAGQKKTNNFDACRDMSGRRLRHVNAEKKL 126
                 T +L+L L GGKGGFGSLLRGAATKAGQKKTNNFDACRDMSGRRLRHVNAEKKL
Sbjct: 65  GSGIFPTVHLLLPLPGGKGGFGSLLRGAATKAGQKKTNNFDACRDMSGRRLRHVNAEKKL 124

Query: 127 EEWKAEEEERRLEKIAEEFLKKAAKKGKKGVGDG---EAEKYVKKYRDESAVCMAKVEEA 183
           EEW+AE  ER LE++AE+++KKAAKKGK G G      AEKYV+KYR+ESA C+A+VE +
Sbjct: 125 EEWRAEAAERELERMAEDYIKKAAKKGKSGNGSAAAVAAEKYVEKYREESAKCVAEVEAS 184

Query: 184 VRRACAD-GKRKA--VKSNEMEAKRMKIWMGKRKLGESDDEDSSEDDDDEENEKSIVLNN 240
           VR A    GKRK   V ++  +AKR+KIWMGK+KL ESD      D+DD ENE+SIVL+N
Sbjct: 185 VREAMGGFGKRKGGEVATSASDAKRLKIWMGKKKLEESDS-----DEDDAENERSIVLDN 239

Query: 241 GHHSDTNKETEGSSGSVTGGKQDRVLSGGGSCESGSEEEKDILVQQSSESGAEDVSREEN 300
           G  SD+NKET+GS  SV+GGK +   S GGSCESGSEEEK+   Q               
Sbjct: 240 GSDSDSNKETDGSFDSVSGGKLNGDCS-GGSCESGSEEEKEAFGQ--------------- 283

Query: 301 DMVEPEIHVGMVMQTTSTSCLDTALVSETKAAQAEKHDCCGEFASESVEEIIGQPPIPNV 360
             V+PE+    V+Q TS SCLD A+ SE  A + EK D   E  S +V E+IG P   + 
Sbjct: 284 --VKPEVQEEKVVQATSVSCLD-AVGSE--AVEPEKGD-SDEPKSGNV-EVIGLPQSNS- 335

Query: 361 LNSENEESSEKRSVDAEPSGSSDSKSAINDG-AIVANTTLAELERPLNFDEFNSAAEMEV 419
             SEN    EK ++D+E +G S+SK  +++G   VANT   +  +PLNFD+F+SAAEMEV
Sbjct: 336 -GSENGSDIEKVAIDSEDNGVSESKPGVHEGEESVANTDTLDAGKPLNFDDFSSAAEMEV 394

Query: 420 LGLERLKSELQARGLKCGGTLQERAARLFLLKS 452
           LGLERLKSELQ RGLKCGGTLQERAARLFLLK+
Sbjct: 395 LGLERLKSELQERGLKCGGTLQERAARLFLLKT 427

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|209967435|gb|ACJ02346.1| ubiquitin family protein [Vernicia fordii]

 Score =  357 bits (917), Expect = 6e-96,   Method: Compositional matrix adjust.
 Identities = 229/386 (59%), Positives = 280/386 (72%), Gaps = 25/386 (6%)

Query: 90  LLRGAATKAGQKKTNNFDACRDMSGRRLRHVNAEKKLEEWKAEEEERRLEKIAEEFLKKA 149
           LLRGAATKAGQKKTNNFDACRDMSGRRLRHVNAEK+LEEWKAEEE RRLEKIAEE++KK 
Sbjct: 1   LLRGAATKAGQKKTNNFDACRDMSGRRLRHVNAEKRLEEWKAEEENRRLEKIAEEYIKKK 60

Query: 150 AKKGKKGVGDGEAEKYVKKYRDESAVCMAKVEEAVRRAC--ADGKRKA-VKSNEMEAKRM 206
           AKKGKKGVGDGEAEKYV+KYR ESA C A+VEEAVR AC   +GKRK  V    ++AKR+
Sbjct: 61  AKKGKKGVGDGEAEKYVEKYRKESAKCTAEVEEAVREACGNGNGKRKGKVPKEGLDAKRV 120

Query: 207 KIWMGKRKLG-ESDDEDSSEDDDDEENEKSIVLNNGHHSDTNKETEGSSGSVTGGKQDRV 265
           KIWMGKRKLG    ++   +  DDEENEKS+VLN+G+HSD NKE EGSS SVTGGKQD  
Sbjct: 121 KIWMGKRKLGESDSEDMDEDSSDDEENEKSVVLNSGNHSDLNKEAEGSSDSVTGGKQDGE 180

Query: 266 LSGGGSCESGSEEEKDILVQQSSESGA--EDVSREENDMVEPEIHVGMVMQTTSTSCLDT 323
            SGG SCE GSE EKD   +Q+ +S    E +  EE+ +VE +IH   + +    +  +T
Sbjct: 181 CSGGASCECGSEGEKDAAAEQNLKSSPHEEILPTEEDGVVETKIHEEALPEGAGVTHAET 240

Query: 324 ALVSETKAAQAEKHDCCGEFASESVEEIIGQPPIPNVLNSENEESSEKRSVDAEP---SG 380
           A +SET   +AEK            +E++G    P  ++S     +    +++EP     
Sbjct: 241 AEISETDTVKAEK------------QEVVGPDSQPVHVSS----PASGEGIESEPVIAKA 284

Query: 381 SSDSKSAINDGAIVANTTLAELERPLNFDEFNSAAEMEVLGLERLKSELQARGLKCGGTL 440
            +D KS I+  A++AN    +L + L+FD+F+SAAEMEV G+ERLK+ELQARGLK GGTL
Sbjct: 285 VTDFKSEIDGEAVLANIKDTDLVKLLSFDDFSSAAEMEVFGMERLKNELQARGLKSGGTL 344

Query: 441 QERAARLFLLKSTPVEKLPKKLLAKK 466
           QERAARLFLLK+TP++KLPKKL AKK
Sbjct: 345 QERAARLFLLKTTPLDKLPKKLFAKK 370

Source: Vernicia fordii

Species: Vernicia fordii

Genus: Vernicia

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297810065|ref|XP_002872916.1| ubiquitin family protein [Arabidopsis lyrata subsp. lyrata] gi|297318753|gb|EFH49175.1| ubiquitin family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  349 bits (895), Expect = 2e-93,   Method: Compositional matrix adjust.
 Identities = 219/461 (47%), Positives = 280/461 (60%), Gaps = 75/461 (16%)

Query: 1   MEDQATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQ 60
           M DQ++ P  LQ FV+LL+GK+ TL+F++   YG +IK RI+E TKIPTHLQRLI  G Q
Sbjct: 1   MADQSSKP--LQFFVRLLDGKSLTLSFSSPLAYGEQIKQRIFEQTKIPTHLQRLISGGYQ 58

Query: 61  LKDRTVISDDHITFNLVLRLLGGKGGFGSLLRGAATKAGQKKTNNFDACRDMSGRRLRHV 120
           + D + IS    T NLVL L GGKGGFGSLLRGA TKAGQKKTNNFDACRDMSGRRLRHV
Sbjct: 59  ISDGSAISQPDTTVNLVLSLRGGKGGFGSLLRGAGTKAGQKKTNNFDACRDMSGRRLRHV 118

Query: 121 NAEKKLEEWKAEEEERRLEKIAEEFLKKAAKKGKKGVGDGEAEKYVKKYRDESAVCMAKV 180
           NAE +L+EWK  EEER+LEK A EFLKK A K K+GVG+G  +KYV KY++ES  C+  V
Sbjct: 119 NAENRLQEWKEGEEERKLEKSALEFLKKQANKVKQGVGNGATQKYVNKYKEESDKCILAV 178

Query: 181 EEAVRRACADGKRKA-VKSNEMEAKRMKIWMGKRKLGESDDEDSSEDDDDEENEKSIVLN 239
           + A+  +  +GKRK  + ++  + KR+KIW GKR + +SD +DSS+    EE+EKS+V+N
Sbjct: 179 DLALNESFKNGKRKGKIGADSEKKKRLKIWKGKRAVEDSDSDDSSD----EEDEKSVVIN 234

Query: 240 NGHHSDTNKETEGSSGSVTGGKQDRVLSGGGSCESGSEEEKDILVQQSSE----SGAEDV 295
           NG H       +G S            SG   C SGSEEE D +V         +G + +
Sbjct: 235 NGGH-------DGDS------------SGKSLCNSGSEEENDFVVHHRRLDVVITGVQGI 275

Query: 296 SREENDMVEPEIHVGMVMQTTSTSCLDTALVSETKAAQAEKHDCCGEFASESVEEIIGQP 355
           + E+ D +   + V   M                   Q EK +     A +++ ++  + 
Sbjct: 276 NEEKMDDLPVAVAVADAMD------------------QPEKVEKSSGDAGKNLVDVACET 317

Query: 356 PIPNVLNSENEESSEKRSVDA---EPSGSSDSKSAINDGAIVANTTLAELERPLNFDEFN 412
            I +        + E  SVDA   +P G                        PLNFD+FN
Sbjct: 318 LITSAAVKRGGTAKETVSVDAVCCKPVG------------------------PLNFDDFN 353

Query: 413 SAAEMEVLGLERLKSELQARGLKCGGTLQERAARLFLLKST 453
           SA +MEVLG+ERLK+ELQ+RGLKCGGTLQERAARLFLLKST
Sbjct: 354 SATDMEVLGMERLKTELQSRGLKCGGTLQERAARLFLLKST 394

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15234038|ref|NP_192009.1| ubiquitin family protein [Arabidopsis thaliana] gi|5262154|emb|CAB45783.1| putative protein [Arabidopsis thaliana] gi|7267597|emb|CAB80909.1| putative protein [Arabidopsis thaliana] gi|16209707|gb|AAL14410.1| AT4g01000/F3I3_20 [Arabidopsis thaliana] gi|53749168|gb|AAU90069.1| At4g01000 [Arabidopsis thaliana] gi|332656565|gb|AEE81965.1| ubiquitin family protein [Arabidopsis thaliana]

 Score =  343 bits (881), Expect = 7e-92,   Method: Compositional matrix adjust.
 Identities = 220/454 (48%), Positives = 279/454 (61%), Gaps = 53/454 (11%)

Query: 1   MEDQATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQ 60
           M DQ++ P  LQ FV+LL+GK+ TL+F++   YG +IK RI+E TKIPTHLQRLI  G Q
Sbjct: 1   MADQSSKP--LQFFVRLLDGKSLTLSFSSPLAYGEQIKQRIFEQTKIPTHLQRLISGGYQ 58

Query: 61  LKDRTVISDDHITFNLVLRLLGGKGGFGSLLRGAATKAGQKKTNNFDACRDMSGRRLRHV 120
           + D + IS    T NLVL L GGKGGFGSLLRG   KAGQKKTNNFDACRDMSGRRLRHV
Sbjct: 59  ISDGSAISQPDATVNLVLSLRGGKGGFGSLLRGGGMKAGQKKTNNFDACRDMSGRRLRHV 118

Query: 121 NAEKKLEEWKAEEEERRLEKIAEEFLKKAAKKGKKGVGDGEAEKYVKKYRDESAVCMAKV 180
           NAE +L+EWK  EE R LEK A E+LKK + K K+GVG+G  +KYV KY++ES  C+  V
Sbjct: 119 NAENRLQEWKDGEEGRNLEKKALEYLKKQSNKVKQGVGNGATQKYVNKYKEESDKCILAV 178

Query: 181 EEAVRRACADGKRKAVKSNEME-AKRMKIWMGKRKLGESDDEDSSEDDDDEENEKSIVLN 239
           + A+  +  +GKRKA    E E  KR+KIW GKR + +SD +DS +    EE+EKS+VLN
Sbjct: 179 DLALNESFKNGKRKAKIGAESEKKKRLKIWKGKRAVEDSDSDDSDD----EEDEKSVVLN 234

Query: 240 NGHHSDTNKETEGSSGSVTGGKQDRVLSGGGSCESGSEEEKDILVQQSSESGAEDVSREE 299
           NG H       +G S            SG  SC SGSEEE D ++ +S      DV +EE
Sbjct: 235 NGGH-------DGDS------------SGKSSCNSGSEEENDAVMHRSF-----DVVKEE 270

Query: 300 NDMVEPEIHVGMVMQTTSTSCLDTALVSETKAAQAEKHDCCGEFASESVEEIIGQPPIPN 359
              V+  I   M     S +  D   V++ +  Q EK +     A +++ ++  +  I +
Sbjct: 271 ITGVQGIIEEEMNDLPVSVAVDDANTVAD-EMDQLEKVEKSSGDAGKNLVDVACETLITS 329

Query: 360 VLNSENEESSEKRSVDAEPSGSSDSKSAINDGAIVANTTLAELERPLNFDEFNSAAEMEV 419
                   + E  SVDA                        +   PLNFD+FNS A+MEV
Sbjct: 330 AAVKREGTAKETVSVDA---------------------VCCKPVEPLNFDDFNSPADMEV 368

Query: 420 LGLERLKSELQARGLKCGGTLQERAARLFLLKST 453
           LG+ERLK+ELQ+RGLKCGGTL+ERAARLFLLKST
Sbjct: 369 LGMERLKTELQSRGLKCGGTLRERAARLFLLKST 402

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357512561|ref|XP_003626569.1| hypothetical protein MTR_7g117320 [Medicago truncatula] gi|355501584|gb|AES82787.1| hypothetical protein MTR_7g117320 [Medicago truncatula]

 Score =  333 bits (855), Expect = 9e-89,   Method: Compositional matrix adjust.
 Identities = 232/478 (48%), Positives = 291/478 (60%), Gaps = 53/478 (11%)

Query: 3   DQATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLK 62
           +Q  S +   LFVK LNGKT TL F +  +    IK+R++  T IP   QRL+     L 
Sbjct: 2   EQEKSHRMFNLFVKHLNGKTLTLLFPSPILSATSIKDRLFHLTGIPIQHQRLVTGFRHLN 61

Query: 63  D---RTVISDD----HITFNLVLRLLGGKGGFGSLLRGAATKAGQKKTNNFDACRDMSGR 115
           D       S +      +  L+LRL GGKGGFGSLLRGAATKAGQKKTNNFDACRDMSGR
Sbjct: 62  DDNSEICCSPEGGNMFPSVRLLLRLKGGKGGFGSLLRGAATKAGQKKTNNFDACRDMSGR 121

Query: 116 RLRHVNAEKKLEEWKAEEEERRLEKIAEEFLKK---AAKKGKKGVGDGEAEKYVKKYRDE 172
           RLRHVNAEK+LEEW+  EE+R+LEK AEEFLKK      KGK   GD EA+KYV KYR++
Sbjct: 122 RLRHVNAEKRLEEWREGEEDRKLEKTAEEFLKKQMKKNNKGKGKNGDVEAQKYVAKYREQ 181

Query: 173 SAVCMAKVEEAVRRACADGKRKAVKSNE----MEAKRMKIWMGKRKLGESDDEDSSEDDD 228
           S  C+A+V E+V  +    KRK+   +E     + K++KIWMGKR L ESDD+   +  D
Sbjct: 182 SERCVAEVAESVLDSIRYAKRKSSPISEGSPSRDQKKLKIWMGKRALNESDDDSDGDVTD 241

Query: 229 DE-ENEKSIVLNNGHHSDTNKETEGSSGSVTGGKQDRVLSGGGSCESGSEEEKDILVQ-- 285
           DE E EKS++LN+ + S  NK  EGSS SV G K+D   SG GSCESGSEEEK+ +V+  
Sbjct: 242 DEGETEKSVLLNSQNESGLNK-AEGSSDSVAGFKRDGDSSGVGSCESGSEEEKETVVEGK 300

Query: 286 -------QSSESGAEDVSREENDMVEPEIHVGMVMQTTSTSC---LDTALVSETKAAQAE 335
                  QS+ES     S     MV  E+     M+  +  C   LD+ +  +    Q  
Sbjct: 301 VEIVERSQSTESIEAKPSIAAETMVNDEM-----MEANAVPCSETLDSLISVQDNDYQDS 355

Query: 336 KHDCCGEFASESVEEIIGQPPIPNVLNSENEESSEKRSVDAEPSGSSDSKSAINDGAIVA 395
           +    G               + NV+      SSE  S D E  GS + K+ + + ++ +
Sbjct: 356 QVGGTG-------------AQVSNVV------SSEIVSNDMEIDGSLEHKTVVIEESLPS 396

Query: 396 NTTLAELERPLNFDEFNSAAEMEVLGLERLKSELQARGLKCGGTLQERAARLFLLKST 453
           N+  A+ E PLNFD FNSAAE+EVLGLE LK+ELQ+RGLK GGTLQERAARLFLLKST
Sbjct: 397 NSVPAKKE-PLNFDAFNSAAELEVLGLENLKTELQSRGLKFGGTLQERAARLFLLKST 453

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356571240|ref|XP_003553787.1| PREDICTED: UPF0667 protein C1orf55 homolog [Glycine max]

 Score =  332 bits (852), Expect = 2e-88,   Method: Compositional matrix adjust.
 Identities = 239/474 (50%), Positives = 302/474 (63%), Gaps = 32/474 (6%)

Query: 3   DQATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLK 62
           +Q  S K   LFVK L+GKT TL F +  +Y   IK+R+++ T IP H QRL+     L 
Sbjct: 2   EQKRSSKMYNLFVKHLDGKTLTLLFPSPILYASSIKDRLFQLTGIPAHHQRLVTGCRHLN 61

Query: 63  D-RTVIS------DDHITFNLVLRLLGGKGGFGSLLRGAATKAGQKKTNNFDACRDMSGR 115
           D ++ I       +   +  L+LRL GGKGGFGSLLRGAATKAGQKKTNNFDACRDMSGR
Sbjct: 62  DDKSAIQCSPGDGNMFPSVRLLLRLKGGKGGFGSLLRGAATKAGQKKTNNFDACRDMSGR 121

Query: 116 RLRHVNAEKKLEEWKAEEEERRLEKIAEEFL---KKAAKKGKKGVGDGEAEKYVKKYRDE 172
           RLRHVNAEK+LEEWKA EEER+LEK+AEEFL    K  K   KG GDGEA KYV KYR+E
Sbjct: 122 RLRHVNAEKRLEEWKAGEEERKLEKVAEEFLKKQMKKGKGKGKGEGDGEAHKYVAKYREE 181

Query: 173 SAVCMAKVEEAVRRACADGKRKAVKSNEMEAKRMKIWMGKRKLGESDDEDSSEDDDDEEN 232
           S  C+A+V  +V+ A    KRK+      +AK++KIWMGKRKL ESD + S + D++ E 
Sbjct: 182 SERCVAEVALSVKEALT-AKRKSPSQPHHDAKKLKIWMGKRKLNESDSDYSDDSDEEGEM 240

Query: 233 EKSIVLNNGHHSDTNKETEGSSGSVTGGKQDRVLSGGGSCESGSEEEKDILVQQSSESGA 292
           EKS +LN  +   +NK    + GS+         SG GSCESGSEEEK+  V  +  S  
Sbjct: 241 EKSELLNGPNELGSNK----AEGSLGSVNGGGGSSGAGSCESGSEEEKETAVDGNVVSVG 296

Query: 293 EDVSREENDMVEPEIHVGMVMQTTSTSCLDTALVSETKAAQAEKHDCCGEFASESVEEII 352
                    M+  EI    +  T     ++ A      +  AE +  C    S+  +  +
Sbjct: 297 ---------MLSGEI----IHATAEPVIINEATEMPKGSVVAEDNQDCHGGVSDKFDGTV 343

Query: 353 GQPPIPNVLNSENEESSEKRSVDAEPSGSSDSKSAINDGAIVANTTLAELERPLNFDEFN 412
            Q    NV+ SE   S+ + S D E  GS + K+ +N+G+   +T++  LE PLNFD FN
Sbjct: 344 NQ--ALNVMGSETVASAGE-SNDMEIDGSLEHKATVNEGS-SPSTSVPVLEEPLNFDAFN 399

Query: 413 SAAEMEVLGLERLKSELQARGLKCGGTLQERAARLFLLKSTPVEKLPKKLLAKK 466
           SAAE+EVLGLERLKSELQ+RGLKCGGTL ERAARLFLLKSTP+++LPKKL+AKK
Sbjct: 400 SAAELEVLGLERLKSELQSRGLKCGGTLMERAARLFLLKSTPLDELPKKLIAKK 453

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356506065|ref|XP_003521808.1| PREDICTED: UPF0667 protein C1orf55 homolog [Glycine max]

 Score =  325 bits (834), Expect = 3e-86,   Method: Compositional matrix adjust.
 Identities = 235/475 (49%), Positives = 304/475 (64%), Gaps = 29/475 (6%)

Query: 1   MEDQATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQ 60
           ME + +S K   LFVK L+GKT TL F +  +Y   I++R+++ T IP H QRL+     
Sbjct: 1   MEQKRSSSKMYNLFVKHLDGKTLTLLFPSPILYASSIRDRLFQLTGIPAHHQRLVTGCRH 60

Query: 61  LKDR----TVISDDHITF---NLVLRLLGGKGGFGSLLRGAATKAGQKKTNNFDACRDMS 113
           L D       + +D   F    L+LRL GGKGGFGSLLRGAATKAGQKKTNNFDACRDMS
Sbjct: 61  LNDDKSAIQCLPEDGNMFPSVRLLLRLKGGKGGFGSLLRGAATKAGQKKTNNFDACRDMS 120

Query: 114 GRRLRHVNAEKKLEEWKAEEEERRLEKIAEEFL-KKAAKKGKKGVGDGEAEKYVKKYRDE 172
           GRRLRHVNAEK+LEEWKA E+ER+LEK+AEEFL K+  K   KG G+G A+KYV KYR+E
Sbjct: 121 GRRLRHVNAEKRLEEWKAGEQERKLEKVAEEFLKKQMKKGKGKGEGEGGAQKYVAKYREE 180

Query: 173 SAVCMAKVEEAVRRACADGKRKAVKSNEMEAKRMKIWMGKRKLGESDDEDSSEDDDDEEN 232
           S  C+A+V  +V+ A    KRK+      +AK++KIWMGKRKL   ++ DS + D++ E 
Sbjct: 181 SERCVAEVALSVKEALT-AKRKSPSQPHHDAKKLKIWMGKRKL---NESDSDDSDEEVEI 236

Query: 233 EKSIVLNNGHHSDTNKETEGSSGSVTGGKQDRVLSGGGSCESGSEEEKDILVQQSSESGA 292
           EKS +LN  + S +NK    + GS+         SG GSCESGSEEEK+  V+ +  S A
Sbjct: 237 EKSDLLNGPNESGSNK----AEGSLGSVNGGGGSSGAGSCESGSEEEKEAAVEGNVGSVA 292

Query: 293 EDVSREENDMVEPEIHVGMVMQTTSTSCLDTALVSETKAAQAEKHDC-CGEFASESVEEI 351
                      EP      V+   +T     ++V+   A      DC  G    +  +  
Sbjct: 293 MLGGESIQAAAEP------VINDEATEMPKESVVAGINAEDNGYQDCYVG--VPDKFDGA 344

Query: 352 IGQPPIPNVLNSENEESSEKRSVDAEPSGSSDSKSAINDGAIVANTTLAELERPLNFDEF 411
           + Q     V+ SE   S+ + +   E  GS + K+A+N+ +   +T++  LE PLNFD F
Sbjct: 345 VNQ--ASTVMGSETVASAGESNY-MEIDGSLEHKAAVNEES-SPSTSVPVLEEPLNFDAF 400

Query: 412 NSAAEMEVLGLERLKSELQARGLKCGGTLQERAARLFLLKSTPVEKLPKKLLAKK 466
           NSAAE+EVLGLERLKSELQ+RGLKCGGTL+ERAARLFLLKSTP+++LPKKLLAKK
Sbjct: 401 NSAAELEVLGLERLKSELQSRGLKCGGTLKERAARLFLLKSTPLDELPKKLLAKK 455

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449445660|ref|XP_004140590.1| PREDICTED: uncharacterized protein LOC101210101 [Cucumis sativus] gi|449487323|ref|XP_004157570.1| PREDICTED: uncharacterized LOC101210101 [Cucumis sativus]

 Score =  325 bits (833), Expect = 3e-86,   Method: Compositional matrix adjust.
 Identities = 266/472 (56%), Positives = 329/472 (69%), Gaps = 30/472 (6%)

Query: 11  LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVIS-- 68
             LFV+LL+GKT  L  T+ +V GH +K+R+++ T IP + QRL+    Q+++ +V+S  
Sbjct: 10  FNLFVRLLDGKTLALKLTSPYVDGHALKHRLFQTTGIPPNHQRLVTGSRQIENDSVLSCS 69

Query: 69  -DDHITFNLV---LRLLGGKGGFGSLLRGAATKAGQKKTNNFDACRDMSGRRLRHVNAEK 124
            D    F  V   LRLLGGKGGFGSLLRGAATKAGQKKTNNFDACRDMSGRRLRHVNAEK
Sbjct: 70  GDPSGRFPTVHLLLRLLGGKGGFGSLLRGAATKAGQKKTNNFDACRDMSGRRLRHVNAEK 129

Query: 125 KLEEWKAEEEERRLEKIAEEFLKKAAKKGKKGVGDGEAEKYVKKYRDESAVCMAKVEEAV 184
           +LEEWKAEEEERRLEK+AEEFLKK AK GKKGVGD  A+KYV+KYR+ESA C+A+VEE+V
Sbjct: 130 RLEEWKAEEEERRLEKVAEEFLKKKAKVGKKGVGDSAAQKYVEKYREESARCVAEVEESV 189

Query: 185 RRACADGKRKA-VKSNEMEAKRMKIWMGKRKLG--ESDDEDSSEDDDDEENEKSIVLNNG 241
           R A   GKRKA + +N  +AK++KIWMGKRK+G  +SDD D  + +++EE+EKS++LN G
Sbjct: 190 RDAVMKGKRKAGLMANGADAKKLKIWMGKRKMGESDSDDSDEDDAENEEESEKSVILNVG 249

Query: 242 HHSDTNKETEGSSGSVTGGKQDRVLSGGGSCESGSEEEKDILVQQSSE----SGAEDVSR 297
             SD NK+ EGSS SV  GK     SGG SCESGSEEEKD+  Q++ E    S  + +  
Sbjct: 250 -RSDLNKDAEGSSDSVNYGKAGDG-SGGSSCESGSEEEKDMAAQETMELVGSSSEKTLQS 307

Query: 298 EENDMVEPEIHVGMVMQTTSTSCLDTALVSETKAAQAEKHDCCGEFASESVEEIIGQPPI 357
           E  D VE      M  QTT ++ L      E  A  A + D   +  +  VE +  +   
Sbjct: 308 ERVDAVE------MNDQTTQSAVLS---CPEAVAISAHQEDEVVKQDALEVEIVNSENVS 358

Query: 358 PNVLNSENEESS---EKRSVDAEPSGSSDSKSAINDGAIVANTTLAELERPLNFDEFNSA 414
            N  ++ N  S    E  S   EP+GS  SK + +D       T++  E PLNFD+F+SA
Sbjct: 359 ANHQDTSNPNSGEIIEDLSTRPEPNGSPVSKLSDHDE---TTATVSNPEIPLNFDDFSSA 415

Query: 415 AEMEVLGLERLKSELQARGLKCGGTLQERAARLFLLKSTPVEKLPKKLLAKK 466
            EMEVLGLERLKSELQARGLKCGGTLQERAARLFLLKSTP++KLPKKLLA+K
Sbjct: 416 TEMEVLGLERLKSELQARGLKCGGTLQERAARLFLLKSTPLDKLPKKLLARK 467

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224064238|ref|XP_002301408.1| predicted protein [Populus trichocarpa] gi|222843134|gb|EEE80681.1| predicted protein [Populus trichocarpa]

 Score =  322 bits (825), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 231/451 (51%), Positives = 280/451 (62%), Gaps = 73/451 (16%)

Query: 11  LQLFVKLLNGKTTTLNF-TTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
            Q+F K L+GKT  LNF T        IK +I++ T+IP H QRL+  G QL D  +I+ 
Sbjct: 3   FQIFAKFLDGKTKVLNFKTPSSCTAQAIKQQIFQVTQIPIHYQRLVCRGFQLNDDAIITT 62

Query: 70  DHITFNLVLRLLGGKGGFGSLLRGAATKAGQKKTNNFDACRDMSGRRLRHVNAEKKLEEW 129
              T  L+LRLLGGKGGFGSLLRGAATKAGQKKTNNFDACRDMSGRRLRHVNAEK+LEEW
Sbjct: 63  PESTVYLLLRLLGGKGGFGSLLRGAATKAGQKKTNNFDACRDMSGRRLRHVNAEKRLEEW 122

Query: 130 KAEEEERRLEKIAEEFLKKAAKKGKKGVGDGEAEKYVKKYRDESAVCMAKVEEAVRRACA 189
           +AEEE+RR+EK+AEEF+KK AKKGKKGVGDGEAEKYV KYR++SA C A VEEAVR    
Sbjct: 123 RAEEEDRRMEKMAEEFIKKKAKKGKKGVGDGEAEKYVAKYREDSAKCAAVVEEAVREVLG 182

Query: 190 DG----KRKAVKSNEM---EAKRMKIWMGKRKLGESDDEDSSEDDDDEENEKSIVLNNGH 242
           +G    KRK      +   EAK++KIWMGKRK+ ESD E   ED  DEENEKS+VLNNG+
Sbjct: 183 NGNGFRKRKGKGKGVVEGAEAKKLKIWMGKRKVDESDSEGMDEDSSDEENEKSVVLNNGN 242

Query: 243 HSDTNKETEGSSGSVTGGKQDRVLSGGGSCESGSEEEKDILVQQSSESGAEDVSREENDM 302
                                   SGG SC S  E+E        S    E    +E+++
Sbjct: 243 GE---------------------CSGGASCSSEEEKEASSERSLKSNPCGEVALNKEDEL 281

Query: 303 VEPEIHVGMVMQTTSTSCLDTALVSETKAAQAEKHDCCGEFASESVEEIIGQPPIPNVLN 362
           VE +I    V Q  + +CL T  +SET+A +AE+ +  G                P+   
Sbjct: 282 VEAQILEETVAQNANVACLKTEEISETEALEAERKENVG----------------PD--- 322

Query: 363 SENEESSEKRSVDAEPSGSSDSKSAINDGAIVANTTLAELERPLNFDEFNSAAEMEVLGL 422
                             S    ++IN+G         ++E+PL FDEFNSA+E+EVLG+
Sbjct: 323 ------------------SQCPDASINEGN-------GDMEKPLIFDEFNSASELEVLGM 357

Query: 423 ERLKSELQARGLKCGGTLQERAARLFLLKST 453
           ERLK+ELQ RGLKCGGTLQERAARLFLLKST
Sbjct: 358 ERLKTELQVRGLKCGGTLQERAARLFLLKST 388

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	466
TAIR|locus:2125201	415	AT4G01000 "AT4G01000" [Arabido	0.257	0.289	0.540	9.5e-69
ZFIN|ZDB-GENE-050417-270	487	zgc:112095 "zgc:112095" [Danio	0.356	0.340	0.285	1.4e-14
MGI|MGI:2384788	448	Sde2 "SDE2 telomere maintenanc	0.180	0.187	0.522	5e-14
WB|WBGene00009996	500	F53F4.14 [Caenorhabditis elega	0.171	0.16	0.481	6.2e-10
SGD|S000001410	128	RPL40A "Ubiquitin-ribosomal 60	0.130	0.476	0.403	3.8e-08
SGD|S000001802	128	RPL40B "Ubiquitin-ribosomal 60	0.130	0.476	0.403	3.8e-08
POMBASE|SPAC11G7.04	128	ubi1 "ribosomal-ubiquitin fusi	0.130	0.476	0.403	7.7e-08
POMBASE|SPAC1805.12c	128	uep1 "ribosomal-ubiquitin fusi	0.130	0.476	0.403	7.7e-08
ZFIN|ZDB-GENE-040908-1	501	sf3a3 "splicing factor 3a, sub	0.128	0.119	0.55	1.3e-07
TAIR|locus:2053496	128	UBQ2 "ubiquitin extension prot	0.130	0.476	0.387	1.3e-07

TAIR|locus:2125201 AT4G01000 "AT4G01000" [Arabidopsis thaliana (taxid:3702)]

 Score = 314 (115.6 bits), Expect = 9.5e-69, Sum P(3) = 9.5e-69
 Identities = 66/122 (54%), Positives = 78/122 (63%)

Query:     1 MEDQATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQ 60
             M DQ++ P  LQ FV+LL+GK+ TL+F++   YG +IK RI+E TKIPTHLQRLI  G Q
Sbjct:     1 MADQSSKP--LQFFVRLLDGKSLTLSFSSPLAYGEQIKQRIFEQTKIPTHLQRLISGGYQ 58

Query:    61 LKDRTVISDDHITFNXXXXXXXXXXXXXXXXXXAATKAGQKKTNNFDACRDMSGRRLRHV 120
             + D + IS    T N                     KAGQKKTNNFDACRDMSGRRLRHV
Sbjct:    59 ISDGSAISQPDATVNLVLSLRGGKGGFGSLLRGGGMKAGQKKTNNFDACRDMSGRRLRHV 118

Query:   121 NA 122
             NA
Sbjct:   119 NA 120

GO:0003674 "molecular_function" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

ZFIN|ZDB-GENE-050417-270 zgc:112095 "zgc:112095" [Danio rerio (taxid:7955)]

 Score = 175 (66.7 bits), Expect = 1.4e-14, Sum P(2) = 1.4e-14
 Identities = 52/182 (28%), Positives = 86/182 (47%)

Query:   285 QQSSESGAEDVSREENDMVEPEIHVGMVMQTTSTSCLDTALVSETKAAQAEKHDCCGEFA 344
             ++ ++    ++S   +        V      T   C  TA +S + ++ AE  +   +  
Sbjct:   314 EKLNQEETNEISSSSSSPAPKPTEVNQQEMETEMEC--TAQISSSSSSPAEHSEEEVQQT 371

Query:   345 SESVEEIIGQPPIPNVLXXXXXXXXXKRSVDAEPSGS-SDSKSAINDGAIVANTTLAELE 403
             +E VE++  +                + + +  PS S  + KS +          L+++E
Sbjct:   372 AERVEKMAEEV---QKTAEEVQKKTEESTAEISPSSSIPEEKSQV----------LSQVE 418

Query:   404 RPLNFDEFNSAAEMEVLGLERLKSELQARGLKCGGTLQERAARLFLLKSTPVEKLPKKLL 463
              PL+    +   ++E LGLERLK EL  RG+KCGGTLQERAARLF +K    +++   LL
Sbjct:   419 DPLDLLSVSGPEQLEALGLERLKKELMERGMKCGGTLQERAARLFSVKGLTPDQIDPSLL 478

Query:   464 AK 465
             AK
Sbjct:   479 AK 480

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

MGI|MGI:2384788 Sde2 "SDE2 telomere maintenance homolog (S. pombe)" [Mus musculus (taxid:10090)]

 Score = 169 (64.5 bits), Expect = 5.0e-14, Sum P(2) = 5.0e-14
 Identities = 47/90 (52%), Positives = 56/90 (62%)

Query:   379 SGSSDSKS--AIN-DGAIVANTTLAELERPLNFDEFNSAAEMEVLGLERLKSELQARGLK 435
             SG  D KS  A N +G    +T L  LE  ++   F+SAAE+E LGLERLK EL   GLK
Sbjct:   355 SGE-DRKSVPAANLEGNNSGDTALG-LEA-VDLSAFSSAAELESLGLERLKCELMVLGLK 411

Query:   436 CGGTLQERAARLFLLKSTPVEKLPKKLLAK 465
             CGGTLQERAARLF ++    E +   L AK
Sbjct:   412 CGGTLQERAARLFSVRGLTKELIDPALFAK 441

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

WB|WBGene00009996 F53F4.14 [Caenorhabditis elegans (taxid:6239)]

 Score = 171 (65.3 bits), Expect = 6.2e-10, Sum P(2) = 6.2e-10
 Identities = 39/81 (48%), Positives = 52/81 (64%)

Query:   383 DSKSAINDGAIVANTTLAELERPLNFDEFNSAAEMEVLGLERLKSELQARGLKCGGTLQE 442
             DS S I+D   +   T  E   P++ D+F SA ++E+LGLE LKS L  RGLKCGG+L E
Sbjct:   392 DSASNIDDLPKIDVKTPCEYG-PISLDDFTSAEDLELLGLEHLKSALNDRGLKCGGSLVE 450

Query:   443 RAARLFLLKSTPVEKLPKKLL 463
             RAARL+ +K     + PK +L
Sbjct:   451 RAARLWCVKGKQPREYPKNIL 471

GO:0009792 "embryo development ending in birth or egg hatching" evidence=IMP

SGD|S000001410 RPL40A "Ubiquitin-ribosomal 60S subunit protein L40A fusion protein" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 110 (43.8 bits), Expect = 3.8e-08, Sum P(2) = 3.8e-08
 Identities = 25/62 (40%), Positives = 38/62 (61%)

Query:    11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
             +Q+FVK L GKT TL   +     + +K++I +   IP   QRLI++G QL+D   +SD 
Sbjct:     1 MQIFVKTLTGKTITLEVESSDTIDN-VKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59

Query:    71 HI 72
             +I
Sbjct:    60 NI 61

GO:0003735 "structural constituent of ribosome" evidence=IEA;TAS

GO:0005634 "nucleus" evidence=IEA;IDA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

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

GO:0006281 "DNA repair" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA;IDA

GO:0042254 "ribosome biogenesis" evidence=IDA

GO:0016567 "protein ubiquitination" evidence=IMP

GO:0031386 "protein tag" evidence=ISS

GO:0002181 "cytoplasmic translation" evidence=TAS

GO:0022625 "cytosolic large ribosomal subunit" evidence=TAS

GO:0006412 "translation" evidence=IEA

SGD|S000001802 RPL40B "Ubiquitin-ribosomal 60S subunit protein L40B fusion protein" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 110 (43.8 bits), Expect = 3.8e-08, Sum P(2) = 3.8e-08
 Identities = 25/62 (40%), Positives = 38/62 (61%)

Query:    11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
             +Q+FVK L GKT TL   +     + +K++I +   IP   QRLI++G QL+D   +SD 
Sbjct:     1 MQIFVKTLTGKTITLEVESSDTIDN-VKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59

Query:    71 HI 72
             +I
Sbjct:    60 NI 61

GO:0005840 "ribosome" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0003735 "structural constituent of ribosome" evidence=IEA;TAS

GO:0005634 "nucleus" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0002181 "cytoplasmic translation" evidence=TAS

GO:0006281 "DNA repair" evidence=IEA

GO:0031386 "protein tag" evidence=ISS

GO:0016567 "protein ubiquitination" evidence=IMP

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

GO:0042254 "ribosome biogenesis" evidence=IDA

GO:0022625 "cytosolic large ribosomal subunit" evidence=TAS

POMBASE|SPAC11G7.04 ubi1 "ribosomal-ubiquitin fusion protein Ubi1 (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 110 (43.8 bits), Expect = 7.7e-08, Sum P(2) = 7.7e-08
 Identities = 25/62 (40%), Positives = 38/62 (61%)

Query:    11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
             +Q+FVK L GKT TL   +     + +K++I +   IP   QRLI++G QL+D   +SD 
Sbjct:     1 MQIFVKTLTGKTITLEVESSDTIDN-VKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59

Query:    71 HI 72
             +I
Sbjct:    60 NI 61

GO:0002181 "cytoplasmic translation" evidence=NAS

GO:0003735 "structural constituent of ribosome" evidence=ISO

GO:0005634 "nucleus" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

GO:0006412 "translation" evidence=ISO

GO:0016567 "protein ubiquitination" evidence=ISM

GO:0022625 "cytosolic large ribosomal subunit" evidence=ISO

GO:0042254 "ribosome biogenesis" evidence=ISO

POMBASE|SPAC1805.12c uep1 "ribosomal-ubiquitin fusion protein Ubi2" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 110 (43.8 bits), Expect = 7.7e-08, Sum P(2) = 7.7e-08
 Identities = 25/62 (40%), Positives = 38/62 (61%)

Query:    11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
             +Q+FVK L GKT TL   +     + +K++I +   IP   QRLI++G QL+D   +SD 
Sbjct:     1 MQIFVKTLTGKTITLEVESSDTIDN-VKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59

Query:    71 HI 72
             +I
Sbjct:    60 NI 61

GO:0002181 "cytoplasmic translation" evidence=NAS

GO:0003735 "structural constituent of ribosome" evidence=ISO

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0006281 "DNA repair" evidence=IEA

GO:0006412 "translation" evidence=ISO

GO:0022625 "cytosolic large ribosomal subunit" evidence=ISO

GO:0042254 "ribosome biogenesis" evidence=ISO

ZFIN|ZDB-GENE-040908-1 sf3a3 "splicing factor 3a, subunit 3" [Danio rerio (taxid:7955)]

 Score = 150 (57.9 bits), Expect = 1.3e-07, P = 1.3e-07
 Identities = 33/60 (55%), Positives = 39/60 (65%)

Query:   406 LNFDEFNSAAEMEVLGLERLKSELQARGLKCGGTLQERAARLFLLKSTPVEKLPKKLLAK 465
             L+   F+S  E+  LGL+RLKS L A GLKCGGTL+ERA RLF  K   +E L   L AK
Sbjct:   244 LDLSAFSSWEELASLGLDRLKSALMALGLKCGGTLEERAQRLFSTKGKSLESLDPSLFAK 303

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0060218 "hematopoietic stem cell differentiation" evidence=IMP

TAIR|locus:2053496 UBQ2 "ubiquitin extension protein 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 104 (41.7 bits), Expect = 1.3e-07, Sum P(2) = 1.3e-07
 Identities = 24/62 (38%), Positives = 37/62 (59%)

Query:    11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
             +Q+FVK L GKT TL   +     + +K +I +   IP   QRLI++G QL+D   ++D 
Sbjct:     1 MQIFVKTLTGKTITLEVESSDTIDN-VKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADY 59

Query:    71 HI 72
             +I
Sbjct:    60 NI 61

GO:0003735 "structural constituent of ribosome" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0005730 "nucleolus" evidence=IDA

GO:0022625 "cytosolic large ribosomal subunit" evidence=IDA

GO:0001510 "RNA methylation" evidence=RCA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	466
pfam13297	60	pfam13297, Telomere_Sde2_2, Telomere stability C-t	3e-29
pfam13019	163	pfam13019, Telomere_Sde2, Telomere stability and s	4e-22
cd01803	76	cd01803, Ubiquitin, Ubiquitin	2e-10
pfam00240	69	pfam00240, ubiquitin, Ubiquitin family	6e-08
smart00213	72	smart00213, UBQ, Ubiquitin homologues	2e-07
PTZ00044	76	PTZ00044, PTZ00044, ubiquitin; Provisional	2e-05
cd01806	76	cd01806, Nedd8, Nebb8-like ubiquitin protein	1e-04
cd01769	69	cd01769, UBL, Ubiquitin-like domain of UBL	3e-04

>gnl|CDD|205477 pfam13297, Telomere_Sde2_2, Telomere stability C-terminal

 Score =  108 bits (273), Expect = 3e-29
 Identities = 41/60 (68%), Positives = 48/60 (80%)

Query: 406 LNFDEFNSAAEMEVLGLERLKSELQARGLKCGGTLQERAARLFLLKSTPVEKLPKKLLAK 465
           L+ D F+SA E+E LGL+RLK+ L A GLKCGGTLQERAARLF LK  P+E+L KKL AK
Sbjct: 1   LDLDAFSSAEELEALGLDRLKAALMALGLKCGGTLQERAARLFSLKGLPLEELDKKLFAK 60

This short C-terminal domain is found in higher eukaryotes further downstream from the Sde2 family, pfam13019. It is found in all Sde2-related proteins except those from fission yeast, fly, and mosquito. Its exact function in telomere formation and maintenance has not yet been established. Length = 60

>gnl|CDD|205200 pfam13019, Telomere_Sde2, Telomere stability and silencing

 Score = 92.6 bits (230), Expect = 4e-22
 Identities = 32/79 (40%), Positives = 43/79 (54%), Gaps = 2/79 (2%)

Query: 68  SDDHITFNLVLRLLGGKGGFGSLLRGAATKAGQKKTNN--FDACRDMSGRRLRHVNAEKK 125
           +D  ++  L  RL GGKGGFGS LR A  +   KK  N    +CR++ GRRLR VN  K 
Sbjct: 72  ADTFLSLRLSPRLCGGKGGFGSQLRAAGGRMSSKKKQNENNGSCRNLDGRRLRTVNEAKA 131

Query: 126 LEEWKAEEEERRLEKIAEE 144
           L E+ A + E   ++    
Sbjct: 132 LAEYLAIKPEMEKKEKEAR 150

Sde2 has been identified in fission yeast as an important factor in telomere formation and maintenance. This is a more N-terminal domain on these nuclear proteins, and is essential for telomeric silencing and genomic stability. Length = 163

>gnl|CDD|176398 cd01803, Ubiquitin, Ubiquitin

 Score = 56.4 bits (136), Expect = 2e-10
 Identities = 33/77 (42%), Positives = 44/77 (57%), Gaps = 5/77 (6%)

Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59

Query: 71 HI----TFNLVLRLLGG 83
          +I    T +LVLRL GG
Sbjct: 60 NIQKESTLHLVLRLRGG 76

Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains). Length = 76

>gnl|CDD|215813 pfam00240, ubiquitin, Ubiquitin family

 Score = 49.1 bits (118), Expect = 6e-08
 Identities = 26/67 (38%), Positives = 36/67 (53%), Gaps = 3/67 (4%)

Query: 16 KLLNGKTTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDHITF 74
          K L+GKT TL    +  V   E+K +I +   IP   QRLI+SG  L+D T +S+  I  
Sbjct: 1  KTLDGKTITLEVDPSDTVS--ELKEKIEDKEGIPVDQQRLIFSGKVLEDDTTLSEYGIQD 58

Query: 75 NLVLRLL 81
             L L+
Sbjct: 59 GSTLHLV 65

This family contains a number of ubiquitin-like proteins: SUMO (smt3 homologue), Nedd8, Elongin B, Rub1, and Parkin. A number of them are thought to carry a distinctive five-residue motif termed the proteasome-interacting motif (PIM), which may have a biologically significant role in protein delivery to proteasomes and recruitment of proteasomes to transcription sites. Length = 69

>gnl|CDD|214563 smart00213, UBQ, Ubiquitin homologues

 Score = 47.6 bits (114), Expect = 2e-07
 Identities = 32/76 (42%), Positives = 41/76 (53%), Gaps = 11/76 (14%)

Query: 11 LQLFVKLLNGKTTTLNF---TTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVI 67
          ++L VK L+GKT TL      T      E+K +I E T IP   QRLIY G  L+D   +
Sbjct: 1  IELTVKTLDGKTITLEVKPSDT----VSELKEKIAELTGIPPEQQRLIYKGKVLEDDRTL 56

Query: 68 SDDHI----TFNLVLR 79
          +D  I    T +LVLR
Sbjct: 57 ADYGIQDGSTIHLVLR 72

Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression. Length = 72

>gnl|CDD|185411 PTZ00044, PTZ00044, ubiquitin; Provisional

 Score = 42.5 bits (100), Expect = 2e-05
 Identities = 26/77 (33%), Positives = 39/77 (50%), Gaps = 5/77 (6%)

Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+ +K L GK  + NF   +     +K  + E   I     RLIYSG Q+ D   +SD 
Sbjct: 1  MQILIKTLTGKKQSFNFEPDNTVQQ-VKMALQEKEGIDVKQIRLIYSGKQMSDDLKLSDY 59

Query: 71 HI----TFNLVLRLLGG 83
           +    T ++VL+L GG
Sbjct: 60 KVVPGSTIHMVLQLRGG 76

Length = 76

>gnl|CDD|176401 cd01806, Nedd8, Nebb8-like ubiquitin protein

 Score = 40.2 bits (94), Expect = 1e-04
 Identities = 27/73 (36%), Positives = 34/73 (46%), Gaps = 5/73 (6%)

Query: 15 VKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDHI-- 72
          VK L GK   ++          IK R+ E   IP   QRLIYSG Q+ D    +D  +  
Sbjct: 5  VKTLTGKEIEIDIEPTDKVER-IKERVEEKEGIPPQQQRLIYSGKQMNDDKTAADYKLEG 63

Query: 73 --TFNLVLRLLGG 83
              +LVL L GG
Sbjct: 64 GSVLHLVLALRGG 76

Nedd8 (also known as Rub1) has a single conserved ubiquitin-like domain that is part of a protein modification pathway similar to that of ubiquitin. Nedd8 modifies a family of molecular scaffold proteins called cullins that are responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis. Length = 76

>gnl|CDD|176364 cd01769, UBL, Ubiquitin-like domain of UBL

 Score = 38.8 bits (91), Expect = 3e-04
 Identities = 28/70 (40%), Positives = 35/70 (50%), Gaps = 5/70 (7%)

Query: 14 FVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDHI- 72
           VK L GKT  L  +       E+K +I     +P   QRLIY+G  LKD   +SD  I 
Sbjct: 1  TVKTLTGKTFELEVSPDDTVA-ELKAKIAAKEGVPPEQQRLIYAGKILKDDKTLSDYGIQ 59

Query: 73 ---TFNLVLR 79
             T +LVLR
Sbjct: 60 DGSTLHLVLR 69

UBLs function by remodeling the surface of their target proteins, changing their target's half-life, enzymatic activity, protein-protein interactions, subcellular localization or other properties. At least 10 different ubiquitin-like modifications exist in mammals, and attachment of different ubls to a target leads to different biological consequences. Ubl-conjugation cascades are initiated by activating enzymes, which also coordinate the ubls with their downstream pathways. Length = 69

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	466
KOG2827	322	consensus Uncharacterized conserved protein [Funct	100.0
PF13019	162	Telomere_Sde2: Telomere stability and silencing	99.98
PF13297	60	Telomere_Sde2_2: Telomere stability C-terminal	99.92
KOG0003	128	consensus Ubiquitin/60s ribosomal protein L40 fusi	99.66
PTZ00044	76	ubiquitin; Provisional	99.53
cd01793	74	Fubi Fubi ubiquitin-like protein. Fubi is a ubiqui	99.53
cd01802	103	AN1_N ubiquitin-like domain of AN1. AN1 (also know	99.48
cd01803	76	Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40	99.44
cd01807	74	GDX_N ubiquitin-like domain of GDX. GDX contains a	99.42
cd01810	74	ISG15_repeat2 ISG15 ubiquitin-like protein, second	99.42
cd01806	76	Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also kn	99.42
cd01797	78	NIRF_N amino-terminal ubiquitin-like domain of Np9	99.33
cd01804	78	midnolin_N Ubiquitin-like domain of midnolin. midn	99.32
KOG0004	156	consensus Ubiquitin/40S ribosomal protein S27a fus	99.23
cd01798	70	parkin_N amino-terminal ubiquitin-like of parkin p	99.22
cd01809	72	Scythe_N Ubiquitin-like domain of Scythe protein.	99.22
cd01763	87	Sumo Small ubiquitin-related modifier (SUMO). Smal	99.21
cd01805	77	RAD23_N Ubiquitin-like domain of RAD23. RAD23 belo	99.19
cd01791	73	Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also know	99.16
cd01792	80	ISG15_repeat1 ISG15 ubiquitin-like protein, first	99.16
cd01794	70	DC_UbP_C dendritic cell derived ubiquitin-like pro	99.11
cd01800	76	SF3a120_C Ubiquitin-like domain of Mammalian splic	99.11
cd01808	71	hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC	99.1
KOG2636	497	consensus Splicing factor 3a, subunit 3 [RNA proce	99.09
PF00240	69	ubiquitin: Ubiquitin family; InterPro: IPR000626 U	99.0
cd01790	79	Herp_N Homocysteine-responsive endoplasmic reticul	98.97
cd01796	71	DDI1_N DNA damage inducible protein 1 ubiquitin-li	98.95
KOG2827	322	consensus Uncharacterized conserved protein [Funct	98.94
KOG0005	70	consensus Ubiquitin-like protein [Cell cycle contr	98.92
cd01812	71	BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-ter	98.85
smart00213	64	UBQ Ubiquitin homologues. Ubiquitin-mediated prote	98.81
TIGR00601	378	rad23 UV excision repair protein Rad23. All protei	98.68
cd01813	74	UBP_N UBP ubiquitin processing protease. The UBP (	98.6
cd01814	113	NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and AT	98.55
cd01799	75	Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HO	98.38
cd01815	75	BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC	98.3
PF11976	72	Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; Inter	98.29
cd01769	69	UBL Ubiquitin-like domain of UBL. UBLs function by	98.27
KOG0010	493	consensus Ubiquitin-like protein [Posttranslationa	98.19
KOG0001	75	consensus Ubiquitin and ubiquitin-like proteins [P	98.18
cd01795	107	USP48_C USP ubiquitin-specific protease. The USP (	98.07
KOG0011	340	consensus Nucleotide excision repair factor NEF2,	98.07
KOG4248	1143	consensus Ubiquitin-like protein, regulator of apo	97.68
PF13881	111	Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB	97.54
cd01789	84	Alp11_N Ubiquitin-like domain of Alp11 tubulin-fol	97.5
cd00196	69	UBQ Ubiquitin-like proteins. Ubiquitin homologs; I	97.01
cd01788	119	ElonginB Ubiquitin-like domain of Elongin B. Elong	96.99
PF14560	87	Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2K	96.97
PLN02560	308	enoyl-CoA reductase	96.92
KOG1769	99	consensus Ubiquitin-like proteins [Posttranslation	96.6
PF11543	80	UN_NPL4: Nuclear pore localisation protein NPL4; I	96.04
cd01811	80	OASL_repeat1 2'-5' oligoadenylate synthetase-like	95.85
KOG0006	446	consensus E3 ubiquitin-protein ligase (Parkin prot	95.85
cd01801	77	Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-	95.61
PF10302	97	DUF2407: DUF2407 ubiquitin-like domain; InterPro:	95.58
PF00789	82	UBX: UBX domain; InterPro: IPR001012 The UBX domai	94.49
PF11470	65	TUG-UBL1: GLUT4 regulating protein TUG; InterPro:	93.62
PRK08364	70	sulfur carrier protein ThiS; Provisional	90.09
PF09379	80	FERM_N: FERM N-terminal domain ; InterPro: IPR0189	89.81
PLN02799	82	Molybdopterin synthase sulfur carrier subunit	89.31
COG5227	103	SMT3 Ubiquitin-like protein (sentrin) [Posttransla	88.65
KOG4495	110	consensus RNA polymerase II transcription elongati	88.35
PRK06437	67	hypothetical protein; Provisional	88.33
smart00166	80	UBX Domain present in ubiquitin-regulatory protein	87.58
KOG1872	473	consensus Ubiquitin-specific protease [Posttransla	86.04
cd01767	77	UBX UBX (ubiquitin regulatory X) domain. The UBX (	85.32
smart00295	207	B41 Band 4.1 homologues. Also known as ezrin/radix	83.94
KOG4583	391	consensus Membrane-associated ER protein involved	83.85
cd00754	80	MoaD Ubiquitin domain of MoaD-like proteins. MoaD	83.74
cd01774	85	Faf1_like2_UBX Faf1 ike-2 UBX domain. Faf1_like2 i	83.43
PF12754	309	Blt1: Cell-cycle control medial ring component; In	83.03
cd01771	80	Faf1_UBX Faf1 UBX domain. Faf1 (fas-associated fac	82.92
smart00455	70	RBD Raf-like Ras-binding domain.	81.87
cd01773	82	Faf1_like1_UBX Faf1 ike-1 UBX domain. Faf1_like1 i	81.5
cd01770	79	p47_UBX p47-like ubiquitin domain. p47_UBX p47 is	81.34
cd06409	86	PB1_MUG70 The MUG70 protein is a product of the me	81.26
cd01760	72	RBD Ubiquitin-like domain of RBD-like S/T kinases.	80.25

>KOG2827 consensus Uncharacterized conserved protein [Function unknown]

Probab=100.00  E-value=8.3e-42  Score=334.33  Aligned_cols=298  Identities=34%  Similarity=0.460  Sum_probs=185.9

Q ss_pred             CHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccCCCceeEEeeecCCCcccCcchhhhhhhhccccccCccccccc
Q 012310           33 YGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDHITFNLVLRLLGGKGGFGSLLRGAATKAGQKKTNNFDACRDM  112 (466)
Q Consensus        33 TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~gsTL~LvlRL~GGKGGFGS~LRa~g~r~~~kKt~n~daCRdL  112 (466)
                      -+.+..+.+...+..|+..++++.+++.|..-....  +..+++.+|.+||||||||||||.+  .+..+++|+++||||
T Consensus        22 ~~De~~~~~~~~tn~qs~e~y~~~nlKklEnk~~sg--d~N~~~~lRVlGGKGGFGS~LRA~g--~~~NestN~~~cRDL   97 (322)
T KOG2827|consen   22 NADERLQEWKDGTNGQSLEKYALENLKKLENKVKSG--DGNGATQLRVLGGKGGFGSCLRAVG--LALNESTNNGKCRDL   97 (322)
T ss_pred             ccHHHHHHHHhcccCCCcchhHHhhhHhhcCccccc--cccceEEEEeccCCcchHHHHHHHH--HHHhhhhhhhhHhhh
Confidence            456777778877888888888888999887644321  2348889999999999999999999  667889999999999


Q ss_pred             CCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc---CCCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012310          113 SGRRLRHVNAEKKLEEWKAEEEERRLEKIAEEFLKKAAKK---GKKGVGDGEAEKYVKKYRDESAVCMAKVEEAVRRACA  189 (466)
Q Consensus       113 ~GRRlr~Vn~ek~l~e~~~~~~~R~~Ek~~e~~~kk~~k~---~k~~~~~~~~~~~~e~~~e~~e~~~~~V~eav~~a~~  189 (466)
                      +||||++|+++|+|+.|++++..+..+.  .+..|.+..|   +-.+.++|.+..|.+++++.++++.++++.++.... 
T Consensus        98 ~GrRla~i~eeKrLk~wLeKqa~eere~--kE~kK~KlEKllA~p~~kHdFdD~~Yls~re~~~ekvnDAfe~g~~l~~-  174 (322)
T KOG2827|consen   98 IGRRLAEIEEEKRLKIWLEKQAVEERES--KESKKEKLEKLLALPNGKHDFDDSGYLSDRESGSEKVNDAFEHGSFLVV-  174 (322)
T ss_pred             cccchhhhHHHHHHHHHHHhcchhhhhh--HHHHHHHHHHHcccCCccccccchhHHHHHHHhhHHHHHHHHhHHHHHH-
Confidence            9999999999999999999988776553  2222222322   112234777788888888777664444444433332 


Q ss_pred             cCcccccccchHHHhhhhhhccCCCCCCCCCCCCCCCCchhhhhhhhhccCCCCCCCCcccCCCCCcccCCCCCccCCCC
Q 012310          190 DGKRKAVKSNEMEAKRMKIWMGKRKLGESDDEDSSEDDDDEENEKSIVLNNGHHSDTNKETEGSSGSVTGGKQDRVLSGG  269 (466)
Q Consensus       190 ~gKrk~~~~~~~~~kk~~~w~g~~~~~~~d~~~~~~~dd~~~~~~s~~~~~g~~~~~~~~~~~~~~~v~~~~~~~~~s~~  269 (466)
                      .+|++.....        +==++.     |-+    .++|-+.++-+  ..+|.-....                +.||+
T Consensus       175 e~k~~gv~~~--------~~en~n-----d~d----e~vdv~aan~~--~~~ndw~~r~----------------~~Ss~  219 (322)
T KOG2827|consen  175 EEKITGVQGI--------IEENMN-----DLD----ESVDVDAANTV--ADENDWLERV----------------EKSSG  219 (322)
T ss_pred             hhhhccchhh--------hcccCC-----CCC----cchhhhhhhcc--chhhhhhhhh----------------hhccc
Confidence            1333332200        000000     000    01111111100  0010000000                00000


Q ss_pred             CCCCCCChhhhhhhhhccCCCCCccccccCCCcccccccccccccccccccccchhhhhhHHhhhhhcccCCCcccchhh
Q 012310          270 GSCESGSEEEKDILVQQSSESGAEDVSREENDMVEPEIHVGMVMQTTSTSCLDTALVSETKAAQAEKHDCCGEFASESVE  349 (466)
Q Consensus       270 ~s~~s~s~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~  349 (466)
                      -+-.-.|+++       ...+.+         .+.-      ...|+..                               
T Consensus       220 Dag~~dse~e-------~~ts~~---------~~~n------~~~g~~~-------------------------------  246 (322)
T KOG2827|consen  220 DAGKNDSEVE-------CETSIT---------SAAN------KREGTAK-------------------------------  246 (322)
T ss_pred             cccccccccc-------chhhhh---------hhhc------ccccchh-------------------------------
Confidence            0000000000       000000         0000      0000000                               


Q ss_pred             hhcCCCCCCCCCCCcccccccccccCCCCCCCCCCcccccccccccCccccccCCCcccccCCChHHHhhhchhhhhHHH
Q 012310          350 EIIGQPPIPNVLNSENEESSEKRSVDAEPSGSSDSKSAINDGAIVANTTLAELERPLNFDEFNSAAEMEVLGLERLKSEL  429 (466)
Q Consensus       350 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~ele~lg~~~lk~~l  429 (466)
                                                               |.+..-.++|.+.+||+|++|+|+++||.|||+|||++|
T Consensus       247 -----------------------------------------e~v~vd~~~~~~~~p~~~ddf~s~~d~e~lg~e~lk~~l  285 (322)
T KOG2827|consen  247 -----------------------------------------ETVSVDAVCCKPVEPLNFDDFNSPADMEVLGMERLKTEL  285 (322)
T ss_pred             -----------------------------------------heeeeeeeccccCCCccccccCCHHHHHHhhHHHHHHHH
Confidence                                                     011112247778899999999999999999999999999


Q ss_pred             HhcccccCCchhhhhhhhhhcCCCCCCCCchhhhccC
Q 012310          430 QARGLKCGGTLQERAARLFLLKSTPVEKLPKKLLAKK  466 (466)
Q Consensus       430 ~~~glkcgGtl~era~Rlf~~k~~~~~~~~~~l~ak~  466 (466)
                      +.+||||||||.|||+|||++|++|++++||+||+++
T Consensus       286 ~~rglkcgg~l~eraarl~~~k~~~~~~~pk~~l~~~  322 (322)
T KOG2827|consen  286 QSRGLKCGGTLRERAARLFLLKSTPLDKLPKKLLAKK  322 (322)
T ss_pred             HhcCCcccccHHHHHhhhhhhcCCChhhhhHhhccCC
Confidence            9999999999999999999999999999999999985

>PF13019 Telomere_Sde2: Telomere stability and silencing

Probab=99.98  E-value=1.7e-32  Score=252.83  Aligned_cols=128  Identities=44%  Similarity=0.672  Sum_probs=107.1

Q ss_pred             EEEEEEeCCCC----EEEEEecCCCCCHHHHHHHHHHhhCCCCCC-eEEEe-cCeecCC--CCcccc----C----CCce
Q 012310           11 LQLFVKLLNGK----TTTLNFTTCHVYGHEIKNRIYEATKIPTHL-QRLIY-SGLQLKD--RTVISD----D----HITF   74 (466)
Q Consensus        11 MqIfVKtldGk----T~tL~V~sPs~TVsdLK~rI~e~~GIP~e~-QRLIf-nGK~L~D--sstLss----~----gsTL   74 (466)
                      |||||++|+|.    ++++.++ +++||.+|+.+|...+++|... ++|.+ .|+.|..  +..++.    .    ..+|
T Consensus         1 i~Vlvss~~g~~lp~tl~~~lp-~~ttv~dL~~~l~~~~~~~~~~~~~L~~~~n~~l~~~~~~~~s~l~~~~~~~~~~~l   79 (162)
T PF13019_consen    1 INVLVSSFDGLTLPPTLSLSLP-STTTVSDLKDRLSERLPIPSSSQLYLTTNSNGQLSPSSDIPLSSLLSSSQDSDFITL   79 (162)
T ss_pred             CeEEEecCCCCCCCCeEEeeCC-CCCcHHHHHHHHHhhcCCCccceeEEEEeCCCeeCCCccccHHhhccCcCCCCceEE
Confidence            79999999994    5666665 4789999999999999999988 45655 3555532  222222    1    1378


Q ss_pred             eEEeeecCCCcccCcchhhhhhhhccccccCcccccccCCCcccccchHHHHHHHHHHHHHHHHH
Q 012310           75 NLVLRLLGGKGGFGSLLRGAATKAGQKKTNNFDACRDMSGRRLRHVNAEKKLEEWKAEEEERRLE  139 (466)
Q Consensus        75 ~LvlRL~GGKGGFGS~LRa~g~r~~~kKt~n~daCRdL~GRRlr~Vn~ek~l~e~~~~~~~R~~E  139 (466)
                      +|.+||+||||||||||||+|+||+++||+|+|+||||+||||||||++|+|++|++++.+|+.+
T Consensus        80 ~l~~rl~GGKGGFGs~Lr~~g~~~s~~k~~n~dscRdL~GRRlr~v~~~k~l~~~~~~~~er~k~  144 (162)
T PF13019_consen   80 RLSLRLRGGKGGFGSQLRAAGGRMSSKKTTNFDSCRDLSGRRLRTVNEEKKLAEWLEKKPEREKK  144 (162)
T ss_pred             EEEEeccCCCccHHHHHHHHHHHhhcccCCCcccccCCCCcChhhhHHHHHHHHHHhcChhHHHH
Confidence            99999999999999999999999999999999999999999999999999999999998888643

>PF13297 Telomere_Sde2_2: Telomere stability C-terminal

Probab=99.92  E-value=3.1e-26  Score=178.93  Aligned_cols=60  Identities=67%  Similarity=1.015  Sum_probs=59.2

Q ss_pred             cccccCCChHHHhhhchhhhhHHHHhcccccCCchhhhhhhhhhcCCCCCCCCchhhhcc
Q 012310          406 LNFDEFNSAAEMEVLGLERLKSELQARGLKCGGTLQERAARLFLLKSTPVEKLPKKLLAK  465 (466)
Q Consensus       406 ~~~~~~~s~~ele~lg~~~lk~~l~~~glkcgGtl~era~Rlf~~k~~~~~~~~~~l~ak  465 (466)
                      |||+.|+|++|||.|||||||++|+++||||||||+|||+|||++||+++++||++||||
T Consensus         1 ldL~~f~sa~eLe~lGldrLK~~L~a~GLKcGGTl~ERA~RLfs~kg~~~~~~d~~l~AK   60 (60)
T PF13297_consen    1 LDLDAFSSAEELEALGLDRLKSALMALGLKCGGTLQERAARLFSVKGLPLEEIDKKLFAK   60 (60)
T ss_pred             CcchhcCCHHHHHHhCHHHHHHHHHHcCCccCCCHHHHHHHHHHhcCCChhhCCHHHhcC
Confidence            799999999999999999999999999999999999999999999999999999999997

>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]

Probab=99.66  E-value=8.8e-18  Score=145.53  Aligned_cols=99  Identities=37%  Similarity=0.484  Sum_probs=91.2

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccCC----CceeEEeeecCCCcc
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDH----ITFNLVLRLLGGKGG   86 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~g----sTL~LvlRL~GGKGG   86 (466)
                      |+|||++|.|+|++|.+. |++||..||..|+...|||+++|+|+|+|++|+|+.++++|+    +|||+++||+||  .
T Consensus         1 ~~~~~~~~~GKT~~le~E-pS~ti~~vKA~i~~~~Gi~~~~~~L~~~~k~LED~~Tla~Y~i~~~~Tl~~~~rL~GG--~   77 (128)
T KOG0003|consen    1 MQIFVKTLTGKTITLEVE-PSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG--I   77 (128)
T ss_pred             CcEEEEEeeCceEEEEec-ccchHHHHHHHhccccCCCHHHHHHHhcccccccCCcccccCccchhhhhhhHHHhcC--C
Confidence            689999999999999998 999999999999999999999999999999999999999985    699999999999  7


Q ss_pred             cCcchhhhhhhhccccccCcccccccCCCc
Q 012310           87 FGSLLRGAATKAGQKKTNNFDACRDMSGRR  116 (466)
Q Consensus        87 FGS~LRa~g~r~~~kKt~n~daCRdL~GRR  116 (466)
                      ....|+++++++++    +.-.||.||.|-
T Consensus        78 i~~~~aalAmK~~~----D~lICRkCYAR~  103 (128)
T KOG0003|consen   78 IEPSLAALAMKYNC----DKLICRKCYARL  103 (128)
T ss_pred             CChhHHHHHHHhcc----chHHHHHHHHhc
Confidence            89999999988744    445999999874

>PTZ00044 ubiquitin; Provisional

Probab=99.53  E-value=2.7e-14  Score=115.09  Aligned_cols=72  Identities=36%  Similarity=0.524  Sum_probs=68.2

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCC
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGG   83 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GG   83 (466)
                      |+|||++++|+++++.+. ++.||.+||++|++..|||++.|+|+|+|++|.|+.+|++|    +++|+|+++++||
T Consensus         1 m~i~vk~~~G~~~~l~v~-~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~l~~~~i~~~~~i~l~~~~~gg   76 (76)
T PTZ00044          1 MQILIKTLTGKKQSFNFE-PDNTVQQVKMALQEKEGIDVKQIRLIYSGKQMSDDLKLSDYKVVPGSTIHMVLQLRGG   76 (76)
T ss_pred             CEEEEEeCCCCEEEEEEC-CCCcHHHHHHHHHHHHCCCHHHeEEEECCEEccCCCcHHHcCCCCCCEEEEEEEccCC
Confidence            799999999999999998 89999999999999999999999999999999999888876    5699999999987

>cd01793 Fubi Fubi ubiquitin-like protein

Probab=99.53  E-value=2.4e-14  Score=115.78  Aligned_cols=70  Identities=31%  Similarity=0.414  Sum_probs=65.7

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCC
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGG   83 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GG   83 (466)
                      ||||||+  ++++++.|. |+.||.+||++|++..|||+++|+|+|+|++|.|+.+|++|    ++||||++||+||
T Consensus         1 mqi~vk~--~~~~~l~v~-~~~tV~~lK~~i~~~~gip~~~q~Li~~Gk~L~D~~tL~~~~i~~~~tl~l~~~l~GG   74 (74)
T cd01793           1 MQLFVRA--QNTHTLEVT-GQETVSDIKAHVAGLEGIDVEDQVLLLAGVPLEDDATLGQCGVEELCTLEVAGRLLGG   74 (74)
T ss_pred             CEEEEEC--CCEEEEEEC-CcCcHHHHHHHHHhhhCCCHHHEEEEECCeECCCCCCHHHcCCCCCCEEEEEEecCCC
Confidence            8999998  478999997 89999999999999999999999999999999999999887    4699999999997

Fubi is a ubiquitin-like protein encoded by the fau gene which has an N-terminal ubiquitin-like domain (also referred to as FUBI) fused to the ribosomal protein S30. Fubi is thought to be a tumor suppressor protein and the FUBI domain may act as a substitute or an inhibitor of ubiquitin or one of ubiquitin's close relatives UCRP, FAT10, and Nedd8.

>cd01802 AN1_N ubiquitin-like domain of AN1

Probab=99.48  E-value=1.1e-13  Score=119.79  Aligned_cols=74  Identities=28%  Similarity=0.462  Sum_probs=70.3

Q ss_pred             CcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCC
Q 012310            9 KALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGG   83 (466)
Q Consensus         9 ~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GG   83 (466)
                      ..|+|||+++.|++++|.+. ++.||.+||++|++..|||++.|+|+|+|+.|.|+.+|++|    +++|+|++|++||
T Consensus        26 ~~M~I~Vk~l~G~~~~leV~-~~~TV~~lK~kI~~~~gip~~~QrLi~~Gk~L~D~~tL~dy~I~~~stL~l~~~l~GG  103 (103)
T cd01802          26 DTMELFIETLTGTCFELRVS-PFETVISVKAKIQRLEGIPVAQQHLIWNNMELEDEYCLNDYNISEGCTLKLVLAMRGG  103 (103)
T ss_pred             CCEEEEEEcCCCCEEEEEeC-CCCcHHHHHHHHHHHhCCChHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEecCCC
Confidence            47999999999999999997 89999999999999999999999999999999999999887    4799999999997

AN1 (also known as ANUBL1 and RSD-7) is ubiquitin-like protein with a testis-specific expression in rats that has an N-terminal ubiquitin-like domain and a C-terminal zinc-binding domain. Unlike ubiquitin polyproteins and most ubiquitin fusion proteins, the N-terminal ubiquitin-like domain of An1 does not undergo proteolytic processing. The function of AN1 is unknown.

>cd01803 Ubiquitin Ubiquitin

Probab=99.44  E-value=2.7e-13  Score=108.38  Aligned_cols=72  Identities=44%  Similarity=0.627  Sum_probs=68.2

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCC
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGG   83 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GG   83 (466)
                      |+|+|++++|+++++.+. ++.||.+||++|++.+++|++.|+|+|+|+.|.|+.+|.+|    +++|+|++|++||
T Consensus         1 m~i~v~~~~g~~~~~~v~-~~~tV~~lK~~i~~~~g~~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~i~l~~~~~gg   76 (76)
T cd01803           1 MQIFVKTLTGKTITLEVE-PSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG   76 (76)
T ss_pred             CEEEEEcCCCCEEEEEEC-CcCcHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCcHHHcCCCCCCEEEEEEEccCC
Confidence            799999999999999998 89999999999999999999999999999999999888876    5699999999997

Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)

>cd01807 GDX_N ubiquitin-like domain of GDX

Probab=99.42  E-value=4e-13  Score=108.47  Aligned_cols=69  Identities=32%  Similarity=0.465  Sum_probs=65.1

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeee
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRL   80 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL   80 (466)
                      |+|+|++++|++++|.+. ++.||.+||++|++..|||+++|+|+|+|++|.|+.+|++|    +++|+|++|.
T Consensus         1 m~i~vk~~~G~~~~l~v~-~~~tV~~lK~~i~~~~gi~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~l~l~~~~   73 (74)
T cd01807           1 MFLTVKLLQGRECSLQVS-EKESVSTLKKLVSEHLNVPEEQQRLLFKGKALADDKRLSDYSIGPNAKLNLVVRP   73 (74)
T ss_pred             CEEEEEeCCCCEEEEEEC-CCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCCCHHHCCCCCCCEEEEEEcC
Confidence            799999999999999997 89999999999999999999999999999999999999886    5699999885

GDX contains an N-terminal ubiquitin-like domain as well as an uncharacterized c-terminal domain. The function of GDX is unknown.

>cd01810 ISG15_repeat2 ISG15 ubiquitin-like protein, second repeat of 2

Probab=99.42  E-value=3.8e-13  Score=108.75  Aligned_cols=70  Identities=17%  Similarity=0.298  Sum_probs=66.3

Q ss_pred             EEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCC
Q 012310           13 LFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGG   83 (466)
Q Consensus        13 IfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GG   83 (466)
                      |||+++.|++++|.+. ++.||.+||++|++..|||+++|+|+|+|+.|.|+.+|++|    +++|+|++|+.||
T Consensus         1 i~vk~~~g~~~~l~v~-~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~D~~tL~~~~i~~~~tl~l~~~l~gg   74 (74)
T cd01810           1 ILVRNDKGRSSIYEVQ-LTQTVATLKQQVSQRERVQADQFWLSFEGRPMEDEHPLGEYGLKPGCTVFMNLRLRGG   74 (74)
T ss_pred             CEEECCCCCEEEEEEC-CcChHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCCHHHcCCCCCCEEEEEEEccCC
Confidence            7999999999999997 89999999999999999999999999999999999999886    4699999999987

ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains and becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.

>cd01806 Nedd8 Nebb8-like ubiquitin protein

Probab=99.42  E-value=6e-13  Score=106.39  Aligned_cols=72  Identities=38%  Similarity=0.509  Sum_probs=68.1

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCC
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGG   83 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GG   83 (466)
                      |+|+|++++|+++.+.+. ++.||.+||++|++..++|+..|+|+|+|+.|.|+.+|.+|    +++|+|+++++||
T Consensus         1 m~i~v~~~~g~~~~~~v~-~~~tv~~lK~~i~~~~g~~~~~qrL~~~g~~L~d~~tl~~~~i~~g~~i~l~~~~~gg   76 (76)
T cd01806           1 MLIKVKTLTGKEIEIDIE-PTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDDKTAADYKLEGGSVLHLVLALRGG   76 (76)
T ss_pred             CEEEEEeCCCCEEEEEEC-CCCCHHHHHHHHhHhhCCChhhEEEEECCeEccCCCCHHHcCCCCCCEEEEEEEccCC
Confidence            799999999999999997 89999999999999999999999999999999999988876    5799999999987

Nedd8 (also known as Rub1) has a single conserved ubiquitin-like domain that is part of a protein modification pathway similar to that of ubiquitin. Nedd8 modifies a family of molecular scaffold proteins called cullins that are responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis.

>cd01797 NIRF_N amino-terminal ubiquitin-like domain of Np95 and NIRF

Probab=99.33  E-value=2.6e-12  Score=105.83  Aligned_cols=69  Identities=25%  Similarity=0.406  Sum_probs=63.8

Q ss_pred             EEEEEEeCCCCE-EEEE-ecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeee
Q 012310           11 LQLFVKLLNGKT-TTLN-FTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRL   80 (466)
Q Consensus        11 MqIfVKtldGkT-~tL~-V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL   80 (466)
                      |+|||++++|++ +++. +. ++.||.+||++|++..|||+++|+|+|+|+.|.|+.+|++|    +++|+|++|+
T Consensus         1 M~I~vk~~~G~~~~~l~~v~-~~~TV~~lK~~i~~~~gi~~~~QrLi~~Gk~L~D~~tL~~y~i~~~~~i~l~~~~   75 (78)
T cd01797           1 MWIQVRTMDGKETRTVDSLS-RLTKVEELREKIQELFNVEPECQRLFYRGKQMEDGHTLFDYNVGLNDIIQLLVRQ   75 (78)
T ss_pred             CEEEEEcCCCCEEEEeeccC-CcCcHHHHHHHHHHHhCCCHHHeEEEeCCEECCCCCCHHHcCCCCCCEEEEEEec
Confidence            899999999997 6885 66 89999999999999999999999999999999999999887    5799999986

NIRF_N This CD represents the amino-terminal ubiquitin-like domain of a family of nuclear proteins that includes Np95 and NIRF (Np95/ICBP90-like RING finger) protein. Both Np95 and NIRF have a domain architecture consisting of a ubiquitin-like domain, a PHD finger, a YDG/SRA domain, Rb-binding motifs and a RING finger domain. Both Np95 and NIRF are ubiquitin ligases that ubiquitinate PCNP (PEST-containing nuclear proteins). While Np95 is capable of binding histones, NIRF is involved in cell cycle regulation.

>cd01804 midnolin_N Ubiquitin-like domain of midnolin

Probab=99.32  E-value=5e-12  Score=103.74  Aligned_cols=73  Identities=19%  Similarity=0.211  Sum_probs=68.0

Q ss_pred             cEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCCC
Q 012310           10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGGK   84 (466)
Q Consensus        10 ~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GGK   84 (466)
                      .|+|+|+++.|++++++++ ++.||.+||.+|++..++|++.|+|+|+|+.|.|+ +|.+|    +++|+|++.++||.
T Consensus         1 ~m~I~Vk~~~G~~~~l~v~-~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk~L~d~-~L~~~gi~~~~~i~l~~~~~~~~   77 (78)
T cd01804           1 PMNLNIHSTTGTRFDLSVP-PDETVEGLKKRISQRLKVPKERLALLHRETRLSSG-KLQDLGLGDGSKLTLVPTVEAGL   77 (78)
T ss_pred             CeEEEEEECCCCEEEEEEC-CcCHHHHHHHHHHHHhCCChHHEEEEECCcCCCCC-cHHHcCCCCCCEEEEEeeccccC
Confidence            4999999999999999997 89999999999999999999999999999999998 88886    57999999999883

midnolin_N Midnolin (midbrain nucleolar protein) is expressed in the nucleolus and is thought to regulate genes involved in neurogenesis. Midnolin contains an amino-terminal ubiquitin-like domain.

>KOG0004 consensus Ubiquitin/40S ribosomal protein S27a fusion [Translation, ribosomal structure and biogenesis]

Probab=99.23  E-value=5.3e-12  Score=116.04  Aligned_cols=73  Identities=44%  Similarity=0.643  Sum_probs=69.4

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccCC----CceeEEeeecCCC
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDH----ITFNLVLRLLGGK   84 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~g----sTL~LvlRL~GGK   84 (466)
                      |+|||+++.|++.++.+. +..||..+|.+|+..+|||+++|||||.|++|.|..+|++|+    +||+|++||+||-
T Consensus         1 m~ifVk~l~~kti~~eve-~~~ti~~~Kakiq~~egIp~dqqrlifag~qLedgrtlSDY~Iqkestl~l~l~l~Gg~   77 (156)
T KOG0004|consen    1 MQIFVKTLTGKTITLEVE-ANDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGA   77 (156)
T ss_pred             Cccchhhccccceeeeec-ccccHHHHHHhhhcccCCCchhhhhhhhhcccccCCccccccccccceEEEEEEecCCc
Confidence            799999999999999998 899999999999999999999999999999999999999984    6999999999884

>cd01798 parkin_N amino-terminal ubiquitin-like of parkin protein

Probab=99.22  E-value=2.1e-11  Score=97.27  Aligned_cols=66  Identities=20%  Similarity=0.353  Sum_probs=61.8

Q ss_pred             EEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEee
Q 012310           13 LFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLR   79 (466)
Q Consensus        13 IfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlR   79 (466)
                      |||+++.|+++++.+. |+.||.+||++|++..|+|+++|+|+|+|++|.|+.+|++|    +++|||+.|
T Consensus         1 i~vk~~~g~~~~~~v~-~~~tV~~lK~~i~~~~gi~~~~q~Li~~G~~L~d~~~l~~~~i~~~stl~l~~~   70 (70)
T cd01798           1 VYVRTNTGHTFPVEVD-PDTDIKQLKEVVAKRQGVPPDQLRVIFAGKELRNTTTIQECDLGQQSILHAVRR   70 (70)
T ss_pred             CEEEcCCCCEEEEEEC-CCChHHHHHHHHHHHHCCCHHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEeC
Confidence            6899999999999998 89999999999999999999999999999999999999886    579999875

parkin_N parkin protein is a RING-type E3 ubiquitin ligase with an amino-terminal ubiquitin-like (Ubl) domain and an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain. Naturally occurring mutations in parkin are thought to cause the disease AR_JP (autosomal-recessive juvenile parkinsonism). Parkin binds the Rpn10 subunit of 26S proteasomes through its Ubl domain.

>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein

Probab=99.22  E-value=3.6e-11  Score=95.16  Aligned_cols=68  Identities=37%  Similarity=0.495  Sum_probs=62.9

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEee
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLR   79 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlR   79 (466)
                      |+|+|++++|+++++.+. ++.||.+||++|++..|+|++.|+|+|+|+.|.|+.+|.+|    +++|+|+.|
T Consensus         1 i~i~vk~~~g~~~~~~v~-~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~l~l~~~   72 (72)
T cd01809           1 IEIKVKTLDSQTHTFTVE-EEITVLDLKEKIAEEVGIPVEQQRLIYSGRVLKDDETLSEYKVEDGHTIHLVKR   72 (72)
T ss_pred             CEEEEEeCCCCEEEEEEC-CCCcHHHHHHHHHHHHCcCHHHeEEEECCEECCCcCcHHHCCCCCCCEEEEEeC
Confidence            789999999999999997 89999999999999999999999999999999999998876    568888765

Scythe protein (also known as Bat3) is an apoptotic regulator that is highly conserved in eukaryotes and contains a ubiquitin-like domain near its N-terminus. Scythe binds reaper, a potent apoptotic inducer, and Scythe/Reaper are thought to signal apoptosis, in part through regulating the folding and activity of apoptotic signaling molecules.

>cd01763 Sumo Small ubiquitin-related modifier (SUMO)

Probab=99.21  E-value=7.2e-11  Score=98.78  Aligned_cols=76  Identities=14%  Similarity=0.234  Sum_probs=71.3

Q ss_pred             CCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecC
Q 012310            7 SPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLG   82 (466)
Q Consensus         7 s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~G   82 (466)
                      .+..|+|+|++.+|+.+++.+. +++++..|+.+++++.|||+++|+|+|+|+.|.++.++.++    +++|++++++.|
T Consensus         8 ~~~~i~I~v~~~~g~~~~~~v~-~~~~l~~l~~~y~~~~gi~~~~~rf~f~G~~L~~~~T~~~l~m~d~d~I~v~l~l~G   86 (87)
T cd01763           8 ISEHINLKVKGQDGNEVFFKIK-RSTPLKKLMEAYCQRQGLSMNSVRFLFDGQRIRDNQTPDDLGMEDGDEIEVMLEQTG   86 (87)
T ss_pred             CCCeEEEEEECCCCCEEEEEEc-CCCHHHHHHHHHHHHhCCCccceEEEECCeECCCCCCHHHcCCCCCCEEEEEEeccc
Confidence            4678999999999999999997 89999999999999999999999999999999999888775    589999999999


Q ss_pred             C
Q 012310           83 G   83 (466)
Q Consensus        83 G   83 (466)
                      |
T Consensus        87 G   87 (87)
T cd01763          87 G   87 (87)
T ss_pred             C
Confidence            8

Small ubiquitin-related modifier (SUMO) proteins are conjugated to numerous intracellular targets and serve to modulate protein interaction, localization, activity or stability. SUMO (also known as "Smt3" and "sentrin" in other organisms) is linked to several different pathways, including nucleocytoplasmic transport. Attachment of SUMO to targets proteins is stimulated by PIAS (Protein inhibitor of activated STATs) proteins which serve as E3-like ligases.

>cd01805 RAD23_N Ubiquitin-like domain of RAD23

Probab=99.19  E-value=7.1e-11  Score=95.25  Aligned_cols=68  Identities=26%  Similarity=0.334  Sum_probs=62.5

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCC--CCCCeEEEecCeecCCCCccccC----CCceeEEee
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKI--PTHLQRLIYSGLQLKDRTVISDD----HITFNLVLR   79 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GI--P~e~QRLIfnGK~L~DsstLss~----gsTL~LvlR   79 (466)
                      |+|+|++++|+++++.+. ++.||.+||++|++..|+  |++.|+|+|+|++|.|+.+|.+|    +++|+++++
T Consensus         1 m~i~vk~~~g~~~~l~v~-~~~TV~~lK~~i~~~~~i~~~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~i~~~~~   74 (77)
T cd01805           1 MKITFKTLKQQTFPIEVD-PDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKDDTTLEEYKIDEKDFVVVMVS   74 (77)
T ss_pred             CEEEEEeCCCCEEEEEEC-CCCcHHHHHHHHHHhhCCCCChhHeEEEECCEEccCCCCHHHcCCCCCCEEEEEEe
Confidence            899999999999999998 899999999999999999  99999999999999999888876    567877765

RAD23 belongs to a family of adaptor molecules having affinity for both the proteasome and ubiquitinylated proteins and thought to shuttle these ubiquitinylated proteins to the proteasome for destruction. RAD23 interacts with ubiquitin through its C-terminal ubiquitin-associated domains (UBA) and with the proteasome through its N-terminal ubiquitin-like domain (UBL).

>cd01791 Ubl5 UBL5 ubiquitin-like modifier

Probab=99.16  E-value=8.1e-11  Score=96.03  Aligned_cols=67  Identities=15%  Similarity=0.052  Sum_probs=62.0

Q ss_pred             cEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEE
Q 012310           10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLV   77 (466)
Q Consensus        10 ~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~Lv   77 (466)
                      +|.|+|+++.|+.+.+.|+ |+.||.+||.+|++..++|++.|||+|+|+.|.|+.+|.+|    +++|||.
T Consensus         1 ~~~i~vkt~~Gk~~~~~v~-~~~TV~~LK~~I~~~~~~~~~~qrLi~~Gk~L~D~~tL~~ygi~~~stv~l~   71 (73)
T cd01791           1 MIEVVCNDRLGKKVRVKCN-PDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHISLGDYEIHDGMNLELY   71 (73)
T ss_pred             CEEEEEECCCCCEEEEEeC-CCCcHHHHHHHHHHHhCCChHHEEEEeCCcCCCCCCCHHHcCCCCCCEEEEE
Confidence            5899999999999999997 89999999999999999999999999999999999998886    4688874

UBL5 (also known as HUB1) is a ubiquitin-like modifier that is both widely expressed and highly phylogenetically conserved. At the C-terminal end of the ubiquitin-like fold of UBL5 is a di-tyrosine motif followed by a single variable residue instead of the characteristic di-glycine found in all other ubiquitin-like modifiers. ULB5 interacts with a cyclin-like kinase called CLK4 but not with other cyclin-like kinase family members.

>cd01792 ISG15_repeat1 ISG15 ubiquitin-like protein, first repeat of 2

Probab=99.16  E-value=8e-11  Score=96.77  Aligned_cols=71  Identities=25%  Similarity=0.287  Sum_probs=65.1

Q ss_pred             CcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEE--EecCeecCCCCccccC----CCceeEEeee
Q 012310            9 KALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRL--IYSGLQLKDRTVISDD----HITFNLVLRL   80 (466)
Q Consensus         9 ~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRL--IfnGK~L~DsstLss~----gsTL~LvlRL   80 (466)
                      +.|+|+|+++.|+++++.+. ++.||.+||++|++..++|++.|+|  +|+|+.|.|+.+|++|    +++|+|+++-
T Consensus         1 ~~~~i~Vk~~~G~~~~~~v~-~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~D~~tL~~~gi~~gs~l~l~~~~   77 (80)
T cd01792           1 MGWDLKVKMLGGNEFLVSLR-DSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDGVPLVSQGLGPGSTVLLVVQN   77 (80)
T ss_pred             CceEEEEEeCCCCEEEEEcC-CCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCCCCCHHHcCCCCCCEEEEEEEc
Confidence            35999999999999999997 8999999999999999999999999  8999999999998886    5689999873

ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains that becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.

>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein

Probab=99.11  E-value=1.4e-10  Score=93.74  Aligned_cols=64  Identities=22%  Similarity=0.353  Sum_probs=59.0

Q ss_pred             EEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEe
Q 012310           14 FVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVL   78 (466)
Q Consensus        14 fVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~Lvl   78 (466)
                      .|+++.|+++++.+. |+.||.+||++|++..|||+++|+|+|+|++|.|+.+|.+|    +++|||.+
T Consensus         2 ~vk~~~G~~~~l~v~-~~~TV~~lK~~I~~~~gi~~~~q~Li~~G~~L~D~~~l~~~~i~~~~tv~~~~   69 (70)
T cd01794           2 KVRLSTGKDVKLSVS-SKDTVGQLKKQLQAAEGVDPCCQRWFFSGKLLTDKTRLQETKIQKDYVVQVIV   69 (70)
T ss_pred             eEEcCCCCEEEEEEC-CcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCCCCHHHcCCCCCCEEEEEe
Confidence            578999999999997 89999999999999999999999999999999999998876    46888875

DC_UbP (dendritic cell derived ubiquitin-like protein) is a ubiquitin-like protein from human dendritic cells that is expressed in the mitochondrion. The ubiquitin-like domain of this protein is found at the C-terminus and lacks the canonical gly-gly motif of ubiquitin required for ubiquitinization. DC_UbP is expressed in tumor cells but not in normal human adult tissue suggesting a role for DC_UbP in tumorogenesis.

>cd01800 SF3a120_C Ubiquitin-like domain of Mammalian splicing factor SF3a_120

Probab=99.11  E-value=1.4e-10  Score=94.41  Aligned_cols=66  Identities=27%  Similarity=0.389  Sum_probs=61.3

Q ss_pred             CCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCCC
Q 012310           18 LNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGGK   84 (466)
Q Consensus        18 ldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GGK   84 (466)
                      ++|++++|.+. ++.||.+||++|+...|||++.|+|+|+|+.|.|+.+|++|    +++|+|+++++||+
T Consensus         5 l~g~~~~l~v~-~~~TV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~~~i~~g~~l~v~~~~~gg~   74 (76)
T cd01800           5 LNGQMLNFTLQ-LSDPVSVLKVKIHEETGMPAGKQKLQYEGIFIKDSNSLAYYNLANGTIIHLQLKERGGR   74 (76)
T ss_pred             cCCeEEEEEEC-CCCcHHHHHHHHHHHHCCCHHHEEEEECCEEcCCCCcHHHcCCCCCCEEEEEEecCCCc
Confidence            57999999998 89999999999999999999999999999999999999876    56999999999875

SF3a120_C Mammalian splicing factor SF3a consists of three subunits of 60, 66, and 120 kDa and functions early during pre-mRNA splicing by converting the U2 snRNP to its active form. The 120kDa subunit (SF3a120) has a carboxy-terminal ubiquitin-like domain and two SWAP (suppressor-of-white-apricot) domains, referred to collectively as the SURP module, at its amino-terminus.

>cd01808 hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC2

Probab=99.10  E-value=2e-10  Score=91.99  Aligned_cols=67  Identities=21%  Similarity=0.324  Sum_probs=61.0

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEee
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLR   79 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlR   79 (466)
                      |+|+|+++.|+. ++.+. ++.||.+||++|++..|||.++|+|+|+|+.|.|+.+|.+|    +++|+|++|
T Consensus         1 ~~i~vk~~~g~~-~l~v~-~~~TV~~lK~~I~~~~~i~~~~~~Li~~Gk~L~d~~tL~~~~i~~~stl~l~~~   71 (71)
T cd01808           1 IKVTVKTPKDKE-EIEIA-EDASVKDFKEAVSKKFKANQEQLVLIFAGKILKDTDTLTQHNIKDGLTVHLVIK   71 (71)
T ss_pred             CEEEEEcCCCCE-EEEEC-CCChHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEEC
Confidence            579999999974 89997 89999999999999999999999999999999999998886    568999875

hPLIC-1 and hPLIC-2 (human homologs of the yeast ubiquitin-like Dsk2 protein) are type2 UBL's (ubiquitin-like) proteins that are thought to serve as adaptors that link the ubiquitination machinery to the proteasome. The hPLIC's have an N-terminal UBL domain that binds the S5a subunit of the proteasome and a C-terminal UBA (ubiquitin-associated) domain that binds a ubiquitylated protein.

>KOG2636 consensus Splicing factor 3a, subunit 3 [RNA processing and modification]

Probab=99.09  E-value=3.4e-11  Score=125.63  Aligned_cols=64  Identities=52%  Similarity=0.745  Sum_probs=61.0

Q ss_pred             CCCcccccCCChHHHhhhchhhhhHHHHhcccccCCchhhhhhhhhhcCCCCCCCCchhhhccC
Q 012310          403 ERPLNFDEFNSAAEMEVLGLERLKSELQARGLKCGGTLQERAARLFLLKSTPVEKLPKKLLAKK  466 (466)
Q Consensus       403 ~~~~~~~~~~s~~ele~lg~~~lk~~l~~~glkcgGtl~era~Rlf~~k~~~~~~~~~~l~ak~  466 (466)
                      ...+||+.|+|+++|..+|++|||++|+++|+|||||+.+||.|||.++|.+++.++++||+|.
T Consensus       236 ~~~~dl~~~~s~Eel~~~g~erlk~al~alglk~gGt~~~ra~rlf~Tk~~~l~~L~~~~~~kn  299 (497)
T KOG2636|consen  236 AKALDLSGASSVEELYCLGCERLKSALTALGLKCGGTLHERAQRLFSTKSKSLSHLDTKLFAKN  299 (497)
T ss_pred             ccccccchhhHHHHHHhhchhHHHHHHHHHHHhcCCeecHHHHhhhhhcCcchhhhhhhhhccC
Confidence            3349999999999999999999999999999999999999999999999999999999999974

>PF00240 ubiquitin: Ubiquitin family; InterPro: IPR000626 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade

Probab=99.00  E-value=1.1e-09  Score=86.35  Aligned_cols=64  Identities=41%  Similarity=0.524  Sum_probs=59.1

Q ss_pred             EeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeee
Q 012310           16 KLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRL   80 (466)
Q Consensus        16 KtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL   80 (466)
                      |+++|+++.+.+. ++.||.+||.+|+...++|++.|+|+|+|+.|.|+.+|.+|    +++|+|++|.
T Consensus         1 k~~~g~~~~~~v~-~~~tV~~lK~~i~~~~~~~~~~~~L~~~G~~L~d~~tL~~~~i~~~~~I~l~~k~   68 (69)
T PF00240_consen    1 KTLSGKTFTLEVD-PDDTVADLKQKIAEETGIPPEQQRLIYNGKELDDDKTLSDYGIKDGSTIHLVIKP   68 (69)
T ss_dssp             EETTSEEEEEEEE-TTSBHHHHHHHHHHHHTSTGGGEEEEETTEEESTTSBTGGGTTSTTEEEEEEESS
T ss_pred             CCCCCcEEEEEEC-CCCCHHHhhhhcccccccccccceeeeeeecccCcCcHHHcCCCCCCEEEEEEec
Confidence            6889999999998 89999999999999999999999999999999999999886    5688888875

There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin is a protein of 76 amino acid residues, found in all eukaryotic cells and whose sequence is extremely well conserved from protozoan to vertebrates. Ubiquitin acts through its post-translational attachment (ubiquitinylation) to other proteins, where these modifications alter the function, location or trafficking of the protein, or targets it for destruction by the 26S proteasome []. The terminal glycine in the C-terminal 4-residue tail of ubiquitin can form an isopeptide bond with a lysine residue in the target protein, or with a lysine in another ubiquitin molecule to form a ubiquitin chain that attaches itself to a target protein. Ubiquitin has seven lysine residues, any one of which can be used to link ubiquitin molecules together, resulting in different structures that alter the target protein in different ways. It appears that Lys(11)-, Lys(29) and Lys(48)-linked poly-ubiquitin chains target the protein to the proteasome for degradation, while mono-ubiquitinylated and Lys(6)- or Lys(63)-linked poly-ubiquitin chains signal reversible modifications in protein activity, location or trafficking []. For example, Lys(63)-linked poly-ubiquitinylation is known to be involved in DNA damage tolerance, inflammatory response, protein trafficking and signal transduction through kinase activation []. In addition, the length of the ubiquitin chain alters the fate of the target protein. Regulatory proteins such as transcription factors and histones are frequent targets of ubquitinylation [].; GO: 0005515 protein binding; PDB: 2DZI_A 2XEW_E 3NOB_E 2KWU_B 2Y5B_F 3PHD_G 2KWV_B 2KOX_A 2XK5_B 3NHE_B ....

>cd01790 Herp_N Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein

Probab=98.97  E-value=1.2e-09  Score=90.88  Aligned_cols=68  Identities=28%  Similarity=0.243  Sum_probs=57.3

Q ss_pred             cEEEEEEeCCCCE--EEEEecCCCCCHHHHHHHHHHhhC--CCCCCeEEEecCeecCCCCccccC------CCceeEEe
Q 012310           10 ALQLFVKLLNGKT--TTLNFTTCHVYGHEIKNRIYEATK--IPTHLQRLIYSGLQLKDRTVISDD------HITFNLVL   78 (466)
Q Consensus        10 ~MqIfVKtldGkT--~tL~V~sPs~TVsdLK~rI~e~~G--IP~e~QRLIfnGK~L~DsstLss~------gsTL~Lvl   78 (466)
                      +|.|+||+++|+.  +.+.+. ++.||.+||.+|++..+  .|++.|||||+||.|.|+.+|.++      +.|+||+.
T Consensus         1 ~i~l~IK~~~~~~~~~~ve~~-~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GKiLkD~~tL~~~~~~~~~~~tiHLV~   78 (79)
T cd01790           1 PVTLLIKSPNQKYEDQTVSCF-LNWTVGELKTHLSRVYPSKPLEQDQRLIYSGKLLPDHLKLRDVLRKQDEYHMVHLVC   78 (79)
T ss_pred             CeEEEEECCCCCeEEEEEecC-CcChHHHHHHHHHHhcCCCCChhHeEEEEcCeeccchhhHHHHhhcccCCceEEEEe
Confidence            4899999999998  555556 79999999999998874  557999999999999999888775      35888874

Herp (Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein) , is an integral membrane protein that is induced by the endoplasmic reticulum (ER) stress response pathway and is involved in improving the balance of folding capacity and protein loads in the ER. Herp has an N-terminal ubiquitin-like domain that is involved in Herp degradation, but is not necessary for its enhancement of amyloid beta-protein generation.

>cd01796 DDI1_N DNA damage inducible protein 1 ubiquitin-like domain

Probab=98.95  E-value=1.5e-09  Score=87.49  Aligned_cols=63  Identities=22%  Similarity=0.203  Sum_probs=55.9

Q ss_pred             EEEEeC-CCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCC-CccccC----CCceeE
Q 012310           13 LFVKLL-NGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDR-TVISDD----HITFNL   76 (466)
Q Consensus        13 IfVKtl-dGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~Ds-stLss~----gsTL~L   76 (466)
                      |+|+++ .|++++|.++ ++.||.+||.+|++..|||+++|+|+|+|++|.|+ .+|.+|    +++|+|
T Consensus         1 l~v~~~~~g~~~~l~v~-~~~TV~~lK~~I~~~~gip~~~q~Li~~Gk~L~D~~~~L~~~gi~~~~~l~l   69 (71)
T cd01796           1 ITVYTARSETTFSLDVD-PDLELENFKALCEAESGIPASQQQLIYNGRELVDNKRLLALYGVKDGDLVVL   69 (71)
T ss_pred             CEEEECCCCCEEEEEEC-CcCCHHHHHHHHHHHhCCCHHHeEEEECCeEccCCcccHHHcCCCCCCEEEE
Confidence            578999 9999999998 89999999999999999999999999999999887 567765    456655

DDI1_N DDI1 (DNA damage inducible protein 1) has an amino-terminal ubiquitin-like domain, an retroviral protease-like (RVP-like) domain, and a UBA (ubiquitin-associated) domain. This CD represents the amino-terminal ubiquitin-like domain of DDI1.

>KOG2827 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.94  E-value=2.3e-10  Score=113.83  Aligned_cols=165  Identities=42%  Similarity=0.570  Sum_probs=116.2

Q ss_pred             ccccCcccccccCCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCchhHHHHHHHHHHHHHHHHH
Q 012310          101 KKTNNFDACRDMSGRRLRHVNAEKKLEEWKAEEEERRLEKIAEEFLKKAAKKGKKGVGDGEAEKYVKKYRDESAVCMAKV  180 (466)
Q Consensus       101 kKt~n~daCRdL~GRRlr~Vn~ek~l~e~~~~~~~R~~Ek~~e~~~kk~~k~~k~~~~~~~~~~~~e~~~e~~e~~~~~V  180 (466)
                      +++++|++|||.++|+||||+....+..|...-.-+-.+.-+....|++.-+.+.+.++..-..|+--|....-.|.-+|
T Consensus         2 ~~~n~~~a~~d~Se~dlRHV~~De~~~~~~~~tn~qs~e~y~~~nlKklEnk~~sgd~N~~~~lRVlGGKGGFGS~LRA~   81 (322)
T KOG2827|consen    2 KKTNNFDACRDMSERDLRHVNADERLQEWKDGTNGQSLEKYALENLKKLENKVKSGDGNGATQLRVLGGKGGFGSCLRAV   81 (322)
T ss_pred             CccccccchhhhccccccccccHHHHHHHHhcccCCCcchhHHhhhHhhcCccccccccceEEEEeccCCcchHHHHHHH
Confidence            46889999999999999999999999999987655666666666666654333332222333455555555555566666


Q ss_pred             HHHHHHHHhcCcccccc----cchHHHhhhhhhccCCCCCCCCCCCCCCCCchhhhhhhhhccCCCCCCCCcccCCCCCc
Q 012310          181 EEAVRRACADGKRKAVK----SNEMEAKRMKIWMGKRKLGESDDEDSSEDDDDEENEKSIVLNNGHHSDTNKETEGSSGS  256 (466)
Q Consensus       181 ~eav~~a~~~gKrk~~~----~~~~~~kk~~~w~g~~~~~~~d~~~~~~~dd~~~~~~s~~~~~g~~~~~~~~~~~~~~~  256 (466)
                      -.++......++++...    +.-...||+++|+++...++.++++    .+....+|.+++|+|               
T Consensus        82 g~~~NestN~~~cRDL~GrRla~i~eeKrLk~wLeKqa~eere~kE----~kK~KlEKllA~p~~---------------  142 (322)
T KOG2827|consen   82 GLALNESTNNGKCRDLIGRRLAEIEEEKRLKIWLEKQAVEERESKE----SKKEKLEKLLALPNG---------------  142 (322)
T ss_pred             HHHHhhhhhhhhHhhhcccchhhhHHHHHHHHHHHhcchhhhhhHH----HHHHHHHHHcccCCc---------------
Confidence            66666665555544433    2345779999999999999887775    356677899988875               


Q ss_pred             ccCCCCCccCCCCCC-CCCCChhhhhhhhhccC
Q 012310          257 VTGGKQDRVLSGGGS-CESGSEEEKDILVQQSS  288 (466)
Q Consensus       257 v~~~~~~~~~s~~~s-~~s~s~e~~~~~~~~~~  288 (466)
                          +|+...++-.| |++++++..++.++++.
T Consensus       143 ----kHdFdD~~Yls~re~~~ekvnDAfe~g~~  171 (322)
T KOG2827|consen  143 ----KHDFDDSGYLSDRESGSEKVNDAFEHGSF  171 (322)
T ss_pred             ----cccccchhHHHHHHHhhHHHHHHHHhHHH
Confidence                44555566656 88999999999887643

>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.92  E-value=8.2e-10  Score=87.23  Aligned_cols=66  Identities=32%  Similarity=0.435  Sum_probs=59.4

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEE
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLV   77 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~Lv   77 (466)
                      |-|.|+++.|+.+-+.+. |++.|..+|.+|++..|||+.+|||+|.|++++|+.+-..|    +++|||+
T Consensus         1 m~iKvktLt~KeIeidIe-p~DkverIKErvEEkeGIPp~qqrli~~gkqm~DD~tA~~Y~~~~GSVlHlv   70 (70)
T KOG0005|consen    1 MLIKVKTLTGKEIEIDIE-PTDKVERIKERVEEKEGIPPQQQRLIYAGKQMNDDKTAAHYNLLGGSVLHLV   70 (70)
T ss_pred             CeeeEeeeccceEEEeeC-cchHHHHHHHHhhhhcCCCchhhhhhhccccccccccHHHhhhccceeEeeC
Confidence            568999999999999998 99999999999999999999999999999999998776555    5677763

>cd01812 BAG1_N Ubiquitin-like domain of BAG1

Probab=98.85  E-value=5.7e-09  Score=82.61  Aligned_cols=65  Identities=18%  Similarity=0.257  Sum_probs=58.1

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEE
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLV   77 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~Lv   77 (466)
                      |+|+|++. |+++.+.++ ++.||.+||++|++.+|+|++.|+|+|+|+.|.++.+|.+|    +++|+|+
T Consensus         1 i~i~vk~~-g~~~~i~v~-~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~l~d~~~L~~~~i~~g~~l~v~   69 (71)
T cd01812           1 IRVRVKHG-GESHDLSIS-SQATFGDLKKMLAPVTGVEPRDQKLIFKGKERDDAETLDMSGVKDGSKVMLL   69 (71)
T ss_pred             CEEEEEEC-CEEEEEEEC-CCCcHHHHHHHHHHhhCCChHHeEEeeCCcccCccCcHHHcCCCCCCEEEEe
Confidence            68999986 999999997 89999999999999999999999999999999998888776    4567664

BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).

>smart00213 UBQ Ubiquitin homologues

Probab=98.81  E-value=1e-08  Score=78.52  Aligned_cols=59  Identities=39%  Similarity=0.490  Sum_probs=54.3

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccCC
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDH   71 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~g   71 (466)
                      |+|+|++.+ .++.+.++ ++.||.+||.+|+..+++|++.|+|+|+|+.|.++.+|.+|+
T Consensus         1 ~~i~vk~~~-~~~~~~v~-~~~tv~~lk~~i~~~~~~~~~~~~L~~~g~~L~d~~tL~~~~   59 (64)
T smart00213        1 IELTVKTLD-GTITLEVK-PSDTVSELKEKIAELTGIPVEQQRLIYKGKVLEDDRTLADYN   59 (64)
T ss_pred             CEEEEEECC-ceEEEEEC-CCCcHHHHHHHHHHHHCCCHHHEEEEECCEECCCCCCHHHcC
Confidence            789999998 78999997 889999999999999999999999999999999988887664

Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression

>TIGR00601 rad23 UV excision repair protein Rad23

Probab=98.68  E-value=3.3e-08  Score=103.32  Aligned_cols=67  Identities=22%  Similarity=0.300  Sum_probs=60.5

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhC---CCCCCeEEEecCeecCCCCccccCC----CceeEEe
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATK---IPTHLQRLIYSGLQLKDRTVISDDH----ITFNLVL   78 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~G---IP~e~QRLIfnGK~L~DsstLss~g----sTL~Lvl   78 (466)
                      |+|+||++.|++++|.|. ++.||.+||.+|+...|   +|++.|+|+|+|++|.|+.+|.+|+    ++|.+++
T Consensus         1 MkItVKtl~g~~~~IeV~-~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GkiL~Dd~tL~dy~I~e~~~Ivvmv   74 (378)
T TIGR00601         1 MTLTFKTLQQQKFKIDME-PDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDDKTVREYKIKEKDFVVVMV   74 (378)
T ss_pred             CEEEEEeCCCCEEEEEeC-CcChHHHHHHHHHHhhCCCCCChhHeEEEECCEECCCCCcHHHcCCCCCCEEEEEe
Confidence            899999999999999997 89999999999999998   9999999999999999999998874    4555544

All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>cd01813 UBP_N UBP ubiquitin processing protease

Probab=98.60  E-value=9.5e-08  Score=78.02  Aligned_cols=58  Identities=21%  Similarity=0.186  Sum_probs=52.5

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEe---cCeecCCCCccccC
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIY---SGLQLKDRTVISDD   70 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIf---nGK~L~DsstLss~   70 (466)
                      |.|.|+ +.|+++.|+|+ ++.||.+||++|++.++||++.|+|+|   .|+++.|+.+|+++
T Consensus         1 ~~i~vk-~~g~~~~v~v~-~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~l~D~~~L~~~   61 (74)
T cd01813           1 VPVIVK-WGGQEYSVTTL-SEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAEDDVKISAL   61 (74)
T ss_pred             CEEEEE-ECCEEEEEEEC-CCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCCCCcCHHHc
Confidence            457777 47999999998 899999999999999999999999996   89999999988876

The UBP (ubiquitin processing protease) domain (also referred to as USP which stands for "ubiquitin-specific protease") is present at in a large family of cysteine proteases that specifically cleave ubiquitin conjugates. This family includes Rpn11, UBP6 (USP14), USP7 (HAUSP). This domain is closely related to the amino-terminal ubiquitin-like domain of BAG1 (Bcl2-associated anthanogene1) protein and is found only in eukaryotes.

>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4

Probab=98.55  E-value=7.4e-08  Score=85.01  Aligned_cols=75  Identities=16%  Similarity=0.274  Sum_probs=62.3

Q ss_pred             CcEEEEEEeCCCCE-EEEEecCCCCCHHHHHHHHH-----HhhCCC--CCCeEEEecCeecCCCCccccCC---------
Q 012310            9 KALQLFVKLLNGKT-TTLNFTTCHVYGHEIKNRIY-----EATKIP--THLQRLIYSGLQLKDRTVISDDH---------   71 (466)
Q Consensus         9 ~~MqIfVKtldGkT-~tL~V~sPs~TVsdLK~rI~-----e~~GIP--~e~QRLIfnGK~L~DsstLss~g---------   71 (466)
                      ..+.|.++..+|.- =...+. +++||.+||++|+     ...++|  +++|+|||+|++|.|+.+|.+|+         
T Consensus         3 ~~~e~kfrl~dg~digp~~~~-~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGKiLeD~~TL~d~~~p~g~~~~~   81 (113)
T cd01814           3 EQIEIKFRLYDGSDIGPKRYP-AATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGKILENSKTVGECRSPVGDIAGG   81 (113)
T ss_pred             ccEEEEEEccCCCccCccccC-hhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCeecCCCCcHHHhCCcccccCCC
Confidence            36788899999963 466676 8999999999999     445566  99999999999999999998875         


Q ss_pred             -CceeEEeeecCCC
Q 012310           72 -ITFNLVLRLLGGK   84 (466)
Q Consensus        72 -sTL~LvlRL~GGK   84 (466)
                       .|+||++|...-+
T Consensus        82 ~~TmHvvlr~~~~~   95 (113)
T cd01814          82 VITMHVVVQPPLAD   95 (113)
T ss_pred             ceEEEEEecCCCCC
Confidence             5899999976544

NTGP5 and ATGP4 are plant-specific isoprenylated GTP-binding proteins with a single fold that resembles ubiquitin. The function of these proteins is unknown.

>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1

Probab=98.38  E-value=8.9e-07  Score=72.68  Aligned_cols=60  Identities=17%  Similarity=0.186  Sum_probs=50.4

Q ss_pred             eCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecC-CCCccccC-----CCceeEEe
Q 012310           17 LLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLK-DRTVISDD-----HITFNLVL   78 (466)
Q Consensus        17 tldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~-DsstLss~-----gsTL~Lvl   78 (466)
                      ...|.++++.|. |+.||.+||.+|++.+|||+++|+| |+|+.|. |..+|.+|     |++++|.+
T Consensus         9 ~~~~~t~~l~v~-~~~TV~~lK~kI~~~~gip~~~QrL-~~G~~L~dD~~tL~~ygi~~~g~~~~l~~   74 (75)
T cd01799           9 QSHTVTIWLTVR-PDMTVAQLKDKVFLDYGFPPAVQRW-VIGQRLARDQETLYSHGIRTNGDSAFLYI   74 (75)
T ss_pred             ccCCCeEEEEEC-CCCcHHHHHHHHHHHHCcCHHHEEE-EcCCeeCCCcCCHHHcCCCCCCCEEEEEe
Confidence            345788999997 8999999999999999999999999 9999986 55777765     46777653

HOIL1_N HOIL-1 (heme-oxidized IRP2 ubiquitin ligase-1) is an E3 ubiquitin-protein ligase that recognizes heme-oxidized IRP2 (iron regulatory protein2) and is thought to affect the turnover of oxidatively damaged proteins. Hoil-1 has an amino-terminal ubiquitin-like domain as well as an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain.

>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP

Probab=98.30  E-value=6.3e-07  Score=74.07  Aligned_cols=48  Identities=23%  Similarity=0.232  Sum_probs=42.9

Q ss_pred             CCCHHHHHHHHHHhh--CCC-CCCeEEEecCeecCCCCccccC----CCceeEEe
Q 012310           31 HVYGHEIKNRIYEAT--KIP-THLQRLIYSGLQLKDRTVISDD----HITFNLVL   78 (466)
Q Consensus        31 s~TVsdLK~rI~e~~--GIP-~e~QRLIfnGK~L~DsstLss~----gsTL~Lvl   78 (466)
                      +.||.+||++|++..  ++| +++|||||+|++|.|+.+|++|    +++|||+.
T Consensus        20 ~~TV~~LK~kI~~~~~egi~~~dqQrLIy~GKiL~D~~TL~dygI~~gstlhLv~   74 (75)
T cd01815          20 GYQVSTLKQLIAAQLPDSLPDPELIDLIHCGRKLKDDQTLDFYGIQSGSTIHILR   74 (75)
T ss_pred             cCcHHHHHHHHHHhhccCCCChHHeEEEeCCcCCCCCCcHHHcCCCCCCEEEEEe
Confidence            889999999999995  575 8999999999999999999987    47888874

BMSC_UbP (bone marrow stromal cell-derived ubiquitin-like protein) has an N-terminal ubiquitin-like (UBQ) domain and a C-terminal ubiquitin-associated (UBA) domain, a domain architecture similar to those of the UBIN, Chap1, and ubiquilin proteins. This CD represents the N-terminal ubiquitin-like domain.

>PF11976 Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; InterPro: IPR022617 This entry includes small ubiquitin-related modifier (SUMO) proteins

Probab=98.29  E-value=2.2e-06  Score=68.26  Aligned_cols=67  Identities=19%  Similarity=0.299  Sum_probs=59.4

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCC-CCeEEEecCeecCCCCccccC----CCceeEEe
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPT-HLQRLIYSGLQLKDRTVISDD----HITFNLVL   78 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~-e~QRLIfnGK~L~DsstLss~----gsTL~Lvl   78 (466)
                      |+|+|++.+|+.+.+.+. +++++..|++.++++.++|. ..++|+|+|+.|.++.++.++    +++|++.+
T Consensus         1 I~i~v~~~~~~~~~~~v~-~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~L~~~~T~~~~~ied~d~Idv~I   72 (72)
T PF11976_consen    1 ITIKVRSQDGKEIKFKVK-PTTTVSKLIEKYCEKKGIPPEESIRLIFDGKRLDPNDTPEDLGIEDGDTIDVII   72 (72)
T ss_dssp             EEEEEEETTSEEEEEEEE-TTSCCHHHHHHHHHHHTTTT-TTEEEEETTEEE-TTSCHHHHT-STTEEEEEE-
T ss_pred             CEEEEEeCCCCEEEEEEC-CCCcHHHHHHHHHHhhCCCccceEEEEECCEEcCCCCCHHHCCCCCCCEEEEEC
Confidence            789999999999999998 89999999999999999999 999999999999999888764    56777653

SUMOs are small proteins that are covalently attached to lysines as post-translational modifications and are used to control multiple cellular process including signal transduction, nuclear transport and DNA replication and repair []. Unlike ubiquitin, they are not involved in protein degradation. This entry also contains the C-terminal Rad60 DNA repair protein SUMO-like domain.; PDB: 3RD2_A 2JXX_A 3RCZ_A 3GOE_A 3A4S_D 3A4R_B 2IO1_D 1U4A_A 2K1F_A 1WZ0_A ....

>cd01769 UBL Ubiquitin-like domain of UBL

Probab=98.27  E-value=2.8e-06  Score=65.75  Aligned_cols=62  Identities=40%  Similarity=0.495  Sum_probs=53.6

Q ss_pred             EEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEE
Q 012310           15 VKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLV   77 (466)
Q Consensus        15 VKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~Lv   77 (466)
                      |+..+|+++.+.+. ++.||.+||.+|....++|+..|+|+|+|+.|.++.+|.++    +++|++.
T Consensus         2 v~~~~~~~~~~~~~-~~~ti~~lK~~i~~~~~~~~~~~~l~~~g~~l~d~~~l~~~~v~~~~~i~v~   67 (69)
T cd01769           2 VKTLTGKTFELEVS-PDDTVAELKAKIAAKEGVPPEQQRLIYAGKILKDDKTLSDYGIQDGSTLHLV   67 (69)
T ss_pred             eEccCCCEEEEEEC-CCChHHHHHHHHHHHHCcChHHEEEEECCcCCCCcCCHHHCCCCCCCEEEEE
Confidence            67778999999997 79999999999999999999999999999999988888764    3455543

UBLs function by remodeling the surface of their target proteins, changing their target's half-life, enzymatic activity, protein-protein interactions, subcellular localization or other properties. At least 10 different ubiquitin-like modifications exist in mammals, and attachment of different ubls to a target leads to different biological consequences. Ubl-conjugation cascades are initiated by activating enzymes, which also coordinate the ubls with their downstream pathways.

>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]

Probab=98.19  E-value=2.6e-06  Score=90.89  Aligned_cols=71  Identities=23%  Similarity=0.251  Sum_probs=63.7

Q ss_pred             CcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeec
Q 012310            9 KALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLL   81 (466)
Q Consensus         9 ~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~   81 (466)
                      +.|.|.||+.+. ...+.|. .+.||.+||..|.+.+.+|+++++|||.||+|.|..+|.+|    +.|||||++..
T Consensus        14 ~~irV~Vkt~~d-k~~~~V~-~~ssV~qlKE~I~~~f~a~~dqlvLIfaGrILKD~dTL~~~gI~Dg~TvHLVik~~   88 (493)
T KOG0010|consen   14 SLIRVTVKTPKD-KYEVNVA-SDSSVLQLKELIAQRFGAPPDQLVLIYAGRILKDDDTLKQYGIQDGHTVHLVIKSQ   88 (493)
T ss_pred             ceeEEEEecCCc-ceeEecc-cchHHHHHHHHHHHhcCCChhHeeeeecCccccChhhHHHcCCCCCcEEEEEeccC
Confidence            458999999988 6788886 68999999999999999999999999999999999999887    45999999764

>KOG0001 consensus Ubiquitin and ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones; General function prediction only]

Probab=98.18  E-value=9.7e-06  Score=61.88  Aligned_cols=70  Identities=40%  Similarity=0.547  Sum_probs=62.1

Q ss_pred             EEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecC
Q 012310           12 QLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLG   82 (466)
Q Consensus        12 qIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~G   82 (466)
                      +++|.++.|+++.+.+. +..+|..+|.+|....++|...|+|.+.|+.|.|+.++.+|    ..+++|..++.+
T Consensus         1 ~~~~~~~~gk~~~~~~~-~~~~i~~~k~~i~~~~~~~~~~q~~~~~~~~l~d~~~l~~~~i~~~~~~~l~~~~~~   74 (75)
T KOG0001|consen    1 QIFVKTLDGKTITLEVS-PSDTIEVVKAKIRDKEGIPVDQQRLIFGGKPLEDGRTLADYNIQEGSTLHLVLSLRG   74 (75)
T ss_pred             CEEEEecCCCEEEEEec-CCCHHHHHHHHHHhhcCCCCeeEEEEECCEECcCCCcHHHhCCCCCCEEEEEEecCC
Confidence            36888899999999997 89999999999999999999999999999999999888876    457888887753

>cd01795 USP48_C USP ubiquitin-specific protease

Probab=98.07  E-value=6.5e-06  Score=71.52  Aligned_cols=58  Identities=19%  Similarity=0.096  Sum_probs=49.9

Q ss_pred             EEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCC-CCccccC----CCceeEEeeec
Q 012310           23 TTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKD-RTVISDD----HITFNLVLRLL   81 (466)
Q Consensus        23 ~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~D-sstLss~----gsTL~LvlRL~   81 (466)
                      .+|.|. |.+||.+||.+|.+.++||+..|+|+++|+.|.| +.+|++|    +++|.|.+..+
T Consensus        17 ~~L~V~-~~~TVg~LK~lImQ~f~V~P~dQkL~~dG~~L~DDsrTLssyGv~sgSvl~LlideP   79 (107)
T cd01795          17 KALLVS-ANQTLKELKIQIMHAFSVAPFDQNLSIDGKILSDDCATLGTLGVIPESVILLKADEP   79 (107)
T ss_pred             ceEEeC-ccccHHHHHHHHHHHhcCCcccceeeecCceeccCCccHHhcCCCCCCEEEEEecCC
Confidence            567786 8999999999999999999999999999999977 4788886    56888887543

The USP (ubiquitin-specific protease) family is one of at least seven deubiquitylating enzyme (DUB) families capable of deconjugating ubiquitin and ubiquitin-like adducts. While the USP's have a conserved catalytic core domain, they differ in their domain architectures. This subfamily, which includes USP31, and USP48, has a carboxy-terminal ubiquitin-like domain in addition to a DUSP (domain of ubiquitin-specific proteases) domain,

>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]

Probab=98.07  E-value=5.6e-06  Score=84.66  Aligned_cols=60  Identities=33%  Similarity=0.419  Sum_probs=57.0

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhC--CCCCCeEEEecCeecCCCCccccCC
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATK--IPTHLQRLIYSGLQLKDRTVISDDH   71 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~G--IP~e~QRLIfnGK~L~DsstLss~g   71 (466)
                      |+|+||+|.|+++++.+. |..||.+||..|+...|  +|..+|.|||+|+.|.|+.++..|.
T Consensus         1 m~lt~KtL~q~~F~iev~-Pe~tV~evK~kIet~~g~dyP~~~QkLIy~GkiL~D~~tv~Eyk   62 (340)
T KOG0011|consen    1 MKLTVKTLKQQTFTIEVK-PEDTVVEVKKKIETEKGPDYPAEQQKLIYSGKILKDETTVGEYK   62 (340)
T ss_pred             CeeEeeeccCceeEeecC-cchhHHHHHHHHHhccCCCCchhhheeeecceeccCCcchhhhc
Confidence            789999999999999997 99999999999999998  9999999999999999999988863

>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]

Probab=97.68  E-value=4.6e-05  Score=87.06  Aligned_cols=70  Identities=30%  Similarity=0.408  Sum_probs=63.4

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC---CCceeEEeeec
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD---HITFNLVLRLL   81 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~---gsTL~LvlRL~   81 (466)
                      .+|+|||||-+++++.+. ...||.+||+.|....+|+.+.|||||.||.|.|+..+..|   |-+|||+=|-+
T Consensus         3 ~~v~vktld~r~~t~~ig-~q~ti~~~~d~~r~~~ni~s~~qr~i~~grvl~~~k~vq~~~vdgk~~hlverpp   75 (1143)
T KOG4248|consen    3 PNVLVKTLDSRTRTFIIG-AQMTIKEFKDHIRASVNIPSEKQRLIYQGRVLQDDKKVQEYNVDGKVIHLVERPP   75 (1143)
T ss_pred             cceeeeecccceeEEEec-hHHHHHHHHHHHHHhcccccccceeeecceeeccchhhhhccCCCeEEEeeccCC
Confidence            459999999999999997 68899999999999999999999999999999999888877   44999998743

>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A

Probab=97.54  E-value=0.00041  Score=61.34  Aligned_cols=73  Identities=27%  Similarity=0.371  Sum_probs=54.5

Q ss_pred             cEEEEEEeCCCC-EEEEEecCCCCCHHHHHHHHHHhh-------CCCCCCeEEEecCeecCCCCccccC----C------
Q 012310           10 ALQLFVKLLNGK-TTTLNFTTCHVYGHEIKNRIYEAT-------KIPTHLQRLIYSGLQLKDRTVISDD----H------   71 (466)
Q Consensus        10 ~MqIfVKtldGk-T~tL~V~sPs~TVsdLK~rI~e~~-------GIP~e~QRLIfnGK~L~DsstLss~----g------   71 (466)
                      .+.|.++..+|. +..+.|+ +++||.+||++|...-       ...+.+.||||.||.|+|+.+|.++    +      
T Consensus         2 ~i~lkf~l~~G~d~~~~~~~-~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~tL~~~~~~~~~~~~~~   80 (111)
T PF13881_consen    2 KIELKFRLADGKDIGPFRFD-PSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNKTLSDCRLPSGETPGGP   80 (111)
T ss_dssp             SEEEEEEETTS-EEEEEEE--TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSSBTGGGT--TTSETT--
T ss_pred             eEEEEEEEeCCCcccccccC-ccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcCcHHHhCCCCCCCCCCC
Confidence            477888888999 8999997 8999999999998642       1123578999999999999998874    2      


Q ss_pred             CceeEEeeecCC
Q 012310           72 ITFNLVLRLLGG   83 (466)
Q Consensus        72 sTL~LvlRL~GG   83 (466)
                      .++||++|...-
T Consensus        81 ~vmHlvvrp~~~   92 (111)
T PF13881_consen   81 TVMHLVVRPNAP   92 (111)
T ss_dssp             EEEEEEE-SSSS
T ss_pred             EEEEEEecCCCC
Confidence            378999986533

>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B

Probab=97.50  E-value=0.00054  Score=57.24  Aligned_cols=66  Identities=12%  Similarity=0.209  Sum_probs=50.0

Q ss_pred             EEEEEEeC-CCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEE-ecCe-----ec-CCCCccccC----CCceeEE
Q 012310           11 LQLFVKLL-NGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLI-YSGL-----QL-KDRTVISDD----HITFNLV   77 (466)
Q Consensus        11 MqIfVKtl-dGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLI-fnGK-----~L-~DsstLss~----gsTL~Lv   77 (466)
                      +.|+|.+. .......+++ +..||.+||.+|...+|+|+..|+|. |.|+     .| .|..+|..|    +.+||++
T Consensus         2 v~v~i~~~~~~~~~ekr~~-~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~IhVv   79 (84)
T cd01789           2 VTVNITSSADSFSFEKKYS-RGLTIAELKKKLELVVGTPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIHVI   79 (84)
T ss_pred             EEEEEEeCCCceeeeEecC-CCCcHHHHHHHHHHHHCCCccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEEEE
Confidence            56777764 3344566687 79999999999999999999999995 7777     35 456778776    4577765

Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.

>cd00196 UBQ Ubiquitin-like proteins

Probab=97.01  E-value=0.0029  Score=45.03  Aligned_cols=62  Identities=31%  Similarity=0.399  Sum_probs=49.2

Q ss_pred             EEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCcccc----CCCceeEE
Q 012310           15 VKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD----DHITFNLV   77 (466)
Q Consensus        15 VKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss----~gsTL~Lv   77 (466)
                      |+..+|....+.+. +..|+.+|+..|....++++..+.|+++|..+.+...+..    .+++|++.
T Consensus         2 v~~~~~~~~~~~~~-~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~   67 (69)
T cd00196           2 VKLNDGKTVELLVP-SGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSLTLEDYGLQDGDELVLV   67 (69)
T ss_pred             eEecCCCEEEEEcC-CCCcHHHHHHHHHHHHCcChHHeEEEECCeECCCCCcHHHcCCCCCCEEEEE
Confidence            34447888899987 7899999999999999999999999999999887654322    34555554

Ubiquitin homologs; Includes ubiquitin and ubiquitin-like proteins. Ubiquitin-mediated proteolysis is part of the regulated turnover of proteins required for controlling cell cycle progression. Other family members are protein modifiers that perform a wide range of functions. Ubiquitination usually results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. The three-step mechanism requires an activating enzyme (E1) that forms a thiol ester with the C-terminal carboxy group, a conjugating enzyme (E2) that transiently carries the activated ubiquitin molecule as a thiol ester, and a ligase (E3) that transfers the activated ubiquitin from the E2 to the substrate lysine residue. In poly-ubiquitination, ubiquitin itself is the substrate.

>cd01788 ElonginB Ubiquitin-like domain of Elongin B

Probab=96.99  E-value=0.0023  Score=57.02  Aligned_cols=60  Identities=22%  Similarity=0.174  Sum_probs=48.5

Q ss_pred             EEEEEEeCCCC-EEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccCC
Q 012310           11 LQLFVKLLNGK-TTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDH   71 (466)
Q Consensus        11 MqIfVKtldGk-T~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~g   71 (466)
                      |.+|+..-..+ ++.+.+. ++.||-+||.+|+.....|+..|+|+-.+..|.|+.+|++++
T Consensus         1 MdvFlmIrR~KTTiF~dak-es~tVlelK~~iegI~k~pp~dQrL~kd~qvLeD~kTL~d~g   61 (119)
T cd01788           1 MDVFLMIRRHKTTIFTDAK-ESTTVYELKRIVEGILKRPPEDQRLYKDDQLLDDGKTLGDCG   61 (119)
T ss_pred             CceEEEEEecceEEEeecC-CcccHHHHHHHHHHHhcCChhHheeecCceeecccccHHHcC
Confidence            34555544445 4666665 899999999999999999999999998888899999998753

Elongin B is part of an E3 ubiquitin ligase complex called VEC that activates ubiquitylation by the E2 ubiquitin-conjugating enzyme Ubc5. VEC is composed of von Hippel-Lindau tumor suppressor protein (pVHL), elongin C, cullin 2, NEDD8, and Rbx1. ElonginB binds elonginC to form the elonginBC complex which is a positive regulator of RNA polymerase II elongation factor Elongin A. The BC complex then binds VHL (von Hippel-Lindau) tumour suppressor protein to form a VCB ternary complex. Elongin B has a ubiquitin-llike domain.

>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A

Probab=96.97  E-value=0.0034  Score=52.29  Aligned_cols=60  Identities=22%  Similarity=0.324  Sum_probs=45.9

Q ss_pred             EEEEEEeCCC--CEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEec----Cee---c-CCCCccccCC
Q 012310           11 LQLFVKLLNG--KTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYS----GLQ---L-KDRTVISDDH   71 (466)
Q Consensus        11 MqIfVKtldG--kT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfn----GK~---L-~DsstLss~g   71 (466)
                      ++|+|.+..-  .....+++ ++.||.+||.+|...+|+|+..|+|.+-    +..   + .|..+|..|+
T Consensus         2 v~l~It~~~~~~~~~ekr~~-~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~   71 (87)
T PF14560_consen    2 VKLFITSSNSKQRSVEKRFP-KSITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSKIEELDDDDATLGSYG   71 (87)
T ss_dssp             EEEEEEESSSSSSEEEEEEE-TTSBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT
T ss_pred             EEEEEEeCCCCCeeEEEEcC-CCCCHHHHHHHHHHHhCCCcccEEEEEEecCCCccccccCCCccEeecCC
Confidence            6788887655  47888998 7999999999999999999999999863    222   2 3356776653

>PLN02560 enoyl-CoA reductase

Probab=96.92  E-value=0.0027  Score=65.19  Aligned_cols=59  Identities=22%  Similarity=0.231  Sum_probs=50.0

Q ss_pred             EEEEEEeCCCCEE---EEEecCCCCCHHHHHHHHHHhhCC-CCCCeEEEec---C----eecCCCCccccC
Q 012310           11 LQLFVKLLNGKTT---TLNFTTCHVYGHEIKNRIYEATKI-PTHLQRLIYS---G----LQLKDRTVISDD   70 (466)
Q Consensus        11 MqIfVKtldGkT~---tL~V~sPs~TVsdLK~rI~e~~GI-P~e~QRLIfn---G----K~L~DsstLss~   70 (466)
                      |+|.|++.+|+.+   +|+++ ++.||.+||.+|++..++ +++.|||++.   |    ..|.|+.+|.++
T Consensus         1 M~I~Vk~~~Gk~i~~~~lev~-~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~   70 (308)
T PLN02560          1 MKVTVVSRSGREIIKGGLEVP-DSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVLDDSKSLKDY   70 (308)
T ss_pred             CEEEEEcCCCCeecceeEEcC-CCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCccccCCCCCHHhc
Confidence            6889998889886   78997 899999999999999886 8999999972   3    377888787775

>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]

Probab=96.60  E-value=0.019  Score=50.03  Aligned_cols=75  Identities=17%  Similarity=0.283  Sum_probs=62.8

Q ss_pred             CcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCcccc----CCCceeEEeeecCCC
Q 012310            9 KALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD----DHITFNLVLRLLGGK   84 (466)
Q Consensus         9 ~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss----~gsTL~LvlRL~GGK   84 (466)
                      ..+++-|+.-+|.+..+.+. -++.+.-|+...+++.|++...+|++|+|+.|....+-.+    .++.|.++....||-
T Consensus        19 ~hi~LKV~gqd~~~~~Fkik-r~t~LkKLM~aYc~r~Gl~~~s~RFlFdG~rI~~~~TP~~L~mEd~D~Iev~~~q~gG~   97 (99)
T KOG1769|consen   19 EHINLKVKGQDGSVVVFKIK-RHTPLKKLMKAYCERQGLSMNSLRFLFDGQRIRETHTPADLEMEDGDEIEVVQEQTGGF   97 (99)
T ss_pred             ceEEEEEecCCCCEEEEEee-cCChHHHHHHHHHHHcCCccceEEEEECCcCcCCCCChhhhCCcCCcEEEEEeecccCC
Confidence            55777777767778888886 6889999999999999999999999999999998876544    467888888887774

>PF11543 UN_NPL4: Nuclear pore localisation protein NPL4; InterPro: IPR024682 Npl4, along with Ufd1, forms the heterodimer adaptor complex UN, which is involved in the recruitment of p97, an AAA ATPase, for tasks involving the ubiquitin pathway

Probab=96.04  E-value=0.013  Score=48.94  Aligned_cols=45  Identities=22%  Similarity=0.261  Sum_probs=30.6

Q ss_pred             cEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEe
Q 012310           10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIY   56 (466)
Q Consensus        10 ~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIf   56 (466)
                      .|-|-|++.+|.- -|.++ |++|+.+|+++|.+.+++|...|.|..
T Consensus         4 ~milRvrS~dG~~-Rie~~-~~~t~~~L~~kI~~~l~~~~~~~~L~~   48 (80)
T PF11543_consen    4 SMILRVRSKDGMK-RIEVS-PSSTLSDLKEKISEQLSIPDSSQSLSK   48 (80)
T ss_dssp             --EEEEE-SSEEE-EEEE--TTSBHHHHHHHHHHHS---TTT---BS
T ss_pred             cEEEEEECCCCCE-EEEcC-CcccHHHHHHHHHHHcCCCCcceEEEe
Confidence            7889999999864 45776 899999999999999999999888865

Npl4 has a N-terminal ubiquitin-like domain which has within its structure a beta-grasp fold with a helical insert []. This entry represents the ubiquitin-like domain.; PDB: 2PJH_A 1WF9_A.

>cd01811 OASL_repeat1 2'-5' oligoadenylate synthetase-like protein, repeat 1 of 2

Probab=95.85  E-value=0.032  Score=46.52  Aligned_cols=68  Identities=25%  Similarity=0.223  Sum_probs=54.1

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEe---cC-ee-cCCCCccccCCCceeEEeee
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIY---SG-LQ-LKDRTVISDDHITFNLVLRL   80 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIf---nG-K~-L~DsstLss~gsTL~LvlRL   80 (466)
                      +||.|+-..+...++.|. |..+|..||.+|....+++- .|||.|   +| ++ |.+..+|+.|+.-..+.++|
T Consensus         1 iqVtV~q~g~~dl~l~vn-Py~pI~k~K~kI~~~~~~~g-~qrLsfQepgg~rqlL~s~~sLA~yGiFs~~~i~l   73 (80)
T cd01811           1 IQVTVEQTGYSDWILRVN-PYSPIRKIKEKIRRSRNCSG-LQRLSFQEPGGERQLLSSRKSLADYGIFSKTNICL   73 (80)
T ss_pred             CEEEeeecCCCceEEEeC-CcchHHHHHHHHHHhhCccc-ceEEEeecCCcccccccccccHhhhcceeccEEEE
Confidence            589999887778999998 99999999999999999987 899998   23 33 56668888887644444444

OASL_repeat1 (2'-5' oligoadenylate synthetase-like protein) belongs to a family of interferon-induced 2'-5' oligoadenylate synthetases which are important for the antiviral activity of interferons. While each member of this famliy has a conserved N-terminal OAS catalytic domain, only OASL has two tandem ubiquitin-like repeats located at the C-terminus and this CD represents one of those repeats.

>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]

Probab=95.85  E-value=0.014  Score=60.07  Aligned_cols=58  Identities=16%  Similarity=0.377  Sum_probs=47.3

Q ss_pred             EEEEEEeC-CCCE--EEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCcccc
Q 012310           11 LQLFVKLL-NGKT--TTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD   69 (466)
Q Consensus        11 MqIfVKtl-dGkT--~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss   69 (466)
                      |.|||+.- .|.+  ++|.|. .+.+|.+||..++.++|||+++.++||.|+.|.++.++.+
T Consensus         1 m~~lvqf~~~~~~h~l~v~v~-~~t~I~~lke~Vak~~gvp~D~L~viFaGKeLs~~ttv~~   61 (446)
T KOG0006|consen    1 MIVLVQFNKTGSSHGLPVEVD-SDTSIFQLKEVVAKRQGVPADQLRVIFAGKELSNDTTVQN   61 (446)
T ss_pred             CeEEEEeCCccccCceeEEEe-cCCCHHHHHHHHHHhhCCChhheEEEEeccccccCceeec
Confidence            56788753 2333  566666 4778999999999999999999999999999999877664

>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13

Probab=95.61  E-value=0.03  Score=45.68  Aligned_cols=46  Identities=22%  Similarity=0.243  Sum_probs=37.4

Q ss_pred             EEecCCCCCHHHHHHHHHHhhC-CCCCCeEEE--ecCeecCCCCccccC
Q 012310           25 LNFTTCHVYGHEIKNRIYEATK-IPTHLQRLI--YSGLQLKDRTVISDD   70 (466)
Q Consensus        25 L~V~sPs~TVsdLK~rI~e~~G-IP~e~QRLI--fnGK~L~DsstLss~   70 (466)
                      +.+..++.||.+||..|+...+ +|++.|||.  +.|+.|.++.+|.++
T Consensus        16 ~~~~~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~~L~d~~tL~~~   64 (77)
T cd01801          16 LKVSSGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGKSLKDDDTLVDL   64 (77)
T ss_pred             cccCCCCccHHHHHHHHHHHcCCCCcceeEEEeCCCCcccCCcccHhhc
Confidence            4444468999999999998865 588999885  789999988888776

Tsc13_N N-terminal domain of Tsc13. Tsc13 is an enoyl reductase involved in elongation of long chain fatty acids that localizes to the endoplasmic reticulum and is highly enriched in a novel structure marking nuclear-vacuolar junctions.

>PF10302 DUF2407: DUF2407 ubiquitin-like domain; InterPro: IPR019413 This entry represents a family of proteins of unknown function found in fungi

Probab=95.58  E-value=0.03  Score=48.55  Aligned_cols=56  Identities=25%  Similarity=0.259  Sum_probs=40.8

Q ss_pred             EEEEeCCCCE-EEEEecCC-CCCHHHHHHHHHHhhC--CCCCCeEEEecCeecCCCCccc
Q 012310           13 LFVKLLNGKT-TTLNFTTC-HVYGHEIKNRIYEATK--IPTHLQRLIYSGLQLKDRTVIS   68 (466)
Q Consensus        13 IfVKtldGkT-~tL~V~sP-s~TVsdLK~rI~e~~G--IP~e~QRLIfnGK~L~DsstLs   68 (466)
                      |.|++-++-. ..|++++| +.||..||++|.+..+  .....+||||+|+.|+|...|.
T Consensus         3 l~IRFs~sipDl~L~I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d~t~l~   62 (97)
T PF10302_consen    3 LTIRFSDSIPDLPLDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDHTDLS   62 (97)
T ss_pred             EEEEECCCCCCceeecCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCccchhh
Confidence            5566555432 56766645 7899999999998873  2234678999999999987664

They contain a characteristic GFDRL sequence motif.

>PF00789 UBX: UBX domain; InterPro: IPR001012 The UBX domain is found in ubiquitin-regulatory proteins, which are members of the ubiquitination pathway, as well as a number of other proteins including FAF-1 (FAS-associated factor 1), the human Rep-8 reproduction protein and several hypothetical proteins from yeast

Probab=94.49  E-value=0.37  Score=39.30  Aligned_cols=61  Identities=15%  Similarity=0.225  Sum_probs=49.5

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCC-eEEE--ecCeecCCC--Ccccc
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHL-QRLI--YSGLQLKDR--TVISD   69 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~-QRLI--fnGK~L~Ds--stLss   69 (466)
                      .....|-|+.++|..+...|. +++||.+|.+.|......+... +.|+  |-.+.|.+.  .+|.+
T Consensus         4 ~~~~~I~vRlpdG~~l~~~F~-~~~tl~~l~~~v~~~~~~~~~~~f~L~~~~Pr~~l~~~~~~tl~e   69 (82)
T PF00789_consen    4 SDVVRIQVRLPDGSRLQRRFP-KSDTLQDLYDFVESQLFSPEESDFELITAFPRRELTDEDSKTLEE   69 (82)
T ss_dssp             SSEEEEEEEETTSTEEEEEEE-TTSBHHHHHHHHHHHHHCTTTSSEEEEESSSTEECCSTTTSBTCC
T ss_pred             CCEEEEEEECCCCCEEEEEEC-CcchHHHHHHHHHHhcCCCCCccEEEEeCCCCcCCCccccccHHH
Confidence            457899999999999999998 8999999999999887777765 7776  456777654  36655

The function of the UBX domain is not known although the fragment of avian FAF-1 containing the UBX domain causes apoptosis of transfected cells.; GO: 0005515 protein binding; PDB: 3QX1_A 1H8C_A 3QCA_B 3QQ8_B 3QC8_B 3R3M_A 3QWZ_B 1S3S_H 1JRU_A 1I42_A ....

>PF11470 TUG-UBL1: GLUT4 regulating protein TUG; InterPro: IPR021569 TUG is a GLUT4 regulating protein and functions to retain membrane vesicles containing GLUT4 intracellularly

Probab=93.62  E-value=0.22  Score=40.34  Aligned_cols=49  Identities=8%  Similarity=-0.067  Sum_probs=36.6

Q ss_pred             eCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCc
Q 012310           17 LLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTV   66 (466)
Q Consensus        17 tldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~Dsst   66 (466)
                      ..+++...+.+. |+.++.+|.+..++++++.++...|.|+++.|+.+.+
T Consensus         3 ~~~~rr~~vkvt-p~~~l~~VL~eac~k~~l~~~~~~L~h~~k~ldlslp   51 (65)
T PF11470_consen    3 CYNFRRFKVKVT-PNTTLNQVLEEACKKFGLDPSSYDLKHNNKPLDLSLP   51 (65)
T ss_dssp             -TTS-EEEE----TTSBHHHHHHHHHHHTT--GGG-EEEETTEEESSS-B
T ss_pred             ccCCcEEEEEEC-CCCCHHHHHHHHHHHcCCCccceEEEECCEEeccccc
Confidence            467899999997 9999999999999999999999999999999966543

TUG releases the GLUT4 containing vesicles to the cellular exocytic machinery in response to insulin stimulation which allows translocation to the plasma membrane []. TUG has an N-terminal ubiquitin-like domain (UBL1) which in similar proteins appears to participate in protein-protein interactions []. The region does have a area of negative electrostatic potential and increased backbone motility which leads to suggestions of a potential protein-protein interaction site []. ; PDB: 2AL3_A.

>PRK08364 sulfur carrier protein ThiS; Provisional

Probab=90.09  E-value=1.9  Score=34.80  Aligned_cols=65  Identities=12%  Similarity=0.142  Sum_probs=46.1

Q ss_pred             cEEEEEEeCCCC--EEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccCCCceeEEeeecCC
Q 012310           10 ALQLFVKLLNGK--TTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDHITFNLVLRLLGG   83 (466)
Q Consensus        10 ~MqIfVKtldGk--T~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~gsTL~LvlRL~GG   83 (466)
                      +|.|+|   +|+  ...+.++ +..|+.+|.+.+    +++.....+..||..+..+..| ..++.+.+.....||
T Consensus         4 mm~v~v---ng~~~~~~~~~~-~~~tv~~ll~~l----~~~~~~v~v~vNg~iv~~~~~l-~~gD~Veii~~V~GG   70 (70)
T PRK08364          4 MIRVKV---IGRGIEKEIEWR-KGMKVADILRAV----GFNTESAIAKVNGKVALEDDPV-KDGDYVEVIPVVSGG   70 (70)
T ss_pred             EEEEEE---eccccceEEEcC-CCCcHHHHHHHc----CCCCccEEEEECCEECCCCcCc-CCCCEEEEEccccCC
Confidence            355655   355  5667776 567899988765    6777777777899999766655 457788777777665

>PF09379 FERM_N: FERM N-terminal domain ; InterPro: IPR018979 This domain is the N-terminal ubiquitin-like structural domain of the FERM domain

Probab=89.81  E-value=1.5  Score=35.13  Aligned_cols=54  Identities=20%  Similarity=0.332  Sum_probs=41.2

Q ss_pred             EEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCC-eEEEe----cC--eecCCCCcccc
Q 012310           15 VKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHL-QRLIY----SG--LQLKDRTVISD   69 (466)
Q Consensus        15 VKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~-QRLIf----nG--K~L~DsstLss   69 (466)
                      |+.+||...++.++ +++|+.+|.+.|++..+|.... +-|.+    +|  ..|..+..|..
T Consensus         1 V~llD~~~~~~~v~-~~~t~~~l~~~v~~~l~l~e~~~FgL~~~~~~~~~~~wL~~~k~l~~   61 (80)
T PF09379_consen    1 VRLLDGTTKTFEVD-PKTTGQDLLEQVCDKLGLKEKEYFGLQYQVDKDGEHHWLDLDKKLKK   61 (80)
T ss_dssp             EEESSEEEEEEEEE-TTSBHHHHHHHHHHHHTTSSGGGEEEEE-EBTTSSEEEE-SSSBGGG
T ss_pred             CCCcCCCcEEEEEc-CCCcHHHHHHHHHHHcCCCCccEEEEEEeecCCCcceeccCcccHHH
Confidence            67899999999998 8999999999999999998643 45766    22  33555655544

The FERM domain (F for 4.1 protein, E for ezrin, R for radixin and M for moesin) is a widespread protein module involved in localising proteins to the plasma membrane []. FERM domains are found in a number of cytoskeletal-associated proteins that associate with various proteins at the interface between the plasma membrane and the cytoskeleton. The FERM domain is located at the N terminus of the majority of FERM-containing proteins [, ], which includes: Band 4.1, which links the spectrin-actin cytoskeleton of erythrocytes to the plasma membrane. Ezrin, a component of the undercoat of the microvilli plasma membrane. Moesin, which is probably involved in binding major cytoskeletal structures to the plasma membrane. Radixin, which is involved in the binding of the barbed end of actin filaments to the plasma membrane in the undercoat of the cell- to-cell adherens junction. Talin, a cytoskeletal protein concentrated in regions of cell-substratum contact and, in lymphocytes, of cell-cell contacts. Filopodin, a slime mold protein that binds actin and which is involved in the control of cell motility and chemotaxis. Merlin (or schwannomin). Protein NBL4. Unconventional myosins X, VIIa and XV, which are mutated in congenital deafness. Focal-adhesion kinases (FAKs), cytoplasmic protein tyrosine kinases involved in signalling through integrins. Janus tyrosine kinases (JAKs), cytoplasmic tyrosine kinases that are non-covalently associated with the cytoplasmic tails of receptors for cytokines or polypeptidic hormones. Non-receptor tyrosine-protein kinase TYK2. Protein-tyrosine phosphatases PTPN3 and PTPN4, enzyme that appear to act at junctions between the membrane and the cytoskeleton. Protein-tyrosine phosphatases PTPN14 and PTP-D1, PTP-RL10 and PTP2E. Caenorhabditis elegans protein phosphatase ptp-1. Ezrin, moesin, and radixin are highly related proteins (ERM protein family), but the other proteins in which the FERM domain is found do not share any region of similarity outside of this domain. ERM proteins are made of three domains, the FERM domain, a central helical domain and a C-terminal tail domain, which binds F-actin. The amino-acid sequence of the FERM domain is highly conserved among ERM proteins and is responsible for membrane association by direct binding to the cytoplasmic domain or tail of integral membrane proteins. ERM proteins are regulated by an intramolecular association of the FERM and C-terminal tail domains that masks their binding sites for other molecules. For cytoskeleton-membrane cross-linking, the dormant molecules becomes activated and the FERM domain attaches to the membrane by binding specific membrane proteins, while the last 34 residues of the tail bind actin filaments. Aside from binding to membranes, the activated FERM domain of ERM proteins can also bind the guanine nucleotide dissociation inhibitor of Rho GTPase (RhoDGI), which suggests that in addition to functioning as a cross-linker, ERM proteins may influence Rho signalling pathways. The crystal structure of the FERM domain reveals that it is composed of three structural modules (F1, F2, and F3) that together form a compact clover-shaped structure []. The FERM domain has also been called the amino-terminal domain, the 30kDa domain, 4.1N30, the membrane-cytoskeletal-linking domain, the ERM-like domain, the ezrin-like domain of the band 4.1 superfamily, the conserved N-terminal region, and the membrane attachment domain [].; PDB: 1EF1_B 1SGH_A 1E5W_A 2KC2_A 2KMA_A 3IVF_A 1H4R_B 3U8Z_A 1ISN_A 3BIN_A ....

>PLN02799 Molybdopterin synthase sulfur carrier subunit

Probab=89.31  E-value=1.4  Score=36.11  Aligned_cols=72  Identities=11%  Similarity=0.164  Sum_probs=49.2

Q ss_pred             cEEEEEEeCC------C-CEEEEEecCCCCCHHHHHHHHHHhhC-CCC--CCeEEEecCeecCCCCccccCCCceeEEee
Q 012310           10 ALQLFVKLLN------G-KTTTLNFTTCHVYGHEIKNRIYEATK-IPT--HLQRLIYSGLQLKDRTVISDDHITFNLVLR   79 (466)
Q Consensus        10 ~MqIfVKtld------G-kT~tL~V~sPs~TVsdLK~rI~e~~G-IP~--e~QRLIfnGK~L~DsstLss~gsTL~LvlR   79 (466)
                      +|+|.|+.|.      | ...++.++ ...|+.+|++.|..... +..  ....+..||+.+.++..| ..++.|.+.++
T Consensus         1 ~m~i~V~~fa~~re~~g~~~~~~~~~-~~~tv~~L~~~l~~~~p~l~~~~~~~~vavN~~~v~~~~~l-~dgDeVai~Pp   78 (82)
T PLN02799          1 SVEIKVLFFARARELTGVSDMTLELP-AGSTTADCLAELVAKFPSLEEVRSCCVLALNEEYTTESAAL-KDGDELAIIPP   78 (82)
T ss_pred             CeEEEEEehHHHHHHhCCCeEEEECC-CCCcHHHHHHHHHHHChhHHHHhhCcEEEECCEEcCCCcCc-CCCCEEEEeCC
Confidence            3778888753      4 35677776 57899999999976541 111  112356788887655555 45889989998


Q ss_pred             ecCC
Q 012310           80 LLGG   83 (466)
Q Consensus        80 L~GG   83 (466)
                      ..||
T Consensus        79 vsGG   82 (82)
T PLN02799         79 ISGG   82 (82)
T ss_pred             CCCC
Confidence            8887

>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]

Probab=88.65  E-value=0.94  Score=39.28  Aligned_cols=62  Identities=11%  Similarity=0.097  Sum_probs=53.1

Q ss_pred             CCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCcccc
Q 012310            7 SPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD   69 (466)
Q Consensus         7 s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss   69 (466)
                      ++..|++.|.--+|..+.+.+. .+++...|....+.+.|-..+.+|++|+|+.|..+.+-.+
T Consensus        21 ~t~hinLkvv~qd~telfFkiK-ktT~f~klm~af~~rqGK~m~slRfL~dG~rI~~dqTP~d   82 (103)
T COG5227          21 ITKHINLKVVDQDGTELFFKIK-KTTTFKKLMDAFSRRQGKNMSSLRFLFDGKRIDLDQTPGD   82 (103)
T ss_pred             cccccceEEecCCCCEEEEEEe-ccchHHHHHHHHHHHhCcCcceeEEEEcceecCCCCChhh
Confidence            4556778887778888888887 6889999999999999999999999999999988877544

>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]

Probab=88.35  E-value=0.64  Score=40.69  Aligned_cols=57  Identities=23%  Similarity=0.250  Sum_probs=42.3

Q ss_pred             EEEEEeCCCCE-EEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEe-cC-eecCCCCcccc
Q 012310           12 QLFVKLLNGKT-TTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIY-SG-LQLKDRTVISD   69 (466)
Q Consensus        12 qIfVKtldGkT-~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIf-nG-K~L~DsstLss   69 (466)
                      .+|++.-..++ +.+... ++.||-+||.++.-...-|++.|+|+. .- +.|.|+.+|++
T Consensus         2 ~~f~~VrR~kttif~da~-es~tV~elK~~l~gi~~~Pvn~qrL~kmd~eqlL~D~ktL~d   61 (110)
T KOG4495|consen    2 DVFLRVRRHKTTIFTDAK-ESSTVFELKRKLEGILKRPVNEQRLYKMDTEQLLDDGKTLGD   61 (110)
T ss_pred             ceeeeeeecceeEEeecC-ccccHHHHHHHHHHHHhCCCcchheeecCHHHHhhccchhhh
Confidence            34555444554 455554 899999999999999999999999986 33 56677777754

>PRK06437 hypothetical protein; Provisional

Probab=88.33  E-value=2.7  Score=33.78  Aligned_cols=64  Identities=9%  Similarity=0.143  Sum_probs=45.4

Q ss_pred             EEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccCCCceeEEeeecCC
Q 012310           14 FVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDHITFNLVLRLLGG   83 (466)
Q Consensus        14 fVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~gsTL~LvlRL~GG   83 (466)
                      +|+.-.++...+.++ ...|+.+|...    +++++...-+..||..+..+..|. .++.|.++.-.-||
T Consensus         4 ~~~v~g~~~~~~~i~-~~~tv~dLL~~----Lgi~~~~vaV~vNg~iv~~~~~L~-dgD~Veiv~~V~GG   67 (67)
T PRK06437          4 MIRVKGHINKTIEID-HELTVNDIIKD----LGLDEEEYVVIVNGSPVLEDHNVK-KEDDVLILEVFSGG   67 (67)
T ss_pred             eEEecCCcceEEEcC-CCCcHHHHHHH----cCCCCccEEEEECCEECCCceEcC-CCCEEEEEecccCC
Confidence            343334566778776 56789998765    578888888889999998666664 57778776655554

>smart00166 UBX Domain present in ubiquitin-regulatory proteins

Probab=87.58  E-value=2.6  Score=34.53  Aligned_cols=54  Identities=11%  Similarity=0.025  Sum_probs=43.3

Q ss_pred             CcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEe--cCeecCC
Q 012310            9 KALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIY--SGLQLKD   63 (466)
Q Consensus         9 ~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIf--nGK~L~D   63 (466)
                      ....|.||+++|..+...|. ++.||.+|.+.|....+.....+.|+.  ..+.+.+
T Consensus         3 ~~~~I~iRlPdG~ri~~~F~-~~~tl~~v~~~v~~~~~~~~~~f~L~t~~Prk~l~~   58 (80)
T smart00166        3 DQCRLQIRLPDGSRLVRRFP-SSDTLRTVYEFVSAALTDGNDPFTLNSPFPRRTFTK   58 (80)
T ss_pred             CeEEEEEEcCCCCEEEEEeC-CCCcHHHHHHHHHHcccCCCCCEEEEeCCCCcCCcc
Confidence            36789999999999999997 799999999999766666666777764  4566654

Present in FAF1 and Shp1p.

>KOG1872 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]

Probab=86.04  E-value=1.7  Score=47.27  Aligned_cols=66  Identities=18%  Similarity=0.261  Sum_probs=50.4

Q ss_pred             cEEEEEEeCCCCEEEEE-ecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCcc----ccCCCceeEE
Q 012310           10 ALQLFVKLLNGKTTTLN-FTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVI----SDDHITFNLV   77 (466)
Q Consensus        10 ~MqIfVKtldGkT~tL~-V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstL----ss~gsTL~Lv   77 (466)
                      ...|.|+- .|+...+. +. .+.|+..||++|...+|+||+.|+|++.|.++.|+-.+    .-++.+|+|+
T Consensus         3 ~~~v~VKW-~gk~y~v~~l~-~d~t~~vlKaqlf~LTgV~PeRQKv~vKGg~a~dd~~~~al~iKpn~~lmMm   73 (473)
T KOG1872|consen    3 SDTVIVKW-GGKKYPVETLS-TDETPSVLKAQLFALTGVPPERQKVMVKGGLAKDDVDWGALQIKPNETLMMM   73 (473)
T ss_pred             cceEeeee-cCccccceecc-CCCchHHHHHHHHHhcCCCccceeEEEecccccccccccccccCCCCEEEee
Confidence            34577775 46766666 54 68899999999999999999999999999999887222    2256666554

>cd01767 UBX UBX (ubiquitin regulatory X) domain

Probab=85.32  E-value=4.1  Score=32.98  Aligned_cols=52  Identities=13%  Similarity=0.160  Sum_probs=40.2

Q ss_pred             cEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEe--cCeecCC
Q 012310           10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIY--SGLQLKD   63 (466)
Q Consensus        10 ~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIf--nGK~L~D   63 (466)
                      ...|.|++++|..+...|. +++||.+|.+.|...... ...+.|+.  -.+.+.+
T Consensus         2 ~t~i~iRlpdG~~~~~~F~-~~~tl~~l~~fv~~~~~~-~~~f~L~t~~Pr~~~~~   55 (77)
T cd01767           2 TTKIQIRLPDGKRLEQRFN-STHKLSDVRDFVESNGPP-AEPFTLMTSFPRRVLTD   55 (77)
T ss_pred             cEEEEEEcCCCCEEEEEeC-CCCCHHHHHHHHHHcCCC-CCCEEEEeCCCCccCCC
Confidence            4679999999999999997 799999999999876433 44566764  4565644

The UBX (ubiquitin regulatory X) domain has a beta-grasp fold that is structurally quite similar to ubiquitin although UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins. Most UBX-containing proteins including p47, FAF1, and SAKS1 (Y33K) also contain a UBA (ubiquitin-associated) domain and are thought to serve as adaptor molecules that shuttle proteins to the proteasome for degradation.

>smart00295 B41 Band 4

Probab=83.94  E-value=7.9  Score=35.80  Aligned_cols=41  Identities=22%  Similarity=0.243  Sum_probs=36.8

Q ss_pred             CcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCC
Q 012310            9 KALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTH   50 (466)
Q Consensus         9 ~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e   50 (466)
                      .++.|.|..++|.+..+.+. +++|+.+|...|+.+.||+..
T Consensus         2 ~~~~~~V~l~dg~~~~~~~~-~~~t~~ev~~~v~~~~~l~~~   42 (207)
T smart00295        2 KPRVLKVYLLDGTTLEFEVD-SSTTAEELLETVCRKLGIRES   42 (207)
T ss_pred             CcEEEEEEecCCCEEEEEEC-CCCCHHHHHHHHHHHhCCCcc
Confidence            46788899999999999997 789999999999999999764

1 homologues. Also known as ezrin/radixin/moesin (ERM) protein domains. Present in myosins, ezrin, radixin, moesin, protein tyrosine phosphatases. Plasma membrane-binding domain. These proteins play structural and regulatory roles in the assembly and stabilization of specialized plasmamembrane domains. Some PDZ domain containing proteins bind one or more of this family. Now includes JAKs.

>KOG4583 consensus Membrane-associated ER protein involved in stress response (contains ubiquitin-like domain) [Posttranslational modification, protein turnover, chaperones]

Probab=83.85  E-value=0.74  Score=48.16  Aligned_cols=68  Identities=26%  Similarity=0.289  Sum_probs=49.6

Q ss_pred             CCCCCCCCCcEEEEEEeCCCCEEEEEecCC-CCCHHHHHHHHHHhhCC-C-CCCeEEEecCeecCCCCcccc
Q 012310            1 MEDQATSPKALQLFVKLLNGKTTTLNFTTC-HVYGHEIKNRIYEATKI-P-THLQRLIYSGLQLKDRTVISD   69 (466)
Q Consensus         1 M~~~~~s~~~MqIfVKtldGkT~tL~V~sP-s~TVsdLK~rI~e~~GI-P-~e~QRLIfnGK~L~DsstLss   69 (466)
                      |+++ -.+....+|||..+.+-.-|++.+. ..||.+||..++....- | ..+|||+|.|+.|.|...|.+
T Consensus         1 meq~-~~e~~v~lliks~Nq~y~dl~i~~dl~wtv~~Lk~hls~VyPskpl~~dqrliYsgkllld~qcl~d   71 (391)
T KOG4583|consen    1 MEQT-IFEFPVTLLIKSPNQSYKDLSISLDLKWTVGDLKVHLSQVYPSKPLELDQRLIYSGKLLLDHQCLTD   71 (391)
T ss_pred             CCcc-cCCcceEEEecCCCccccceeeehhhhhhHHHHhhhHhhcCCCCCchhhHHHHhhccccccchhHHH
Confidence            6663 2456788999998887655555433 67999999999876432 1 247999999999999766654

>cd00754 MoaD Ubiquitin domain of MoaD-like proteins

Probab=83.74  E-value=4.1  Score=32.59  Aligned_cols=59  Identities=14%  Similarity=0.080  Sum_probs=42.7

Q ss_pred             EEEEecCCCCCHHHHHHHHHHhhCC----CCCCeEEEecCeecCCCCccccCCCceeEEeeecCC
Q 012310           23 TTLNFTTCHVYGHEIKNRIYEATKI----PTHLQRLIYSGLQLKDRTVISDDHITFNLVLRLLGG   83 (466)
Q Consensus        23 ~tL~V~sPs~TVsdLK~rI~e~~GI----P~e~QRLIfnGK~L~DsstLss~gsTL~LvlRL~GG   83 (466)
                      ..+.++ ...||.+|.+.+....+-    ......+..||+.+..+..| ..++.|.+.++..||
T Consensus        18 ~~~~~~-~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~~~~~l-~~gD~v~i~ppv~GG   80 (80)
T cd00754          18 EELELP-EGATVGELLDALEARYPGLLEELLARVRIAVNGEYVRLDTPL-KDGDEVAIIPPVSGG   80 (80)
T ss_pred             EEEECC-CCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcCCCccc-CCCCEEEEeCCCCCC
Confidence            556665 478999999999877532    22344566799998865554 457899999998887

MoaD family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor of a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and eukaryotes. Moco contains a tricyclic pyranopterin, termed molybdopterin (MPT), that contains the cis-dithiolene group responsible for molybdenum ligation. This dithiolene group is generated by MPT synthase, the second major step in Moco biosynthesis. MPT synthase consists of a large (MoeE) and small (MoaD) subunit. The small subunit is inserted into the lare subunit to form the active site. The small subunit, which is structurally similar to ubiquitin, contains a C-terminal thiocarboxylated glycine residue that serves as a sulfur donor for the synthesis of the MPT dithiolene group.

>cd01774 Faf1_like2_UBX Faf1 ike-2 UBX domain

Probab=83.43  E-value=5  Score=33.81  Aligned_cols=52  Identities=15%  Similarity=0.155  Sum_probs=41.9

Q ss_pred             CcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecC--eecC
Q 012310            9 KALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSG--LQLK   62 (466)
Q Consensus         9 ~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnG--K~L~   62 (466)
                      ..+.|.|++++|..+.-.|. .+.||.+|.+.|... +..+..+.|+++=  +.+.
T Consensus         3 ~~~~I~iRlp~G~Rl~rrF~-~~~tl~~l~~fv~~~-~~~~~~f~L~t~FPrr~~~   56 (85)
T cd01774           3 DTVKIVFKLPNGTRVERRFL-FTQSLRVIHDFLFSL-KETPEKFQIVTNFPRRVLP   56 (85)
T ss_pred             ceEEEEEECCCCCEEEEEeC-CCCcHHHHHHHHHhC-CCCCCcEEEecCCCCcccc
Confidence            46889999999999999997 789999999999754 4455778888654  6664

Faf1_like2 is a protein of unknown function with a domain architecture that includes the UAS (ubiquitin-associated) and UBX (ubiquitin-like) domains. This protein is related to other UBA/UBX-containing proteins like Faf1, p47, and SAKS1 and may serve as an adaptor molecule that shuttles proteins to the proteasome for degradation. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.

>PF12754 Blt1: Cell-cycle control medial ring component; InterPro: IPR024737 During size-dependent cell cycle transitions controlled by the ubiquitous cyclin-dependent kinase Cdk1, Blt1 has been shown to co-localise with Cdr2 in the medial interphase nodes, as well as with Mid1 which was previously shown to localise to similar interphase structures

Probab=83.03  E-value=0.37  Score=49.72  Aligned_cols=62  Identities=15%  Similarity=0.346  Sum_probs=0.0

Q ss_pred             CCcEEEEEEeCCCCEEEEEecC--C--CCCHHHHHHHHHH----------hhCCCCCCeE-----EEecCeecCCCCccc
Q 012310            8 PKALQLFVKLLNGKTTTLNFTT--C--HVYGHEIKNRIYE----------ATKIPTHLQR-----LIYSGLQLKDRTVIS   68 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~s--P--s~TVsdLK~rI~e----------~~GIP~e~QR-----LIfnGK~L~DsstLs   68 (466)
                      +..|.|.+|++..-.+.+.+..  |  +.||.+||..|++          ..+||.+..+     |.|+-+++.++.+|.
T Consensus        76 ~~sItV~Lks~rnp~l~i~L~~~~plattSv~dlk~~v~~rv~~~~~~~~~~~vp~dKik~~~~~lL~~kkPv~~~ktl~  155 (309)
T PF12754_consen   76 SKSITVHLKSLRNPPLDISLPNVPPLATTSVQDLKDAVQQRVHPSQATYDETRVPLDKIKNFRCRLLYKKKPVGDSKTLA  155 (309)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CceEEEEeecCCCCCceeEeCCCCcCCcCcHHHHHHHHHhhhcccccccccccCCHHHhhhhhhhheecCccCCCcCcHH
Confidence            4567888888766555444432  2  6899999999999          8999999887     999999998877765


Q ss_pred             c
Q 012310           69 D   69 (466)
Q Consensus        69 s   69 (466)
                      +
T Consensus       156 e  156 (309)
T PF12754_consen  156 E  156 (309)
T ss_dssp             -
T ss_pred             H
Confidence            4

Physical interactions between Blt1-Mid1, Blt1-Cdr2 and Cdr2-Mid1 were detected, indicating that medial cortical nodes are formed by the ordered, Cdr2-dependent assembly of multiple interacting proteins during interphase[].; PDB: 2LO0_A.

>cd01771 Faf1_UBX Faf1 UBX domain

Probab=82.92  E-value=5.3  Score=33.32  Aligned_cols=52  Identities=15%  Similarity=0.083  Sum_probs=42.5

Q ss_pred             CcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEe--cCeecC
Q 012310            9 KALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIY--SGLQLK   62 (466)
Q Consensus         9 ~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIf--nGK~L~   62 (466)
                      ...+|.|++++|....-+|. .++++.+|.+.|... +.+...++|+.  --+.+.
T Consensus         3 ~~~~i~iRlP~G~r~~rrF~-~t~~L~~l~~fv~~~-~~~~~~f~L~t~fPRk~~~   56 (80)
T cd01771           3 PISKLRVRTPSGDFLERRFL-GDTPLQVLLNFVASK-GYPIDEYKLLSSWPRRDLT   56 (80)
T ss_pred             CeEEEEEECCCCCEEEEEeC-CCCcHHHHHHHHHhc-CCCCCCEEEecCCCCCCCc
Confidence            36789999999999999997 799999999999874 67777888873  456553

Faf1 (fas-associated factor1) is a nucleolar protein that was first identified as an interaction partner of the death receptor Fas. Faf1 contains N-terminal UAS (ubiquitin-associated) and C-terminal UBX (ubiquitin-like) domains and is closely related to other UBA/UBX-containing proteins like p47, Rep8 and SAKS1. Faf1 is thought to be involved in 18S rRNA synthesis and/or 40S ribosomal subunit assembly. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.

>smart00455 RBD Raf-like Ras-binding domain

Probab=81.87  E-value=7.5  Score=31.65  Aligned_cols=45  Identities=9%  Similarity=0.019  Sum_probs=39.5

Q ss_pred             EEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecC
Q 012310           13 LFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSG   58 (466)
Q Consensus        13 IfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnG   58 (466)
                      +.|-.++|+...+.+. |..|+.++...|+++.|+.++...|++.|
T Consensus         2 ~~v~LP~~~~~~V~vr-pg~tl~e~L~~~~~kr~l~~~~~~v~~~g   46 (70)
T smart00455        2 CKVHLPDNQRTVVKVR-PGKTVRDALAKALKKRGLNPECCVVRLRG   46 (70)
T ss_pred             eEEECCCCCEEEEEEC-CCCCHHHHHHHHHHHcCCCHHHEEEEEcC
Confidence            3466789999999997 99999999999999999999888888744

>cd01773 Faf1_like1_UBX Faf1 ike-1 UBX domain

Probab=81.50  E-value=7.3  Score=33.00  Aligned_cols=53  Identities=11%  Similarity=0.162  Sum_probs=43.3

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEe--cCeecC
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIY--SGLQLK   62 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIf--nGK~L~   62 (466)
                      ...-+|.|++++|....-.|. .+.++.+|...|.. .|.+...+.|+.  --|.+.
T Consensus         3 ~~~t~i~vRlP~G~r~~rrF~-~~~~L~~v~~fv~~-~g~~~~~f~L~t~FPRr~~~   57 (82)
T cd01773           3 GPKARLMLRYPDGKREQIALP-EQAKLLALVRHVQS-KGYPNERFELLTNFPRRKLS   57 (82)
T ss_pred             CCeeEEEEECCCCCEEEEEeC-CCCcHHHHHHHHHh-cCCCCCCEEEecCCCCcccC
Confidence            346789999999999999997 68999999999988 577888888884  345553

Faf1_like1 is a protein of unknown function with a domain architecture that includes the UAS (ubiquitin-associated) and UBX (ubiquitin-like) domains. This protein is related to other UBA/UBX-containing proteins like Faf1, p47, and SAKS1 and may serve as an adaptor molecule that shuttles proteins to the proteasome for degradation. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.

>cd01770 p47_UBX p47-like ubiquitin domain

Probab=81.34  E-value=8.2  Score=32.00  Aligned_cols=58  Identities=16%  Similarity=0.230  Sum_probs=43.1

Q ss_pred             cEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCC-CCCeEEE--ecCeecCCC-Cccc
Q 012310           10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIP-THLQRLI--YSGLQLKDR-TVIS   68 (466)
Q Consensus        10 ~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP-~e~QRLI--fnGK~L~Ds-stLs   68 (466)
                      ...|.|+.++|+.+...|. .+.||.+|.+.|....+-+ ...+.|+  |-.+.|.+. .+|.
T Consensus         4 ~t~iqiRlpdG~r~~~rF~-~~~tv~~l~~~v~~~~~~~~~~~f~L~t~fP~k~l~~~~~Tl~   65 (79)
T cd01770           4 TTSIQIRLADGKRLVQKFN-SSHRVSDVRDFIVNARPEFAARPFTLMTAFPVKELSDESLTLK   65 (79)
T ss_pred             eeEEEEECCCCCEEEEEeC-CCCcHHHHHHHHHHhCCCCCCCCEEEecCCCCcccCCCCCcHH
Confidence            5789999999999999998 7999999999999765432 2345665  456666553 4443

p47_UBX p47 is an adaptor molecule of the cytosolic AAA ATPase p97. The principal role of the p97-p47 complex is to regulate membrane fusion events. Mono-ubiquitin recognition by p47 is crucial for p97-p47-mediated Golgi membrane fusion events. p47 has carboxy-terminal SEP and UBX domains. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.

>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain

Probab=81.26  E-value=4.2  Score=34.78  Aligned_cols=44  Identities=18%  Similarity=0.150  Sum_probs=37.7

Q ss_pred             EEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCC---CCeEEEe
Q 012310           12 QLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPT---HLQRLIY   56 (466)
Q Consensus        12 qIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~---e~QRLIf   56 (466)
                      .+.++.+.|+++-+.+. |+.++.+|+..|.+++|+..   ..+.|.|
T Consensus         2 ~FK~~~~~GrvhRf~~~-~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~Y   48 (86)
T cd06409           2 AFKFKDPKGRVHRFRLR-PSESLEELRTLISQRLGDDDFETHLYALSY   48 (86)
T ss_pred             cEEeeCCCCCEEEEEec-CCCCHHHHHHHHHHHhCCccccCCcccEEE
Confidence            35678899999999997 89999999999999999987   4666766

The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domains depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic amino acid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is

>cd01760 RBD Ubiquitin-like domain of RBD-like S/T kinases

Probab=80.25  E-value=4.7  Score=33.24  Aligned_cols=44  Identities=11%  Similarity=0.070  Sum_probs=38.2

Q ss_pred             EEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEec
Q 012310           13 LFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYS   57 (466)
Q Consensus        13 IfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfn   57 (466)
                      +.|-.++|+...+.+. |..||.++...++++.|+.++...|.+.
T Consensus         2 ~~V~LPng~~t~V~vr-pg~ti~d~L~~~c~kr~l~~~~~~v~~~   45 (72)
T cd01760           2 CRVYLPNGQRTVVPVR-PGMSVRDVLAKACKKRGLNPECCDVFLL   45 (72)
T ss_pred             EEEECcCCCeEEEEEC-CCCCHHHHHHHHHHHcCCCHHHEEEEEe
Confidence            4566889999999997 9999999999999999999987776653

The ras-binding domain (RBD) of the serine/threonine kinase raf is structurally quite similar to the beta-grasp fold of ubiquitin. A raf-like RBD is also present in RGS12 and other members of a family of GTPase activating proteins and TIAM1, a guanine nucleotide exchange protein.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	466
2jvc_A	82	Nmr Solution Structure Of Ubiquitin Like Protein Le		7e-06
3olm_D	79	Structure And Function Of A Ubiquitin Binding Site		2e-05
2kdi_A	114	Solution Structure Of A UbiquitinUIM FUSION PROTEIN		6e-05
4a18_K	129	T.Thermophila 60s Ribosomal Subunit In Complex With		6e-05
2ojr_A	111	Structure Of Ubiquitin Solved By Sad Using The Lant		7e-05
3u5e_m	128	The Structure Of The Eukaryotic Ribosome At 3.0 A R		7e-05
3l0w_B	169	Structure Of Split Monoubiquitinated Pcna With Ubiq		8e-05
1yx5_B	98	Solution Structure Of S5a Uim-1UBIQUITIN COMPLEX Le		9e-05
4hcn_B	98	Crystal Structure Of Burkholderia Pseudomallei Effe		9e-05
3vdz_A	111	Tailoring Encodable Lanthanide-Binding Tags As Mri		1e-04
4ii3_B	96	Crystal Structure Of S. Pombe Ubiquitin Activating		1e-04
3u30_A	172	Crystal Structure Of A Linear-Specific Ubiquitin Fa		2e-04
3u5c_f	152	The Structure Of The Eukaryotic Ribosome At 3.0 A R		2e-04
3u5g_f	152	The Structure Of The Eukaryotic Ribosome At 3.0 A R		2e-04
4hjk_A	77	U7ub7 Disulfide Variant Length = 77		2e-04
4gsw_A	80	Crystal Structure Of Ubiquitin From Entamoeba Histo		2e-04
3rul_A	79	New Strategy To Analyze Structures Of Glycopeptide-		3e-04
2fcs_A	76	X-Ray Crystal Structure Of A Chemically Synthesized		3e-04
3h7s_A	76	Crystal Structures Of K63-Linked Di- And Tri-Ubiqui		3e-04
1otr_B	76	Solution Structure Of A Cue-Ubiquitin Complex Lengt		3e-04
1xd3_B	75	Crystal Structure Of Uchl3-Ubvme Complex Length = 7		3e-04
1cmx_B	76	Structural Basis For The Specificity Of Ubiquitin C		3e-04
2k6d_B	76	Cin85 Sh3-C Domain In Complex With Ubiquitin Length		3e-04
3ons_A	72	Crystal Structure Of Human Ubiquitin In A New Cryst		3e-04
3nob_A	78	Structure Of K11-Linked Di-Ubiquitin Length = 78		3e-04
2y5b_B	152	Structure Of Usp21 In Complex With Linear Diubiquit		3e-04
2jwz_A	76	Mutations In The Hydrophobic Core Of Ubiquitin Diff		3e-04
3ldz_F	73	Crystal Structure Of Human Stam1 Vhs Domain In Comp		4e-04
1yj1_A	76	X-Ray Crystal Structure Of A Chemically Synthesized		4e-04
2o6v_B	76	Crystal Structure And Solution Nmr Studies Of Lys48		4e-04
1yiw_A	76	X-Ray Crystal Structure Of A Chemically Synthesized		4e-04
3mtn_B	85	Usp21 In Complex With A Ubiquitin-based, Usp21-spec		4e-04
3ai5_A	307	Crystal Structure Of Yeast Enhanced Green Fluoresce		4e-04
3jvz_X	81	E2~ubiquitin-Hect Length = 81		5e-04
1sif_A	88	Crystal Structure Of A Multiple Hydrophobic Core Mu		5e-04
2xk5_B	76	Crystal Structure Of K6-Linked Diubiquitin Length =		5e-04
4ap4_C	80	Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex Le		6e-04
2zvn_A	154	Nemo Cozi Domain Incomplex With Diubiquitin In P212		6e-04
3q3f_A	189	Engineering Domain-Swapped Binding Interfaces By Mu		6e-04
2o6v_D	76	Crystal Structure And Solution Nmr Studies Of Lys48		6e-04
2ld9_A	77	Backbone Structure Of Ubiquitin Determined Using Ba		6e-04
1zgu_B	76	Solution Structure Of The Human Mms2-Ubiquitin Comp		6e-04
3dvg_Y	79	Crystal Structure Of K63-Specific Fab Apu.3a8 Bound		7e-04
1c3t_A	76	Rotamer Strain As A Determinant Of Protein Structur		7e-04
2znv_B	76	Crystal Structure Of Human Amsh-Lp Dub Domain In Co		7e-04
2khw_B	79	Solution Structure Of The Human Polymerase Iota Ubm		7e-04
3b08_A	152	Crystal Structure Of The Mouse Hoil1-L-Nzf In Compl		7e-04
3k9o_B	96	The Crystal Structure Of E2-25k And Ubb+1 Complex L		7e-04
1aar_A	76	Structure Of A Diubiquitin Conjugate And A Model Fo		7e-04
3dvg_X	80	Crystal Structure Of K63-Specific Fab Apu.3a8 Bound		7e-04
2w9n_A	152	Crystal Structure Of Linear Di-Ubiquitin Length = 1		8e-04
2znv_C	77	Crystal Structure Of Human Amsh-Lp Dub Domain In Co		8e-04
1ogw_A	76	Synthetic Ubiquitin With Fluoro-Leu At 50 And 67 Le		8e-04

>pdb|2JVC|A Chain A, Nmr Solution Structure Of Ubiquitin Like Protein Length = 82

Iteration: 1
 Score = 48.9 bits (115), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 25/63 (39%), Positives = 38/63 (60%), Gaps = 1/63 (1%)
Query: 10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
          ++Q+FVK L GKT T++       G  +K +IY+   IP   QRLI+ G QL+D   +SD
Sbjct: 5  SMQIFVKTLTGKTITIDVDHADTVG-AVKAKIYDKEGIPPDQQRLIFGGKQLEDSNAMSD 63
Query: 70 DHI 72
           ++
Sbjct: 64 YNV 66

>pdb|3OLM|D Chain D, Structure And Function Of A Ubiquitin Binding Site Within The Catalytic Domain Of A Hect Ubiquitin Ligase Length = 79

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 26/63 (41%), Positives = 39/63 (61%), Gaps = 1/63 (1%)
Query: 10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
          A+Q+FVK L GKT TL   +     + +K++I +   IP   QRLI++G QL+D   +SD
Sbjct: 3  AMQIFVKTLTGKTITLEVESSDTIDN-VKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 61
Query: 70 DHI 72
           +I
Sbjct: 62 YNI 64

>pdb|2KDI|A Chain A, Solution Structure Of A UbiquitinUIM FUSION PROTEIN Length = 114

Iteration: 1
 Score = 45.4 bits (106), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 24/62 (38%), Positives = 36/62 (58%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
           Q+F K L GKT TL   +     + +K++I +   IP   QRLI++G QL+D   +SD 
Sbjct: 10 FQIFAKTLTGKTITLEVESSDTIDN-VKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSDY 68
Query: 71 HI 72
          +I
Sbjct: 69 NI 70

>pdb|4A18|K Chain K, T.Thermophila 60s Ribosomal Subunit In Complex With Initiation Factor 6. This File Contains 26s Rrna And Proteins Of Molecule 1 Length = 129

Iteration: 1
 Score = 45.4 bits (106), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 25/62 (40%), Positives = 36/62 (58%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL+          +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 1  MQIFVKTLTGKTITLDVEASDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59
Query: 71 HI 72
          +I
Sbjct: 60 NI 61

>pdb|2OJR|A Chain A, Structure Of Ubiquitin Solved By Sad Using The Lanthanide- Binding Tag Length = 111

Iteration: 1
 Score = 45.4 bits (106), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 26/63 (41%), Positives = 36/63 (57%), Gaps = 1/63 (1%)
Query: 10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
          A+Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD
Sbjct: 35 AMQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 93
Query: 70 DHI 72
           +I
Sbjct: 94 YNI 96

>pdb|3U5E|MM Chain m, The Structure Of The Eukaryotic Ribosome At 3.0 A Resolution. This Entry Contains Proteins Of The 60s Subunit, Ribosome A Length = 128

Iteration: 1
 Score = 45.4 bits (106), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 25/62 (40%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL   +     + +K++I +   IP   QRLI++G QL+D   +SD 
Sbjct: 1  MQIFVKTLTGKTITLEVESSDTIDN-VKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59
Query: 71 HI 72
          +I
Sbjct: 60 NI 61

>pdb|3L0W|B Chain B, Structure Of Split Monoubiquitinated Pcna With Ubiquitin In Position Two Length = 169

Iteration: 1
 Score = 45.1 bits (105), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 25/62 (40%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL   +     + +K++I +   IP   QRLI++G QL+D   +SD 
Sbjct: 1  MQIFVKTLTGKTITLEVESSDTIDN-VKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59
Query: 71 HI 72
          +I
Sbjct: 60 NI 61

>pdb|1YX5|B Chain B, Solution Structure Of S5a Uim-1UBIQUITIN COMPLEX Length = 98

Iteration: 1
 Score = 45.1 bits (105), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 25/62 (40%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59
Query: 71 HI 72
          +I
Sbjct: 60 NI 61

>pdb|4HCN|B Chain B, Crystal Structure Of Burkholderia Pseudomallei Effector Protein Chbp In Complex With Ubiquitin Length = 98

Iteration: 1
 Score = 45.1 bits (105), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 25/64 (39%), Positives = 39/64 (60%), Gaps = 1/64 (1%)
Query: 9  KALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVIS 68
          + +Q+FVK L GKT TL   +     + +K++I +   IP   QRLI++G QL+D   +S
Sbjct: 21 RPMQIFVKTLTGKTITLEVESSDTIDN-VKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLS 79
Query: 69 DDHI 72
          D +I
Sbjct: 80 DYNI 83

>pdb|3VDZ|A Chain A, Tailoring Encodable Lanthanide-Binding Tags As Mri Contrast Agents: Xq-Dse3-Ubiquitin At 2.4 Angstroms Length = 111

Iteration: 1
 Score = 44.3 bits (103), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 26/63 (41%), Positives = 36/63 (57%), Gaps = 1/63 (1%)
Query: 10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
          A+Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD
Sbjct: 35 AMQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 93
Query: 70 DHI 72
           +I
Sbjct: 94 YNI 96

>pdb|4II3|B Chain B, Crystal Structure Of S. Pombe Ubiquitin Activating Enzyme 1 (uba1) In Complex With Ubiquitin And Atp/mg Length = 96

Iteration: 1
 Score = 44.3 bits (103), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 25/62 (40%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL   +     + +K++I +   IP   QRLI++G QL+D   +SD 
Sbjct: 21 MQIFVKTLTGKTITLEVESSDTIDN-VKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 79
Query: 71 HI 72
          +I
Sbjct: 80 NI 81

>pdb|3U30|A Chain A, Crystal Structure Of A Linear-Specific Ubiquitin Fab Bound To Linear Ubiquitin Length = 172

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 25/63 (39%), Positives = 35/63 (55%), Gaps = 1/63 (1%)
Query: 10  ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
            +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD
Sbjct: 96  GMQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 154
Query: 70  DHI 72
            +I
Sbjct: 155 YNI 157

>pdb|3U5C|FF Chain f, The Structure Of The Eukaryotic Ribosome At 3.0 A Resolution. This Entry Contains Proteins Of The 40s Subunit, Ribosome A Length = 152

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 25/62 (40%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL   +     + +K++I +   IP   QRLI++G QL+D   +SD 
Sbjct: 1  MQIFVKTLTGKTITLEVESSDTIDN-VKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59
Query: 71 HI 72
          +I
Sbjct: 60 NI 61

>pdb|3U5G|FF Chain f, The Structure Of The Eukaryotic Ribosome At 3.0 A Resolution. This Entry Contains Proteins Of The 40s Subunit, Ribosome B Length = 152

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 25/62 (40%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL   +     + +K++I +   IP   QRLI++G QL+D   +SD 
Sbjct: 1  MQIFVKTLTGKTITLEVESSDTIDN-VKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59
Query: 71 HI 72
          +I
Sbjct: 60 NI 61

>pdb|4HJK|A Chain A, U7ub7 Disulfide Variant Length = 77

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 25/63 (39%), Positives = 35/63 (55%), Gaps = 1/63 (1%)
Query: 10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
          A+Q+FVK L GKT TL           +K +I +    P   QRLI++G QL+D   +SD
Sbjct: 1  AMQIFVKCLTGKTNTLEVEPSDTI-ENVKAKIQDKIGYPPDQQRLIFAGKQLEDGRTLSD 59
Query: 70 DHI 72
           +I
Sbjct: 60 YNI 62

>pdb|4GSW|A Chain A, Crystal Structure Of Ubiquitin From Entamoeba Histolytica To 2.15 Angstrom Length = 80

Iteration: 1
 Score = 43.5 bits (101), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 27/63 (42%), Positives = 36/63 (57%), Gaps = 1/63 (1%)
Query: 10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
          A+Q+FVK L GKT TL           IK +I E   IP   QRLI++G QL++   +SD
Sbjct: 3  AMQIFVKTLTGKTITLEVEPNDSI-DAIKAKIQEKEGIPPDQQRLIFAGKQLEEGKTLSD 61
Query: 70 DHI 72
           +I
Sbjct: 62 YNI 64

>pdb|3RUL|A Chain A, New Strategy To Analyze Structures Of Glycopeptide-Target Complexes Length = 79

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 25/62 (40%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59
Query: 71 HI 72
          +I
Sbjct: 60 NI 61

>pdb|2FCS|A Chain A, X-Ray Crystal Structure Of A Chemically Synthesized [l-Gln35]ubiquitin With A Cubic Space Group Length = 76

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 26/62 (41%), Positives = 36/62 (58%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          LQ+FVK L GKT TL           +K +I +  +IP   QRLI++G QL+D   +SD 
Sbjct: 1  LQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEQIPPDQQRLIFAGKQLEDGRTLSDY 59
Query: 71 HI 72
          +I
Sbjct: 60 NI 61

>pdb|3H7S|A Chain A, Crystal Structures Of K63-Linked Di- And Tri-Ubiquitin Reveal A Highly Extended Chain Architecture Length = 76

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 25/62 (40%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59
Query: 71 HI 72
          +I
Sbjct: 60 NI 61

>pdb|1OTR|B Chain B, Solution Structure Of A Cue-Ubiquitin Complex Length = 76

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 25/62 (40%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL   +     + +K++I +   IP   QRLI++G QL+D   +SD 
Sbjct: 1  MQIFVKTLTGKTITLEVESSDTIDN-VKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59
Query: 71 HI 72
          +I
Sbjct: 60 NI 61

>pdb|1XD3|B Chain B, Crystal Structure Of Uchl3-Ubvme Complex Length = 75

Iteration: 1
 Score = 43.1 bits (100), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 25/62 (40%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59
Query: 71 HI 72
          +I
Sbjct: 60 NI 61

>pdb|1CMX|B Chain B, Structural Basis For The Specificity Of Ubiquitin C- Terminal Hydrolases Length = 76

Iteration: 1
 Score = 43.1 bits (100), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 25/62 (40%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59
Query: 71 HI 72
          +I
Sbjct: 60 NI 61

>pdb|2K6D|B Chain B, Cin85 Sh3-C Domain In Complex With Ubiquitin Length = 76

Iteration: 1
 Score = 43.1 bits (100), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 25/62 (40%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59
Query: 71 HI 72
          +I
Sbjct: 60 NI 61

>pdb|3ONS|A Chain A, Crystal Structure Of Human Ubiquitin In A New Crystal Form Length = 72

Iteration: 1
 Score = 43.1 bits (100), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 25/62 (40%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59
Query: 71 HI 72
          +I
Sbjct: 60 NI 61

>pdb|3NOB|A Chain A, Structure Of K11-Linked Di-Ubiquitin Length = 78

Iteration: 1
 Score = 43.1 bits (100), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 25/62 (40%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 3  MQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 61
Query: 71 HI 72
          +I
Sbjct: 62 NI 63

>pdb|2Y5B|B Chain B, Structure Of Usp21 In Complex With Linear Diubiquitin-Aldehyde Length = 152

Iteration: 1
 Score = 43.1 bits (100), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 25/62 (40%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59
Query: 71 HI 72
          +I
Sbjct: 60 NI 61

>pdb|2JWZ|A Chain A, Mutations In The Hydrophobic Core Of Ubiquitin Differentially Affect Its Recognition By Receptor Proteins Length = 76

Iteration: 1
 Score = 43.1 bits (100), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 25/62 (40%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL   +     + +K++I +   IP   QRLI++G QL+D   +SD 
Sbjct: 1  MQIFVKTLTGKTITLEVESSDTIDN-VKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59
Query: 71 HI 72
          +I
Sbjct: 60 NI 61

>pdb|3LDZ|F Chain F, Crystal Structure Of Human Stam1 Vhs Domain In Complex With Ubiquitin Length = 73

Iteration: 1
 Score = 43.1 bits (100), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 25/62 (40%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59
Query: 71 HI 72
          +I
Sbjct: 60 NI 61

>pdb|1YJ1|A Chain A, X-Ray Crystal Structure Of A Chemically Synthesized [d-Gln35]ubiquitin Length = 76

Iteration: 1
 Score = 43.1 bits (100), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 26/62 (41%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          LQ+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 1  LQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEXIPPDQQRLIFAGKQLEDGRTLSDY 59
Query: 71 HI 72
          +I
Sbjct: 60 NI 61

>pdb|2O6V|B Chain B, Crystal Structure And Solution Nmr Studies Of Lys48-Linked Tetraubiquitin At Neutral Ph Length = 76

Iteration: 1
 Score = 42.7 bits (99), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 25/62 (40%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGXQLEDGRTLSDY 59
Query: 71 HI 72
          +I
Sbjct: 60 NI 61

>pdb|1YIW|A Chain A, X-Ray Crystal Structure Of A Chemically Synthesized Ubiquitin Length = 76

Iteration: 1
 Score = 42.7 bits (99), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 26/62 (41%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          LQ+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 1  LQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59
Query: 71 HI 72
          +I
Sbjct: 60 NI 61

>pdb|3MTN|B Chain B, Usp21 In Complex With A Ubiquitin-based, Usp21-specific Inhibitor Length = 85

Iteration: 1
 Score = 42.7 bits (99), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 25/62 (40%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 4  MQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 62
Query: 71 HI 72
          +I
Sbjct: 63 NI 64

>pdb|3AI5|A Chain A, Crystal Structure Of Yeast Enhanced Green Fluorescent Protein- Ubiquitin Fusion Protein Length = 307

Iteration: 1
 Score = 42.7 bits (99), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 25/63 (39%), Positives = 36/63 (57%), Gaps = 1/63 (1%)
Query: 10  ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
           ++Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD
Sbjct: 233 SMQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 291
Query: 70  DHI 72
            +I
Sbjct: 292 YNI 294

>pdb|3JVZ|X Chain X, E2~ubiquitin-Hect Length = 81

Iteration: 1
 Score = 42.7 bits (99), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 26/66 (39%), Positives = 37/66 (56%), Gaps = 1/66 (1%)
Query: 7  SPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTV 66
          S  ++Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   
Sbjct: 2  SGGSMQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT 60
Query: 67 ISDDHI 72
          +SD +I
Sbjct: 61 LSDYNI 66

>pdb|1SIF|A Chain A, Crystal Structure Of A Multiple Hydrophobic Core Mutant Of Ubiquitin Length = 88

Iteration: 1
 Score = 42.4 bits (98), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 25/64 (39%), Positives = 36/64 (56%), Gaps = 1/64 (1%)
Query: 9  KALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVIS 68
          + LQLF+K L GKT T+           +K +I +   IP   QRLI++G QL+D   +S
Sbjct: 8  QGLQLFIKTLTGKTFTVEMEPSDTI-ENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLS 66
Query: 69 DDHI 72
          D +I
Sbjct: 67 DYNI 70

>pdb|2XK5|B Chain B, Crystal Structure Of K6-Linked Diubiquitin Length = 76

Iteration: 1
 Score = 42.4 bits (98), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 25/62 (40%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPQQQRLIFAGKQLEDGRTLSDY 59
Query: 71 HI 72
          +I
Sbjct: 60 NI 61

>pdb|4AP4|C Chain C, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex Length = 80

Iteration: 1
 Score = 42.4 bits (98), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 25/63 (39%), Positives = 35/63 (55%), Gaps = 1/63 (1%)
Query: 10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
           +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD
Sbjct: 4  GMQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 62
Query: 70 DHI 72
           +I
Sbjct: 63 YNI 65

>pdb|2ZVN|A Chain A, Nemo Cozi Domain Incomplex With Diubiquitin In P212121 Space Group Length = 154

Iteration: 1
 Score = 42.4 bits (98), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 25/63 (39%), Positives = 36/63 (57%), Gaps = 1/63 (1%)
Query: 10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
          ++Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD
Sbjct: 2  SMQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 60
Query: 70 DHI 72
           +I
Sbjct: 61 YNI 63

>pdb|3Q3F|A Chain A, Engineering Domain-Swapped Binding Interfaces By Mutually Exclusive Folding: Insertion Of Ubiquitin Into Position 103 Of Barnase Length = 189

Iteration: 1
 Score = 42.4 bits (98), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 25/61 (40%), Positives = 34/61 (55%), Gaps = 1/61 (1%)
Query: 12  QLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDH 71
           Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD +
Sbjct: 107 QIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 165
Query: 72  I 72
           I
Sbjct: 166 I 166

>pdb|2O6V|D Chain D, Crystal Structure And Solution Nmr Studies Of Lys48-Linked Tetraubiquitin At Neutral Ph Length = 76

Iteration: 1
 Score = 42.4 bits (98), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 25/62 (40%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRTLSDY 59
Query: 71 HI 72
          +I
Sbjct: 60 NI 61

>pdb|2LD9|A Chain A, Backbone Structure Of Ubiquitin Determined Using Backbone Amide Noes And Backbone N-H And N-C Rdcs Length = 77

Iteration: 1
 Score = 42.4 bits (98), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 25/63 (39%), Positives = 35/63 (55%), Gaps = 1/63 (1%)
Query: 10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
           +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD
Sbjct: 1  GMQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 59
Query: 70 DHI 72
           +I
Sbjct: 60 YNI 62

>pdb|1ZGU|B Chain B, Solution Structure Of The Human Mms2-Ubiquitin Complex Length = 76

Iteration: 1
 Score = 42.0 bits (97), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 25/62 (40%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRTLSDY 59
Query: 71 HI 72
          +I
Sbjct: 60 NI 61

>pdb|3DVG|Y Chain Y, Crystal Structure Of K63-Specific Fab Apu.3a8 Bound To K63-Linked Di- Ubiquitin Length = 79

Iteration: 1
 Score = 42.0 bits (97), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 25/62 (40%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 4  MQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 62
Query: 71 HI 72
          +I
Sbjct: 63 NI 64

>pdb|1C3T|A Chain A, Rotamer Strain As A Determinant Of Protein Structural Specificity Length = 76

Iteration: 1
 Score = 42.0 bits (97), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 24/59 (40%), Positives = 33/59 (55%), Gaps = 1/59 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
          +QLFVK L GKT T+           +K +I +   IP   QRLI++G QL+D   +SD
Sbjct: 1  MQLFVKTLTGKTLTVELEPSDTV-ENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 58

>pdb|2ZNV|B Chain B, Crystal Structure Of Human Amsh-Lp Dub Domain In Complex With Lys63-Linked Ubiquitin Dimer Length = 76

Iteration: 1
 Score = 42.0 bits (97), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 25/62 (40%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59
Query: 71 HI 72
          +I
Sbjct: 60 NI 61

>pdb|2KHW|B Chain B, Solution Structure Of The Human Polymerase Iota Ubm2- Ubiquitin Complex Length = 79

Iteration: 1
 Score = 42.0 bits (97), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 25/62 (40%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 4  MQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 62
Query: 71 HI 72
          +I
Sbjct: 63 NI 64

>pdb|3B08|A Chain A, Crystal Structure Of The Mouse Hoil1-L-Nzf In Complex With Linear Di- Ubiquitin Length = 152

Iteration: 1
 Score = 42.0 bits (97), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 25/63 (39%), Positives = 35/63 (55%), Gaps = 1/63 (1%)
Query: 10  ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
            +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD
Sbjct: 76  GMQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 134
Query: 70  DHI 72
            +I
Sbjct: 135 YNI 137

>pdb|3K9O|B Chain B, The Crystal Structure Of E2-25k And Ubb+1 Complex Length = 96

Iteration: 1
 Score = 42.0 bits (97), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 25/63 (39%), Positives = 35/63 (55%), Gaps = 1/63 (1%)
Query: 10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
           +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD
Sbjct: 1  GMQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 59
Query: 70 DHI 72
           +I
Sbjct: 60 YNI 62

>pdb|1AAR|A Chain A, Structure Of A Diubiquitin Conjugate And A Model For Interaction With Ubiquitin Conjugating Enzyme (E2) Length = 76

Iteration: 1
 Score = 42.0 bits (97), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 25/62 (40%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59
Query: 71 HI 72
          +I
Sbjct: 60 NI 61

>pdb|3DVG|X Chain X, Crystal Structure Of K63-Specific Fab Apu.3a8 Bound To K63-Linked Di- Ubiquitin Length = 80

Iteration: 1
 Score = 42.0 bits (97), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 25/62 (40%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 4  MQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 62
Query: 71 HI 72
          +I
Sbjct: 63 NI 64

>pdb|2W9N|A Chain A, Crystal Structure Of Linear Di-Ubiquitin Length = 152

Iteration: 1
 Score = 42.0 bits (97), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 25/63 (39%), Positives = 35/63 (55%), Gaps = 1/63 (1%)
Query: 10  ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
            +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD
Sbjct: 76  GMQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 134
Query: 70  DHI 72
            +I
Sbjct: 135 YNI 137

>pdb|2ZNV|C Chain C, Crystal Structure Of Human Amsh-Lp Dub Domain In Complex With Lys63-Linked Ubiquitin Dimer Length = 77

Iteration: 1
 Score = 42.0 bits (97), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 25/62 (40%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59
Query: 71 HI 72
          +I
Sbjct: 60 NI 61

>pdb|1OGW|A Chain A, Synthetic Ubiquitin With Fluoro-Leu At 50 And 67 Length = 76

Iteration: 1
 Score = 41.6 bits (96), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 24/62 (38%), Positives = 34/62 (54%), Gaps = 1/62 (1%)
Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL           +K +I +   IP   QRLI++G Q +D   +SD 
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQXEDGRTLSDY 59
Query: 71 HI 72
          +I
Sbjct: 60 NI 61

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	466
3u5c_F	225	RP14, S2, YS8, 40S ribosomal protein S5; translati	2e-15
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	1e-14
1yx5_B	98	Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo s	1e-14
3mtn_B	85	UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquit	2e-14
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	3e-14
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	4e-14
3n3k_B	85	Ubiquitin; hydrolase, protease, thiol protease, DU	7e-14
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	7e-14
2ojr_A	111	Ubiquitin; lanthide-binding TAG, terbium, TB, SAD	1e-13
1sif_A	88	Ubiquitin; hydrophobic mutants, folding, stability	1e-13
2hj8_A	88	Interferon-induced 17 kDa protein; HR2873B, human	3e-13
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	3e-13
1wh3_A	87	59 kDa 2'-5'-oligoadenylate synthetase like protei	3e-13
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	4e-13
3b1l_X	76	E3 ubiquitin-protein ligase parkin; proteasome, AL	5e-13
2xzm_9	189	RPS31E; ribosome, translation; 3.93A {Tetrahymena	5e-13
3a9j_A	76	Ubiquitin; protein complex, cytoplasm, isopeptide	9e-13
2kdi_A	114	Ubiquitin, vacuolar protein sorting-associated pro	1e-12
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	1e-12
3k9o_B	96	Ubiquitin, UBB+1; E2-25K, complex structure, ATP-b	1e-12
1we7_A	115	SF3A1 protein; structural genomics, ubiquitin-like	7e-12
2faz_A	78	Ubiquitin-like containing PHD and ring finger DOM	2e-11
1wy8_A	89	NP95-like ring finger protein, isoform A; ubiquiti	2e-11
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	2e-11
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	3e-11
3phx_B	79	Ubiquitin-like protein ISG15; OTU domain, DE-ubiqu	4e-11
1we6_A	111	Splicing factor, putative; structural genomics, ub	5e-11
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	1e-10
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	4e-10
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	4e-10
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	1e-09
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	1e-09
2kd0_A	85	LRR repeats and ubiquitin-like domain-containing p	1e-09
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	2e-09
1j8c_A	125	Ubiquitin-like protein hplic-2; ubiquitin-like dom	5e-09
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	7e-09
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	2e-07
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	5e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-08
2kk8_A	84	Uncharacterized protein AT4G05270; solution arabid	7e-08
1uel_A	95	HHR23B, UV excision repair protein RAD23 homolog B	1e-07
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	3e-07
3ai5_A	307	Yeast enhanced green fluorescent protein, ubiquit;	4e-07
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	4e-07
3u5e_m	128	60S ribosomal protein L40; translation, ribosome,	7e-07
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	2e-06
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	2e-05
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	2e-06
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	3e-05
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	6e-06
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	7e-05
2kdb_A	99	Homocysteine-responsive endoplasmic reticulum- res	8e-04

>3u5c_F RP14, S2, YS8, 40S ribosomal protein S5; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_F 3o30_D 3o2z_D 3u5g_F 3jyv_G* 2noq_F 1s1h_G 3iz6_F Length = 225

 Score = 72.1 bits (177), Expect = 2e-15
 Identities = 6/79 (7%), Positives = 13/79 (16%), Gaps = 7/79 (8%)

Query: 12 QLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
                +  +           V          E  +  T ++       +  +    S  
Sbjct: 2  SDTEAPVEVQEDFEVVEEFTPV--VLATPIPEEVQQAQTEIKLFNKWSFEEVEVKDASLV 59

Query: 71 HI----TFNLVLRLLGGKG 85
                    V    G   
Sbjct: 60 DYVQVRQPIFVAHTAGRYA 78

>1ndd_A NEDD8, protein (ubiquitin-like protein NEDD8); proteolysis, signaling protei; 1.60A {Homo sapiens} SCOP: d.15.1.1 PDB: 1r4m_I 1r4n_I* 1xt9_B 2ko3_A 3gzn_I* 2bkr_B 2nvu_I* 3dqv_A 1bt0_A Length = 76

 Score = 68.0 bits (167), Expect = 1e-14
 Identities = 30/77 (38%), Positives = 37/77 (48%), Gaps = 7/77 (9%)

Query: 12 QLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
           + VK L GK   ++   T  V    IK R+ E   IP   QRLIYSG Q+ D    +D 
Sbjct: 2  LIKVKTLTGKEIEIDIEPTDKV--ERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADY 59

Query: 71 HI----TFNLVLRLLGG 83
           I      +LVL L GG
Sbjct: 60 KILGGSVLHLVLALRGG 76

>1yx5_B Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo sapiens} SCOP: d.15.1.1 PDB: 1yx6_B Length = 98

 Score = 68.3 bits (167), Expect = 1e-14
 Identities = 35/100 (35%), Positives = 52/100 (52%), Gaps = 7/100 (7%)

Query: 11  LQLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
           +Q+FVK L GKT TL    +  +    +K +I +   IP   QRLI++G QL+D   +SD
Sbjct: 1   MQIFVKTLTGKTITLEVEPSDTI--ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 58

Query: 70  DHI----TFNLVLRLLGGKGGFGSLLRGAATKAGQKKTNN 105
            +I    T +LVLRL GG+    S +   A        ++
Sbjct: 59  YNIQKESTLHLVLRLRGGRDPNSSSVDKLAAALEHHHHHH 98

>3mtn_B UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquitin-specific protease activity, hydrolase, ubiquitin B structural genomics consortium, SGC; 2.70A {Homo sapiens} Length = 85

 Score = 67.4 bits (165), Expect = 2e-14
 Identities = 34/80 (42%), Positives = 46/80 (57%), Gaps = 7/80 (8%)

Query: 12 QLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          Q+FVK L GKT TL    +  +    +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 5  QIFVKTLTGKTITLEVEPSDTI--ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 62

Query: 71 HI----TFNLVLRLLGGKGG 86
          +I    T  L+LRL GG GG
Sbjct: 63 NIQKWSTLFLLLRLRGGGGG 82

>4dwf_A HLA-B-associated transcript 3; ubiquitin-like domain, BAT3 protein, PF00240, structural GEN joint center for structural genomics, JCSG; 1.80A {Homo sapiens} PDB: 1wx9_A Length = 90

 Score = 66.9 bits (164), Expect = 3e-14
 Identities = 24/87 (27%), Positives = 38/87 (43%), Gaps = 6/87 (6%)

Query: 7  SPKALQLFVKLLNGKTTTLNF-TTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRT 65
           P +L++ VK L+ +T T       +V   E K  I  +  IP+  QRLIY G  L+D  
Sbjct: 2  EPDSLEVLVKTLDSQTRTFIVGAQMNVK--EFKEHIAASVSIPSEKQRLIYQGRVLQDDK 59

Query: 66 VISDDHI---TFNLVLRLLGGKGGFGS 89
           + + ++     +LV R          
Sbjct: 60 KLQEYNVGGKVIHLVERAPPQTHLPSG 86

>4fbj_B NEDD8; effector-HOST target complex, glutamine deamidase, deamidati bacterial effector, cell cycle-protein binding complex; 1.60A {Homo sapiens} PDB: 4f8c_B Length = 88

 Score = 67.0 bits (164), Expect = 4e-14
 Identities = 31/79 (39%), Positives = 38/79 (48%), Gaps = 7/79 (8%)

Query: 12 QLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
           + VK L GK   ++   T  V    IK R+ E   IP   QRLIYSG Q+ D    +D 
Sbjct: 2  LIKVKTLTGKEIEIDIEPTDKV--ERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADY 59

Query: 71 HI----TFNLVLRLLGGKG 85
           I      +LVL L GG G
Sbjct: 60 KILGGSVLHLVLALRGGGG 78

>3n3k_B Ubiquitin; hydrolase, protease, thiol protease, DUB, zinc ribbon, inhibitor, ubiqu acetylation, cytoplasm, isopeptide bond, nucleus; 2.60A {Homo sapiens} Length = 85

 Score = 65.8 bits (161), Expect = 7e-14
 Identities = 28/80 (35%), Positives = 43/80 (53%), Gaps = 7/80 (8%)

Query: 12 QLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          ++ VK L G+T  L    +  +    +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 5  RIVVKTLMGRTIILEVEPSDTI--ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 62

Query: 71 HI----TFNLVLRLLGGKGG 86
          +I       L+L+L GG GG
Sbjct: 63 NIHNHSALYLLLKLRGGGGG 82

>4eew_A Large proline-rich protein BAG6; ubiquitin-like fold, GP78-binding, chaperone; 1.30A {Homo sapiens} Length = 88

 Score = 66.2 bits (162), Expect = 7e-14
 Identities = 24/79 (30%), Positives = 38/79 (48%), Gaps = 6/79 (7%)

Query: 5  ATSPKALQLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKD 63
             P +L++ VK L+ +T T       +V   E K  I  +  IP+  QRLIY G  L+D
Sbjct: 12 VEEPDSLEVLVKTLDSQTRTFIVGAQMNVK--EFKEHIAASVSIPSEKQRLIYQGRVLQD 69

Query: 64 RTVISDDHI---TFNLVLR 79
             + + ++     +LV R
Sbjct: 70 DKKLQEYNVGGKVIHLVER 88

>2ojr_A Ubiquitin; lanthide-binding TAG, terbium, TB, SAD phasing, protein binding; 2.60A {Homo sapiens} Length = 111

 Score = 66.4 bits (162), Expect = 1e-13
 Identities = 34/83 (40%), Positives = 47/83 (56%), Gaps = 7/83 (8%)

Query: 6   TSPKALQLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDR 64
               A+Q+FVK L GKT TL    +  +    +K +I +   IP   QRLI++G QL+D 
Sbjct: 31  DELLAMQIFVKTLTGKTITLEVEPSDTI--ENVKAKIQDKEGIPPDQQRLIFAGKQLEDG 88

Query: 65  TVISDDHI----TFNLVLRLLGG 83
             +SD +I    T +LVLRL GG
Sbjct: 89  RTLSDYNIQKESTLHLVLRLRGG 111

>1sif_A Ubiquitin; hydrophobic mutants, folding, stability, structural protein; 2.18A {Homo sapiens} SCOP: d.15.1.1 Length = 88

 Score = 65.1 bits (159), Expect = 1e-13
 Identities = 33/81 (40%), Positives = 47/81 (58%), Gaps = 7/81 (8%)

Query: 8  PKALQLFVKLLNGKTTTLNF-TTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTV 66
           + LQLF+K L GKT T+    +  +    +K +I +   IP   QRLI++G QL+D   
Sbjct: 7  LQGLQLFIKTLTGKTFTVEMEPSDTI--ENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRT 64

Query: 67 ISDDHI----TFNLVLRLLGG 83
          +SD +I    T +LVLRL GG
Sbjct: 65 LSDYNIQKESTLHLVLRLRGG 85

>2hj8_A Interferon-induced 17 kDa protein; HR2873B, human ISG15, structure, northeast structural genomics consortium, protein structure initiative, NESG; NMR {Homo sapiens} Length = 88

 Score = 64.3 bits (157), Expect = 3e-13
 Identities = 18/82 (21%), Positives = 34/82 (41%), Gaps = 7/82 (8%)

Query: 11 LQLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
          L + V+   G+++T     T  V    +K ++     +   L  L + G  L+D+  + +
Sbjct: 5  LSILVRNNKGRSSTYEVRLTQTV--AHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGE 62

Query: 70 DHI----TFNLVLRLLGGKGGF 87
            +    T  + LRL GG    
Sbjct: 63 YGLKPLSTVFMNLRLRGGLEHH 84

>1ttn_A DC-UBP, dendritic cell-derived ubiquitin-like protein; ubiquitin-like domain, solution structure, signaling protein; NMR {Homo sapiens} SCOP: d.15.1.1 Length = 106

 Score = 64.8 bits (158), Expect = 3e-13
 Identities = 20/88 (22%), Positives = 34/88 (38%), Gaps = 7/88 (7%)

Query: 2   EDQATSPKALQLFVKLLNGKTTTLNF-TTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQ 60
           E    S    QL ++L  GK   L   +T  V+   +K R++ A  +    QR  +SG  
Sbjct: 15  EPPPNSGYECQLRLRLSTGKDLKLVVRSTDTVF--HMKRRLHAAEGVEPGSQRWFFSGRP 72

Query: 61  LKDRTVISDDHI----TFNLVLRLLGGK 84
           L D+    +  I       +++      
Sbjct: 73  LTDKMKFEELKIPKDYVVQVIVSQPVQN 100

>1wh3_A 59 kDa 2'-5'-oligoadenylate synthetase like protein; P59 OASL, ubiquitin family, structural genomics; NMR {Homo sapiens} SCOP: d.15.1.1 Length = 87

 Score = 63.9 bits (156), Expect = 3e-13
 Identities = 17/84 (20%), Positives = 33/84 (39%), Gaps = 7/84 (8%)

Query: 5  ATSPKALQLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKD 63
          ++    +Q+FVK  +G +          +    +K +I +   +P   Q+L + G  L+D
Sbjct: 2  SSGSSGIQVFVKNPDGGSYAYAINPNSFIL--GLKQQIEDQQGLPKKQQQLEFQGQVLQD 59

Query: 64 RTVISDDHI----TFNLVLRLLGG 83
             +    I    T  L  +   G
Sbjct: 60 WLGLGIYGIQDSDTLILSKKKGSG 83

>2dzi_A Ubiquitin-like protein 4A; GDX, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 81

 Score = 63.5 bits (155), Expect = 4e-13
 Identities = 24/82 (29%), Positives = 37/82 (45%), Gaps = 7/82 (8%)

Query: 5  ATSPKALQLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKD 63
          ++    +QL VK L G+  +L       V    +K  + E   +P   QRL++ G  L D
Sbjct: 2  SSGSSGMQLTVKALQGRECSLQVPEDELV--STLKQLVSEKLNVPVRQQRLLFKGKALAD 59

Query: 64 RTVISDDHI----TFNLVLRLL 81
             +SD  I      NLV++ L
Sbjct: 60 GKRLSDYSIGPNSKLNLVVKPL 81

>3b1l_X E3 ubiquitin-protein ligase parkin; proteasome, ALFA-beta-protein; 1.85A {Mus musculus} PDB: 1mg8_A 2zeq_A 2knb_A 1iyf_A Length = 76

 Score = 63.1 bits (154), Expect = 5e-13
 Identities = 10/77 (12%), Positives = 31/77 (40%), Gaps = 7/77 (9%)

Query: 11 LQLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
          + +FV+  +     +       +   ++K  + +   +P    R+I++G +L +   + +
Sbjct: 1  MIVFVRFNSSYGFPVEVDSDTSIL--QLKEVVAKQQGVPADQLRVIFAGKELPNHLTVQN 58

Query: 70 DHI----TFNLVLRLLG 82
            +      ++V R   
Sbjct: 59 CDLEQQSIVHIVQRPRR 75

>2xzm_9 RPS31E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_9 Length = 189

 Score = 66.7 bits (162), Expect = 5e-13
 Identities = 22/103 (21%), Positives = 40/103 (38%), Gaps = 4/103 (3%)

Query: 12  QLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
           Q+ VK L G+T          V   ++K++I +       +  L+ +G    +  +++DD
Sbjct: 2   QVQVKTLEGETKIYTLEQGTSVL--DLKSQISQDMGFEIDMMTLVNNGFIAPNTELVTDD 59

Query: 71  HITFNLVLRLLGGKGGFGSLLRGAATKAGQKKTNNFDACRDMS 113
             T+ L L+LLGGK            K   +  +         
Sbjct: 60  V-TYYLSLKLLGGKKKKKKKSYTTKKKTKHRHVHTKLGALAFY 101

>3a9j_A Ubiquitin; protein complex, cytoplasm, isopeptide bond, metal-binding, zinc; 1.18A {Mus musculus} PDB: 3a1q_B 2znv_B 3a9k_A 3h7p_A 3jsv_A 3dvg_Y 3dvn_Y 3nob_A 2o6v_D* 3jw0_X 3jvz_X 3nhe_B* 1aar_A 1d3z_A 1f9j_A 1fxt_B 1g6j_A 1nbf_C 1cmx_B 1q5w_B ... Length = 76

 Score = 62.3 bits (152), Expect = 9e-13
 Identities = 33/77 (42%), Positives = 45/77 (58%), Gaps = 7/77 (9%)

Query: 12 QLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          Q+FVK L GKT TL    +  +    +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 2  QIFVKTLTGKTITLEVEPSDTI--ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59

Query: 71 HI----TFNLVLRLLGG 83
          +I    T +LVLRL GG
Sbjct: 60 NIQRESTLHLVLRLRGG 76

>2kdi_A Ubiquitin, vacuolar protein sorting-associated protein 27 fusion protein; ubiquitin interacting motif, UIM, protein domain interface; NMR {Saccharomyces cerevisiae} Length = 114

 Score = 63.7 bits (155), Expect = 1e-12
 Identities = 33/80 (41%), Positives = 46/80 (57%), Gaps = 7/80 (8%)

Query: 12 QLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          Q+F K L GKT TL    +  +    +K++I +   IP   QRLI++G QL+D   +SD 
Sbjct: 11 QIFAKTLTGKTITLEVESSDTI--DNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSDY 68

Query: 71 HI----TFNLVLRLLGGKGG 86
          +I    T +LVLRL GG  G
Sbjct: 69 NIQRESTLHLVLRLRGGSMG 88

>3dbh_I NEDD8; cell cycle, activating enzyme, apoptosis, membrane, UBL conjugation pathway, ATP-binding, ligase, nucleotide- binding, polymorphism; 2.85A {Homo sapiens} SCOP: k.45.1.1 PDB: 3dbr_I 3dbl_I Length = 88

 Score = 62.4 bits (152), Expect = 1e-12
 Identities = 31/77 (40%), Positives = 38/77 (49%), Gaps = 7/77 (9%)

Query: 12 QLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
           + VK L GK   ++   T  V    IK R+ E   IP   QRLIYSG Q+ D    +D 
Sbjct: 14 LIKVKTLTGKEIEIDIEPTDKV--ERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADY 71

Query: 71 HI----TFNLVLRLLGG 83
           I      +LVLRL GG
Sbjct: 72 KILGGSVLHLVLRLRGG 88

>3k9o_B Ubiquitin, UBB+1; E2-25K, complex structure, ATP-binding, isopeptide BO ligase, nucleotide-binding, UBL conjugation pathway; 1.80A {Homo sapiens} PDB: 2k25_A 2kx0_A Length = 96

 Score = 62.5 bits (152), Expect = 1e-12
 Identities = 32/79 (40%), Positives = 45/79 (56%), Gaps = 7/79 (8%)

Query: 10 ALQLFVKLLNGKTTTLNF-TTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVIS 68
           +Q+FVK L GKT TL    +  +    +K +I +   IP   QRLI++G QL+D   +S
Sbjct: 1  GMQIFVKTLTGKTITLEVEPSDTI--ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLS 58

Query: 69 DDHI----TFNLVLRLLGG 83
          D +I    T +LVLRL G 
Sbjct: 59 DYNIQKESTLHLVLRLRGY 77

>1we7_A SF3A1 protein; structural genomics, ubiquitin-like domain, riken structural genomics/proteomics initiative, RSGI, gene regulation; NMR {Mus musculus} SCOP: d.15.1.1 PDB: 1zkh_A Length = 115

 Score = 61.4 bits (149), Expect = 7e-12
 Identities = 20/84 (23%), Positives = 34/84 (40%), Gaps = 5/84 (5%)

Query: 4   QATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKD 63
           +   P         LNG+               IK +I+EAT +P   Q+L Y G+ +KD
Sbjct: 29  KVQVPNMQDKTEWKLNGQGLVFTLPLT-DQVSVIKVKIHEATGMPAGKQKLQYEGIFIKD 87

Query: 64  RTVISDDHI----TFNLVLRLLGG 83
              ++  ++      +L L+   G
Sbjct: 88  SNSLAYYNMASGAVIHLALKERSG 111

>2faz_A Ubiquitin-like containing PHD and ring finger DOM protein 1; cell cycle, DNA damage, DNA repair, DNA-binding, ligase, Met binding, nuclear protein; 2.00A {Homo sapiens} SCOP: d.15.1.1 Length = 78

 Score = 58.9 bits (143), Expect = 2e-11
 Identities = 19/76 (25%), Positives = 35/76 (46%), Gaps = 9/76 (11%)

Query: 12 QLFVKLLNGKTTTLNFT---TCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVIS 68
           + V+ ++G+ T    +      V   E++ +I E   +   LQRL Y G Q++D   + 
Sbjct: 4  WIQVRTMDGRQTHTVDSLSRLTKV--EELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLF 61

Query: 69 DDHI----TFNLVLRL 80
          D  +    T  L++R 
Sbjct: 62 DYEVRLNDTIQLLVRQ 77

>1wy8_A NP95-like ring finger protein, isoform A; ubiquitin-like domain, NP95/ICBP90-like ring finger (NIRF), ubiquitin ligase, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.15.1.1 Length = 89

 Score = 58.9 bits (143), Expect = 2e-11
 Identities = 18/87 (20%), Positives = 36/87 (41%), Gaps = 11/87 (12%)

Query: 5  ATSPKALQLFVKLLNGKTTTLNFTTCHVYG----HEIKNRIYEATKIPTHLQRLIYSGLQ 60
          ++    + + V+ ++G  T    T   V       E++ R++    +    QRL Y G Q
Sbjct: 2  SSGSSGMWIQVRTIDGSKT---CTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQ 58

Query: 61 LKDRTVISDDHI----TFNLVLRLLGG 83
          L++   + D  +       L++R   G
Sbjct: 59 LENGYTLFDYDVGLNDIIQLLVRPDSG 85

>1wx8_A Riken cDNA 4931431F19; ubiquitin-like domain, ubiquilin 1-like, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.15.1.1 Length = 96

 Score = 58.9 bits (143), Expect = 2e-11
 Identities = 17/87 (19%), Positives = 35/87 (40%), Gaps = 6/87 (6%)

Query: 1  MEDQATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQ 60
          +  +  S + +++ VK              +V     K +I +          LI++G  
Sbjct: 8  VSGREPSSRIIRVSVKTPQDCHEFFLAENSNV--RRFKKQISKYLHCNADRLVLIFTGKI 65

Query: 61 LKDRTVISDDHI----TFNLVLRLLGG 83
          L+D+ ++S   I    T ++V+R   G
Sbjct: 66 LRDQDILSQRGILDGSTVHVVVRSHSG 92

>2l7r_A Ubiquitin-like protein FUBI; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; NMR {Homo sapiens} Length = 93

 Score = 59.0 bits (143), Expect = 3e-11
 Identities = 19/81 (23%), Positives = 33/81 (40%), Gaps = 9/81 (11%)

Query: 8  PKALQLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTV 66
            ++QLFV+    +  T   T    V   +IK  +     I    Q ++ +G  L+D   
Sbjct: 17 RGSMQLFVR--AQELHTFEVTGQETV--AQIKAHVASLEGIAPEDQVVLLAGAPLEDEAT 72

Query: 67 ISDDHI----TFNLVLRLLGG 83
          +    +    T  +  R+LGG
Sbjct: 73 LGQCGVEALTTLEVAGRMLGG 93

>3phx_B Ubiquitin-like protein ISG15; OTU domain, DE-ubiquitinase, DE-isgylase, hydrolase-protein complex; 1.60A {Homo sapiens} Length = 79

 Score = 57.8 bits (140), Expect = 4e-11
 Identities = 17/77 (22%), Positives = 33/77 (42%), Gaps = 7/77 (9%)

Query: 11 LQLFVKLLNGKTTTLNF-TTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
          L + V+   G+++T     T  V    +K ++     +   L  L + G  L+D+  + +
Sbjct: 5  LSILVRNNKGRSSTYEVRLTQTV--AHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGE 62

Query: 70 DHI----TFNLVLRLLG 82
            +    T  + LRL G
Sbjct: 63 YGLKPLSTVFMNLRLRG 79

>1we6_A Splicing factor, putative; structural genomics, ubiquitin-like domain, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: d.15.1.1 Length = 111

 Score = 58.7 bits (142), Expect = 5e-11
 Identities = 15/81 (18%), Positives = 31/81 (38%), Gaps = 5/81 (6%)

Query: 8   PKALQLFVK-LLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTV 66
           P  +++      +G+   +   +       +K +I    +IP + Q+L      LKD   
Sbjct: 27  PATIRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMS 86

Query: 67  ISDDHI----TFNLVLRLLGG 83
           ++  ++       L LR   G
Sbjct: 87  LAHYNVGAGEILTLSLRERSG 107

>1wx7_A Ubiquilin 3; ubiquitin-like domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: d.15.1.1 Length = 106

 Score = 57.4 bits (139), Expect = 1e-10
 Identities = 20/97 (20%), Positives = 37/97 (38%), Gaps = 6/97 (6%)

Query: 4   QATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKD 63
               P  +++ VK    K       TC +   ++K  I +  K       LI++G  LKD
Sbjct: 11  PVQDPHLIKVTVKTPKDKEDFSVTDTCTI--QQLKEEISQRFKAHPDQLVLIFAGKILKD 68

Query: 64  RTVISDDHI----TFNLVLRLLGGKGGFGSLLRGAAT 96
              ++   +    T +LV++      G      G ++
Sbjct: 69  PDSLAQCGVRDGLTVHLVIKRQHRAMGNECPASGPSS 105

>2klc_A Ubiquilin-1; ubiquitin-like, structural genomics, PSI-2, protein structur initiative, northeast structural genomics consortium, NESG; NMR {Homo sapiens} Length = 101

 Score = 55.8 bits (135), Expect = 4e-10
 Identities = 21/78 (26%), Positives = 33/78 (42%), Gaps = 6/78 (7%)

Query: 6  TSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRT 65
            PK +++ VK    K          V   + K  I +  K  T    LI++G  LKD+ 
Sbjct: 21 GHPKIMKVTVKTPKEKEEFAVPENSSV--QQFKEEISKRFKSHTDQLVLIFAGKILKDQD 78

Query: 66 VISDDHI----TFNLVLR 79
           +S   I    T +LV++
Sbjct: 79 TLSQHGIHDGLTVHLVIK 96

>1yqb_A Ubiquilin 3; structural genomics consortium, ubiquitin, ubiquitin-like domain, structural genomics, signaling protein SGC; 2.00A {Homo sapiens} SCOP: d.15.1.1 Length = 100

 Score = 55.4 bits (134), Expect = 4e-10
 Identities = 19/79 (24%), Positives = 34/79 (43%), Gaps = 6/79 (7%)

Query: 5  ATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDR 64
            SP  +++ VK    K       TC +   ++K  I +  K       LI++G  LKD 
Sbjct: 17 RGSPHLIKVTVKTPKDKEDFSVTDTCTI--QQLKEEISQRFKAHPDQLVLIFAGKILKDP 74

Query: 65 TVISDDHI----TFNLVLR 79
            ++   +    T +LV++
Sbjct: 75 DSLAQCGVRDGLTVHLVIK 93

>2bwf_A Ubiquitin-like protein DSK2; signaling protein, UBA, signaling proteins; 1.15A {Saccharomyces cerevisiae} SCOP: d.15.1.1 PDB: 2bwe_S Length = 77

 Score = 53.7 bits (130), Expect = 1e-09
 Identities = 23/74 (31%), Positives = 33/74 (44%), Gaps = 8/74 (10%)

Query: 12 QLFVKLLNGKTT-TLNF-TTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
           L + + +G+    +N      V   + K  I +A  IP   QRLIYSG  LKD   +  
Sbjct: 4  SLNIHIKSGQDKWEVNVAPESTVL--QFKEAINKANGIPVANQRLIYSGKILKDDQTVES 61

Query: 70 DHI----TFNLVLR 79
           HI    + +LV  
Sbjct: 62 YHIQDGHSVHLVKS 75

>3m63_B Ubiquitin domain-containing protein DSK2; armadillo-like repeats, UBL conjugation pathway, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae} Length = 101

 Score = 54.3 bits (131), Expect = 1e-09
 Identities = 24/85 (28%), Positives = 36/85 (42%), Gaps = 8/85 (9%)

Query: 1  MEDQATSPKALQLFVKLLNGK-TTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIYSG 58
            +      A+ L + + +G+    +N      V   + K  I +A  IP   QRLIYSG
Sbjct: 17 TTENLYFQGAMSLNIHIKSGQDKWEVNVAPESTVL--QFKEAINKANGIPVANQRLIYSG 74

Query: 59 LQLKDRTVISDDHI----TFNLVLR 79
            LKD   +   HI    + +LV  
Sbjct: 75 KILKDDQTVESYHIQDGHSVHLVKS 99

>2kd0_A LRR repeats and ubiquitin-like domain-containing protein AT2G30105; ubiquitin-like protein, NESG, leucine-rich repeat, structural genomics; NMR {Arabidopsis thaliana} Length = 85

 Score = 53.8 bits (130), Expect = 1e-09
 Identities = 17/82 (20%), Positives = 36/82 (43%), Gaps = 2/82 (2%)

Query: 4  QATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKD 63
             S   ++L VK   GK+  L+ +       ++K+++   T +    Q+LI+ G  L +
Sbjct: 6  HHHSHSTIKLTVKF-GGKSIPLSVSP-DCTVKDLKSQLQPITNVLPRGQKLIFKGKVLVE 63

Query: 64 RTVISDDHITFNLVLRLLGGKG 85
           + +    +     L L+  +G
Sbjct: 64 TSTLKQSDVGSGAKLMLMASQG 85

>3l0w_B Monoubiquitinated proliferating cell nuclear antigen, proliferating cell nuclear antigen; replication, DNA damage, DNA repair; 2.80A {Saccharomyces cerevisiae} PDB: 3l10_B Length = 169

 Score = 55.3 bits (133), Expect = 2e-09
 Identities = 34/81 (41%), Positives = 47/81 (58%), Gaps = 7/81 (8%)

Query: 12 QLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          Q+FVK L GKT TL    +  +    +K++I +   IP   QRLI++G QL+D   +SD 
Sbjct: 2  QIFVKTLTGKTITLEVESSDTID--NVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59

Query: 71 HI----TFNLVLRLLGGKGGF 87
          +I    T +LVLRL GG G  
Sbjct: 60 NIQKESTLHLVLRLRGGGGET 80

>1j8c_A Ubiquitin-like protein hplic-2; ubiquitin-like domain, structural genomics; NMR {Homo sapiens} SCOP: d.15.1.1 Length = 125

 Score = 53.3 bits (128), Expect = 5e-09
 Identities = 20/79 (25%), Positives = 32/79 (40%), Gaps = 6/79 (7%)

Query: 5   ATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDR 64
              PK +++ VK    K          V   + K  I +  K  T    LI++G  LKD+
Sbjct: 27  PAEPKIIKVTVKTPKEKEEFAVPENSSV--QQFKEAISKRFKSQTDQLVLIFAGKILKDQ 84

Query: 65  TVISDDHI----TFNLVLR 79
             +    I    T +LV++
Sbjct: 85  DTLIQHGIHDGLTVHLVIK 103

>3rt3_B Ubiquitin-like protein ISG15; ubiquitin-like domain, isgylation, antiviral protein-viral P complex; 2.01A {Homo sapiens} PDB: 3sdl_C 3r66_C 3pse_B 1z2m_A Length = 159

 Score = 53.8 bits (129), Expect = 7e-09
 Identities = 16/76 (21%), Positives = 32/76 (42%), Gaps = 5/76 (6%)

Query: 12  QLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDH 71
            + V+   G+++T          H +K ++     +   L  L + G  L+D+  + +  
Sbjct: 83  SILVRNNKGRSSTYEVRLTQTVAH-LKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYG 141

Query: 72  I----TFNLVLRLLGG 83
           +    T  + LRL GG
Sbjct: 142 LKPLSTVFMNLRLRGG 157

>3rt3_B Ubiquitin-like protein ISG15; ubiquitin-like domain, isgylation, antiviral protein-viral P complex; 2.01A {Homo sapiens} PDB: 3sdl_C 3r66_C 3pse_B 1z2m_A Length = 159

 Score = 49.6 bits (118), Expect = 2e-07
 Identities = 17/72 (23%), Positives = 32/72 (44%), Gaps = 5/72 (6%)

Query: 10 ALQLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIY--SGLQLKDRTV 66
             L VK+L G    ++ + +  V   E+K +I +   +    QRL    SG+ L+DR  
Sbjct: 2  GWDLTVKMLAGNEFQVSLSSSMSV--SELKAQITQKIGVHAFQQRLAVHPSGVALQDRVP 59

Query: 67 ISDDHITFNLVL 78
          ++   +     +
Sbjct: 60 LASQGLGPGSTV 71

>2wyq_A HHR23A, UV excision repair protein RAD23 homolog A; DNA binding protein, DNA excision repair, proteasomal degrad polyubiquitin; 1.65A {Homo sapiens} PDB: 1p98_A 1p9d_U 1p1a_A Length = 85

 Score = 49.6 bits (119), Expect = 5e-08
 Identities = 22/86 (25%), Positives = 34/86 (39%), Gaps = 8/86 (9%)

Query: 7  SPKALQLFVKLLNGKTTTLNF-TTCHVYGHEIKNRIYEA---TKIPTHLQRLIYSGLQLK 62
           P A+ + +K L  +T  +       V    +K +I         P   Q+LIY+G  L 
Sbjct: 2  IPMAVTITLKTLQQQTFKIRMEPDETVK--VLKEKIEAEKGRDAFPVAGQKLIYAGKILS 59

Query: 63 DRTVISDDHITFN--LVLRLLGGKGG 86
          D   I D  I     +V+ +   K G
Sbjct: 60 DDVPIRDYRIDEKNFVVVMVTKTKAG 85

>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 = 54.1 bits (129), Expect = 6e-08
 Identities = 69/512 (13%), Positives = 133/512 (25%), Gaps = 170/512 (33%)

Query: 31  HVYGH---EIKNRIYEATKIPTHLQRLIYSGLQLKD-----RTVISD---DHI-----TF 74
           H + H   E     Y+   I +  +         KD     ++++S    DHI       
Sbjct: 2   HHHHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAV 61

Query: 75  NLVLRLLGGKGGFGSLLRGAATKAGQK------KTN-NF------DACRDMSGRRLRHVN 121
           +  LRL          L     +  QK      + N  F         R  S     ++ 
Sbjct: 62  SGTLRLFW-------TLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIE 114

Query: 122 AEKKLEEWKAEEEER-----RLEKIAEEFLKKAAKK----------GKKGVGDGEAEKYV 166
              +L  +   +        RL+   +  L++A  +          G  G G        
Sbjct: 115 QRDRL--YNDNQVFAKYNVSRLQPYLK--LRQALLELRPAKNVLIDGVLGSG-------- 162

Query: 167 KKYRDESAVCMAKVEEAVRRACADGKRKAVKSNEMEAKRMKIWMGKRKLGESDDEDSSED 226
           K         +A         C   K +     ++       W+    L   +       
Sbjct: 163 KT-------WVAL------DVCLSYKVQCKMDFKI------FWL---NLKNCN-----SP 195

Query: 227 DDDEENEKSIVLNNGHHSDTNKETEGSSGSVTGGKQDRVLSGGGSCESGSEEEKDILVQQ 286
           +   E      L    +      T  S  S    K            S   E + +L  +
Sbjct: 196 ETVLEM-----LQKLLYQIDPNWTSRSDHSSNI-KLR--------IHSIQAELRRLLKSK 241

Query: 287 SSESG---AEDVSREENDMVEP-EIHVGMVMQTTSTSCLDTALVSETKAAQAEKHDCCGE 342
             E+      +V   +        +   +++ T      D    + T     + H     
Sbjct: 242 PYENCLLVLLNVQNAK--AWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHS--MT 297

Query: 343 FASESVEEIIGQPPIPNVLNSENEE-SSEKRSVDAEPSGSSDSKSAINDGAIVANTTLAE 401
              + V+ ++        L+   ++   E  + +  P         +   +I+A      
Sbjct: 298 LTPDEVKSLLL-----KYLDCRPQDLPREVLTTN--PR-------RL---SIIA----ES 336

Query: 402 L-ERP--------LNFDEFNSAAEMEVLGLERLKS-ELQARGLKCG----------GTLQ 441
           + +          +N D+  +  E     L  L+  E +    +              L 
Sbjct: 337 IRDGLATWDNWKHVNCDKLTTIIES---SLNVLEPAEYRKMFDRLSVFPPSAHIPTILLS 393

Query: 442 -------ERAARLFLLKSTPVEKLPKKLLAKK 466
                  +    +       V KL K  L +K
Sbjct: 394 LIWFDVIKSDVMVV------VNKLHKYSLVEK 419

>2kk8_A Uncharacterized protein AT4G05270; solution arabidopsis thaliana, uncharacterized putative protein, NESG, structural genomics; NMR {Arabidopsis thaliana} Length = 84

 Score = 48.8 bits (117), Expect = 7e-08
 Identities = 16/77 (20%), Positives = 29/77 (37%), Gaps = 8/77 (10%)

Query: 8  PKALQLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQ-LKDRT 65
             ++  V+ LNG +  L       +    +K +I  +  IP   Q LI  G+  L++  
Sbjct: 8  HSHMKFLVENLNGSSFELEVDYRDTLL--VVKQKIERSQHIPVSKQTLIVDGIVILREDL 65

Query: 66 VISDDHI----TFNLVL 78
           +    I       L +
Sbjct: 66 TVEQCQIVPTSDIQLEV 82

>1uel_A HHR23B, UV excision repair protein RAD23 homolog B; UBL, UIM, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Homo sapiens} SCOP: d.15.1.1 Length = 95

 Score = 48.5 bits (116), Expect = 1e-07
 Identities = 17/80 (21%), Positives = 31/80 (38%), Gaps = 10/80 (12%)

Query: 12 QLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEAT---KIPTHLQRLIYSGLQLKDRTVI 67
          Q+ +K L  +T  ++      V    +K +I         P   Q+LIY+G  L D T +
Sbjct: 2  QVTLKTLQQQTFKIDIDPEETVK--ALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTAL 59

Query: 68 SDDHI----TFNLVLRLLGG 83
           +  I       +++     
Sbjct: 60 KEYKIDEKNFVVVMVTKPKA 79

>3q3f_A Ribonuclease/ubiquitin chimeric protein; domain SWAP, oligomerization, ubiquitin insertion, hydrolase binding; 2.17A {Bacillus amyloliquefaciens} Length = 189

 Score = 49.6 bits (118), Expect = 3e-07
 Identities = 23/52 (44%), Positives = 32/52 (61%), Gaps = 4/52 (7%)

Query: 36  EIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDHI----TFNLVLRLLGG 83
            +K +I +   IP   QRLI++G QL+D   +SD +I    T +LVLRL GG
Sbjct: 130 NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 181

>3ai5_A Yeast enhanced green fluorescent protein, ubiquit; ubiquitin, fusion protein, fluore protein, transcription; HET: CR2; 1.40A {Aequorea victoria} PDB: 3ako_B* Length = 307

 Score = 51.0 bits (121), Expect = 4e-07
 Identities = 31/73 (42%), Positives = 41/73 (56%), Gaps = 5/73 (6%)

Query: 12  QLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDH 71
           Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD +
Sbjct: 235 QIFVKTLTGKTITLEVEPSDTI-ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 293

Query: 72  I----TFNLVLRL 80
           I    T +LVLRL
Sbjct: 294 IQKESTLHLVLRL 306

>3m62_B UV excision repair protein RAD23; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae} Length = 106

 Score = 47.4 bits (113), Expect = 4e-07
 Identities = 13/73 (17%), Positives = 28/73 (38%), Gaps = 7/73 (9%)

Query: 12 QLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
           L  K    +   L+   +  +   E K ++ ++        +LIYSG  L+D   +S+ 
Sbjct: 3  SLTFKNFKKEKVPLDLEPSNTIL--ETKTKLAQSISCEESQIKLIYSGKVLQDSKTVSEC 60

Query: 71 HI----TFNLVLR 79
           +        ++ 
Sbjct: 61 GLKDGDQVVFMVS 73

>3u5e_m 60S ribosomal protein L40; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3u5i_m 4a18_K 4a19_K 4a1b_K 4a1d_K 4adx_5 3izc_p 3izs_p 3iz5_p 3izr_p Length = 128

 Score = 47.4 bits (112), Expect = 7e-07
 Identities = 32/77 (41%), Positives = 46/77 (59%), Gaps = 7/77 (9%)

Query: 11 LQLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
          +Q+FVK L GKT TL    +  +    +K++I +   IP   QRLI++G QL+D   +SD
Sbjct: 1  MQIFVKTLTGKTITLEVESSDTI--DNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 58

Query: 70 DHI----TFNLVLRLLG 82
           +I    T +LVLRL G
Sbjct: 59 YNIQKESTLHLVLRLRG 75

>3u30_A Ubiquitin, linear DI-ubiquitin; immune system; 2.43A {Homo sapiens} Length = 172

 Score = 47.4 bits (112), Expect = 2e-06
 Identities = 25/68 (36%), Positives = 37/68 (54%), Gaps = 3/68 (4%)

Query: 6  TSPKALQLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDR 64
               +Q+FVK L GKT TL    +  +    +K +I +   IP   QRLI++G QL+D 
Sbjct: 16 PRGSHMQIFVKTLTGKTITLEVEPSDTI--ENVKAKIQDKEGIPPDQQRLIFAGKQLEDG 73

Query: 65 TVISDDHI 72
            +SD +I
Sbjct: 74 RTLSDYNI 81

>3u30_A Ubiquitin, linear DI-ubiquitin; immune system; 2.43A {Homo sapiens} Length = 172

 Score = 43.9 bits (103), Expect = 2e-05
 Identities = 23/53 (43%), Positives = 32/53 (60%), Gaps = 4/53 (7%)

Query: 35  HEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDHI----TFNLVLRLLGG 83
             +K +I +   IP   QRLI++G QL+D   +SD +I    T +LVLRL GG
Sbjct: 120 ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 172

>3b08_A Polyubiquitin-C, ubiquitin; protein complex, signaling protein-metal binding protein COM; HET: TRE; 1.70A {Homo sapiens} PDB: 2w9n_A* 3b0a_A* 3axc_A 2zvn_A 2zvo_A 2y5b_B Length = 152

 Score = 46.5 bits (110), Expect = 2e-06
 Identities = 35/106 (33%), Positives = 51/106 (48%), Gaps = 7/106 (6%)

Query: 12  QLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD- 69
           Q+FVK L GKT TL    +  +    +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 2   QIFVKTLTGKTITLEVEPSDTI--ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59

Query: 70  ---DHITFNLVLRLLGGKGGFGSLLRGAATKAGQKKTNNFDACRDM 112
                 T +LVLRL GG   F   L G       + ++  +  +  
Sbjct: 60  NIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAK 105

>3b08_A Polyubiquitin-C, ubiquitin; protein complex, signaling protein-metal binding protein COM; HET: TRE; 1.70A {Homo sapiens} PDB: 2w9n_A* 3b0a_A* 3axc_A 2zvn_A 2zvo_A 2y5b_B Length = 152

 Score = 43.1 bits (101), Expect = 3e-05
 Identities = 23/53 (43%), Positives = 32/53 (60%), Gaps = 4/53 (7%)

Query: 35  HEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDHI----TFNLVLRLLGG 83
             +K +I +   IP   QRLI++G QL+D   +SD +I    T +LVLRL GG
Sbjct: 100 ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 152

>2kan_A Uncharacterized protein AR3433A; ubiquitin fold, alpha+beta, structural genomics, protein structure initiative; NMR {Arabidopsis thaliana} Length = 94

 Score = 43.9 bits (104), Expect = 6e-06
 Identities = 17/86 (19%), Positives = 34/86 (39%), Gaps = 9/86 (10%)

Query: 4  QATSPKALQLFVKLLNGKTTTLNF-TTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLK 62
             + + + + VK    K  T+    T  V    +K++I+     P    +L YSG++L 
Sbjct: 9  SHAAVRKIHVTVKFP-SKQFTVEVDRTETV--SSLKDKIHIVENTPIKRMQLYYSGIELA 65

Query: 63 D--RTVIS---DDHITFNLVLRLLGG 83
          D  R +      +     + L+ +  
Sbjct: 66 DDYRNLNEYGITEFSEIVVFLKSINR 91

>1oqy_A HHR23A, UV excision repair protein RAD23 homolog A; DNA repair, proteasome-mediated degradation, protein- protein interaction, replication; NMR {Homo sapiens} SCOP: a.5.2.1 a.5.2.1 a.189.1.1 d.15.1.1 PDB: 1qze_A 1tp4_A Length = 368

 Score = 43.8 bits (102), Expect = 7e-05
 Identities = 25/114 (21%), Positives = 42/114 (36%), Gaps = 8/114 (7%)

Query: 7   SPKALQLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEA---TKIPTHLQRLIYSGLQLK 62
              A+ + +K L  +T  +       V    +K +I         P   Q+LIY+G  L 
Sbjct: 4   GSSAVTITLKTLQQQTFKIRMEPDETV--KVLKEKIEAEKGRDAFPVAGQKLIYAGKILS 61

Query: 63  DRTVISDDHITFN--LVLRLLGGKGGFGSLLRGAATKAGQKKTNNFDACRDMSG 114
           D   I D  I     +V+ +   K G G+     A+     +++        SG
Sbjct: 62  DDVPIRDYRIDEKNFVVVMVTKTKAGQGTSAPPEASPTAAPESSTSFPPAPTSG 115

>2kdb_A Homocysteine-responsive endoplasmic reticulum- resident ubiquitin-like domain member...; UBL domain, membrane, polymorphism, transmembrane; NMR {Homo sapiens} Length = 99

 Score = 37.6 bits (87), Expect = 8e-04
 Identities = 18/73 (24%), Positives = 29/73 (39%), Gaps = 7/73 (9%)

Query: 2  EDQATSPKALQLFVKLLNGKTTTLNFT---TCHVYGHEIKNRIYE--ATKIPTHLQRLIY 56
          E+       + L +K  N K +    +      V   ++K  +     +K  T  QRL+Y
Sbjct: 15 ENLYFQGHPVTLIIKAPNQKYSDQTISCFLNWTV--GKLKTHLSNVYPSKPLTKDQRLVY 72

Query: 57 SGLQLKDRTVISD 69
          SG  L D   + D
Sbjct: 73 SGRLLPDHLQLKD 85

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	466
3n3k_B	85	Ubiquitin; hydrolase, protease, thiol protease, DU	99.67
3mtn_B	85	UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquit	99.63
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	99.58
1yx5_B	98	Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo s	99.57
1wh3_A	87	59 kDa 2'-5'-oligoadenylate synthetase like protei	99.57
3phx_B	79	Ubiquitin-like protein ISG15; OTU domain, DE-ubiqu	99.57
3u5e_m	128	60S ribosomal protein L40; translation, ribosome,	99.55
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	99.55
2uyz_B	79	Small ubiquitin-related modifier 1; sumoylation, c	99.52
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	99.51
4hcn_B	98	Polyubiquitin, ubiquitin; ubiquitin/NEDD8 deamidas	99.51
1wyw_B	97	Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Ho	99.51
1wy8_A	89	NP95-like ring finger protein, isoform A; ubiquiti	99.5
2kdi_A	114	Ubiquitin, vacuolar protein sorting-associated pro	99.5
1sif_A	88	Ubiquitin; hydrophobic mutants, folding, stability	99.5
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	99.49
2hj8_A	88	Interferon-induced 17 kDa protein; HR2873B, human	99.49
3a9j_A	76	Ubiquitin; protein complex, cytoplasm, isopeptide	99.49
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	99.48
3vdz_A	111	Ubiquitin-40S ribosomal protein S27A; gadolinium,	99.47
3k9o_B	96	Ubiquitin, UBB+1; E2-25K, complex structure, ATP-b	99.47
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	99.47
3v6c_B	91	Ubiquitin; structural genomics, structural genomic	99.46
2xzm_9	189	RPS31E; ribosome, translation; 3.93A {Tetrahymena	99.43
3plu_A	93	Ubiquitin-like modifier HUB1; ubiquitin-like, HUB-	99.43
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	99.42
1we6_A	111	Splicing factor, putative; structural genomics, ub	99.42
1wgd_A	93	Homocysteine-responsive endoplasmic reticulum- res	99.42
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	99.42
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	99.41
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	99.41
2ojr_A	111	Ubiquitin; lanthide-binding TAG, terbium, TB, SAD	99.41
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	99.41
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	99.39
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	99.39
2kk8_A	84	Uncharacterized protein AT4G05270; solution arabid	99.38
2faz_A	78	Ubiquitin-like containing PHD and ring finger DOM	99.38
1wgh_A	116	Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fo	99.37
3b1l_X	76	E3 ubiquitin-protein ligase parkin; proteasome, AL	99.03
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	99.34
1se9_A	126	Ubiquitin family; ubiquitin-like, cell-free, wheat	99.33
2gow_A	125	HCG-1 protein, ubiquitin-like protein 3; BC059385,	99.33
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	99.33
1uh6_A	100	Ubiquitin-like 5; beta-grAsp fold, structural geno	99.32
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	99.32
1j8c_A	125	Ubiquitin-like protein hplic-2; ubiquitin-like dom	99.31
1we7_A	115	SF3A1 protein; structural genomics, ubiquitin-like	99.31
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	99.3
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	99.29
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	99.27
2lxa_A	87	Ubiquitin-like protein MDY2; ubiquitin-like domain	99.27
3u5c_f	152	40S ribosomal protein S31; translation, ribosome,	99.27
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	99.27
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	99.26
1v2y_A	105	3300001G02RIK protein; hypothetical protein, ubiqu	99.26
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	99.26
4a20_A	98	Ubiquitin-like protein MDY2; protein binding, GET-	99.25
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	99.25
1uel_A	95	HHR23B, UV excision repair protein RAD23 homolog B	99.25
2fnj_B	118	Transcription elongation factor B polypeptide 2; b	99.24
1v5o_A	102	1700011N24RIK protein; hypothetical protein, ubiqu	99.23
2kdb_A	99	Homocysteine-responsive endoplasmic reticulum- res	99.21
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	99.2
4ajy_B	118	Transcription elongation factor B polypeptide 2; E	99.19
1wju_A	100	NEDD8 ultimate buster-1; ubiquitin-like domain, st	99.16
1wia_A	95	Hypothetical ubiquitin-like protein (riken cDNA 20	99.1
2io1_B	94	Small ubiquitin-related modifier 3 precursor; SUMO	99.09
4dbg_A	105	Ranbp-type and C3HC4-type zinc finger-containing;	99.01
1x1m_A	107	Ubiquitin-like protein SB132; structural genomics,	99.01
3ai5_A	307	Yeast enhanced green fluorescent protein, ubiquit;	99.0
1v5t_A	90	8430435I17RIK protein; hypothetical protein, ubiqu	99.0
1wgg_A	96	Ubiquitin carboxyl-terminal hydrolase 14; ubiquiti	99.0
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	98.99
1wxv_A	92	BAG-family molecular chaperone regulator-1; struct	98.99
2kd0_A	85	LRR repeats and ubiquitin-like domain-containing p	98.96
2dzm_A	100	FAS-associated factor 1; ubiquitin-like domain, HF	98.96
1v86_A	95	DNA segment, CHR 7, wayne state university 128, ex	98.93
2d07_B	93	Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Ho	98.92
2dzj_A	88	Synaptic glycoprotein SC2; ubiquitin-like fold, st	98.92
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	98.91
2io0_B	91	Small ubiquitin-related modifier 2 precursor; SUMO	98.91
2daf_A	118	FLJ35834 protein; hypothetical protein FLJ35834, u	98.86
1wz0_A	104	Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-li	98.85
2kjr_A	95	CG11242; UBL, ubiquitin, ubiquitin-like, structura	98.81
1wf9_A	107	NPL4 family protein; beta-grAsp fold like domain,	98.73
2eke_C	106	Ubiquitin-like protein SMT3; UBC9, SUMO binding mo	98.71
2k8h_A	110	Small ubiquitin protein; SUMO, post-translational	98.68
2kj6_A	97	Tubulin folding cofactor B; methods development, N	98.65
1v6e_A	95	Cytoskeleton-associated protein 1; tubulin-specifi	98.56
1t0y_A	122	Tubulin folding cofactor B; ubiquitin-like, cytosk	98.55
1wm3_A	72	Ubiquitin-like protein SMT3B; ubiquitin fold, half	98.55
4b6w_A	86	Tubulin-specific chaperone; CAP-Gly, ubiquitin-lik	98.54
3a4r_A	79	Nfatc2-interacting protein; ubiquitin fold, coiled	98.48
3shq_A	320	UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila	98.43
2kzr_A	86	Ubiquitin thioesterase OTU1; structural genomics,	98.43
3kyd_D	115	Small ubiquitin-related modifier 1; SUMO, thioeste	98.12
3pge_A	200	SUMO-modified proliferating cell nuclear antigen;	97.96
1wjn_A	97	Tubulin-folding protein TBCE; ubiquitin-like domai	97.9
3tix_A	207	Ubiquitin-like protein SMT3, RNA-induced transcri	97.81
3v7o_A	227	Minor nucleoprotein VP30; ssgcid, seattle structur	97.34
4efo_A	94	Serine/threonine-protein kinase TBK1; ubiquitin li	97.25
3uf8_A	209	Ubiquitin-like protein SMT3, peptidyl-prolyl CIS-	97.12
3ix6_A	360	TS, tsase, thymidylate synthase; niaid, ssgcid, se	96.56
2pjh_A	80	Protein NPL4, nuclear protein localization protein	96.55
2jxx_A	97	Nfatc2-interacting protein; nuclear factor of acti	96.42
3goe_A	82	DNA repair protein RAD60; SUMO-like domain, sumoyl	96.37
2al3_A	90	TUG long isoform; TUG UBL1 insulin, endocytosis/ex	95.96
4da1_A	389	Protein phosphatase 1K, mitochondrial; metal-ION-a	95.48
2l76_A	95	Nfatc2-interacting protein; ubiquitin-like domain,	94.95
3qx1_A	84	FAS-associated factor 1; UBX, protein binding, P97	94.31
2kc2_A	128	Talin-1, F1; FERM, adhesion, cell membrane, cell p	93.56
2l32_A	74	Small archaeal modifier protein 2; protein BIN; NM	93.27
1wj4_A	124	KIAA0794 protein; UBX domain, beta-grAsp fold, str	91.84
2dzk_A	109	UBX domain-containing protein 2; ubiquitin-like fo	91.78
3rpf_C	74	Molybdopterin converting factor, subunit 1 (MOAD);	90.67
1oey_A	83	P67-PHOX, neutrophil cytosol factor 2; immune syst	89.47
1ryj_A	70	Unknown; beta/alpha protein, structural genomics,	89.14
1vjk_A	98	Molybdopterin converting factor, subunit 1; struct	87.03
1tyg_B	87	YJBS; alpha beta barrel, protein-protein complex,	84.86
2cr5_A	109	Reproduction 8; UBX domain, D0H8S2298E protein, st	83.98
3po0_A	89	Small archaeal modifier protein 1; ubiquitin-like	81.82
3dwg_C	93	9.5 kDa culture filtrate antigen CFP10A; sulfur ca	80.58

>3n3k_B Ubiquitin; hydrolase, protease, thiol protease, DUB, zinc ribbon, inhibitor, ubiqu acetylation, cytoplasm, isopeptide bond, nucleus; 2.60A {Homo sapiens} SCOP: d.15.1.1

Probab=99.67  E-value=9.8e-17  Score=129.05  Aligned_cols=79  Identities=35%  Similarity=0.528  Sum_probs=67.2

Q ss_pred             CcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCCC
Q 012310            9 KALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGGK   84 (466)
Q Consensus         9 ~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GGK   84 (466)
                      ++|+|+|++++|+++++.+. +++||.+||.+|++.++||++.|+|+|+|++|.|+.+|.+|    +++|+|++|++||+
T Consensus         2 s~m~i~vk~~~g~~~~~~v~-~~~tV~~lK~~i~~~~~ip~~~qrL~~~g~~L~d~~tL~~~~i~~~~~i~l~~rl~GG~   80 (85)
T 3n3k_B            2 SHMRIVVKTLMGRTIILEVE-PSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIHNHSALYLLLKLRGGG   80 (85)
T ss_dssp             --CEEEEECGGGCEEEEECC-TTCBHHHHHHHHHHHHCCCGGGEEEEETBEECCTTCBTTTTTCCTTCEEEEEECCC---
T ss_pred             CeEEEEEEeCCCCEEEEEEC-CCCcHHHHHHHHHHHHCCCHHHEEEEECCeECCCCCCHHHCCCCCCCEEEEEEeccCCC
Confidence            47999999999999999997 89999999999999999999999999999999999999886    57999999999999


Q ss_pred             cccC
Q 012310           85 GGFG   88 (466)
Q Consensus        85 GGFG   88 (466)
                      |+||
T Consensus        81 g~~~   84 (85)
T 3n3k_B           81 GGGS   84 (85)
T ss_dssp             ----
T ss_pred             CCCC
Confidence            9986

>3mtn_B UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquitin-specific protease activity, hydrolase, ubiquitin B structural genomics consortium, SGC; 2.70A {Homo sapiens} SCOP: d.15.1.1

Probab=99.63  E-value=7.6e-16  Score=123.59  Aligned_cols=79  Identities=42%  Similarity=0.569  Sum_probs=69.9

Q ss_pred             CcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCCC
Q 012310            9 KALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGGK   84 (466)
Q Consensus         9 ~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GGK   84 (466)
                      ++|+|+|++++|+++++.++ ++.||.+||.+|++..+||++.|+|+|+|+.|.|+.+|.+|    +++|+|++|++||+
T Consensus         2 s~m~i~vk~~~g~~~~~~v~-~~~tV~~lK~~i~~~~~i~~~~qrL~~~g~~L~d~~tL~~~~i~~~~~l~l~~r~~GG~   80 (85)
T 3mtn_B            2 SHMQIFVKTLTGKTITLEVE-PSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKWSTLFLLLRLRGGG   80 (85)
T ss_dssp             -CEEEEEECTTSCEEEEEEC-TTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBTGGGTCCTTCEEEEECCCCCC-
T ss_pred             CeEEEEEEcCCCCEEEEEEC-CCCCHHHHHHHHHHHHCcChHHEEEEECCEECCCCCCHHHcCCCCCCEEEEEEECcCCC
Confidence            47999999999999999997 89999999999999999999999999999999999999886    57999999999999


Q ss_pred             cccC
Q 012310           85 GGFG   88 (466)
Q Consensus        85 GGFG   88 (466)
                      ||.+
T Consensus        81 ggg~   84 (85)
T 3mtn_B           81 GGGS   84 (85)
T ss_dssp             ----
T ss_pred             CCCC
Confidence            8753

>4fbj_B NEDD8; effector-HOST target complex, glutamine deamidase, deamidati bacterial effector, cell cycle-protein binding complex; 1.60A {Homo sapiens} PDB: 4f8c_B

Probab=99.58  E-value=4.2e-15  Score=122.27  Aligned_cols=77  Identities=36%  Similarity=0.508  Sum_probs=67.1

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCCCcc
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGGKGG   86 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GGKGG   86 (466)
                      |+|+|++++|+++++.|+ +++||.+||.+|++.++||++.|+|+|+|+.|.|+.+|.+|    +++|+|++|++||+ .
T Consensus         1 M~I~Vk~~~g~~~~l~v~-~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~l~l~~rl~Gg~-~   78 (88)
T 4fbj_B            1 MLIKVKTLTGKEIEIDIE-PTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLALRGGG-G   78 (88)
T ss_dssp             CEEEEEETTCCEEEEECC-TTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBTTTTTCCTTCEEEEECBCC-----
T ss_pred             CEEEEEcCCCCEEEEEEC-CCCCHHHHHHHHHHHHCcChhHEEEEECCeECCCCCcHHHcCCCCCCEEEEEEECCCCC-C
Confidence            899999999999999997 89999999999999999999999999999999999999886    57999999999998 4


Q ss_pred             cCc
Q 012310           87 FGS   89 (466)
Q Consensus        87 FGS   89 (466)
                      +|+
T Consensus        79 ~~~   81 (88)
T 4fbj_B           79 LRQ   81 (88)
T ss_dssp             ---
T ss_pred             CCc
Confidence            443

>1yx5_B Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo sapiens} SCOP: d.15.1.1 PDB: 1yx6_B

Probab=99.57  E-value=5.1e-15  Score=123.52  Aligned_cols=84  Identities=40%  Similarity=0.538  Sum_probs=68.6

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCCCcc
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGGKGG   86 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GGKGG   86 (466)
                      |+|+|++++|+++.+.|. ++.||.+||.+|+...+||++.|+|+|+|+.|.|+.+|.+|    +++|+|++|++||+++
T Consensus         1 M~I~Vk~~~g~~~~~~v~-~~~TV~~LK~~I~~~~gi~~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~~~~gG~~i   79 (98)
T 1yx5_B            1 MQIFVKTLTGKTITLEVE-PSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGRDP   79 (98)
T ss_dssp             CEEEEEETTSCEEEEECC-TTCBHHHHHHHHHHHTCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECCCCC---
T ss_pred             CEEEEEeCCCCEEEEEEC-CCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEEeCCCCCcC
Confidence            899999999999999997 89999999999999999999999999999999999999886    5799999999999999


Q ss_pred             cCcchhhhh
Q 012310           87 FGSLLRGAA   95 (466)
Q Consensus        87 FGS~LRa~g   95 (466)
                      |++++.+..
T Consensus        80 ~~~~v~~~~   88 (98)
T 1yx5_B           80 NSSSVDKLA   88 (98)
T ss_dssp             ---------
T ss_pred             ccccCCCch
Confidence            999999754

>1wh3_A 59 kDa 2'-5'-oligoadenylate synthetase like protein; P59 OASL, ubiquitin family, structural genomics; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=99.57  E-value=7.3e-15  Score=119.15  Aligned_cols=78  Identities=21%  Similarity=0.250  Sum_probs=73.0

Q ss_pred             CCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecC
Q 012310            7 SPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLG   82 (466)
Q Consensus         7 s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~G   82 (466)
                      .+.+|+|+|++++|+++++.|. ++.||.+||.+|++..+||++.|+|+|+|+.|.|+.+|.+|    +++|+|++|++|
T Consensus         4 ~~~~m~i~Vk~~~g~~~~~~v~-~~~tV~~lK~~i~~~~gi~~~~qrL~~~Gk~L~d~~tL~~~~i~~g~~i~l~~~~~G   82 (87)
T 1wh3_A            4 GSSGIQVFVKNPDGGSYAYAIN-PNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIYGIQDSDTLILSKKKGS   82 (87)
T ss_dssp             CSSSEEEEEEETTTEEEEEEEC-SSSBHHHHHHHHHHHTCCCTTTEEEEETTEECCSSSBHHHHTCCTTEEEEEEECSCC
T ss_pred             CCCCEEEEEEcCCCCEEEEEeC-CCChHHHHHHHHHHHhCCChHHEEEEECCEEccCCCCHHHCCCCCCCEEEEEEeccC
Confidence            5678999999999999999997 89999999999999999999999999999999999999875    579999999999


Q ss_pred             CCc
Q 012310           83 GKG   85 (466)
Q Consensus        83 GKG   85 (466)
                      |+.
T Consensus        83 G~~   85 (87)
T 1wh3_A           83 GPS   85 (87)
T ss_dssp             CSC
T ss_pred             CCC
Confidence            984

>3phx_B Ubiquitin-like protein ISG15; OTU domain, DE-ubiquitinase, DE-isgylase, hydrolase-protein complex; 1.60A {Homo sapiens}

Probab=99.57  E-value=9e-15  Score=116.81  Aligned_cols=73  Identities=21%  Similarity=0.300  Sum_probs=69.2

Q ss_pred             CcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecC
Q 012310            9 KALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLG   82 (466)
Q Consensus         9 ~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~G   82 (466)
                      .+|+|+|++++|+++++.+. ++.||.+||.+|+...|||++.|+|+|+|+.|.|+.+|.+|    +++|+|++||+|
T Consensus         3 ~~m~i~Vk~~~g~~~~~~v~-~~~tV~~lK~~i~~~~gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~l~l~~rl~G   79 (79)
T 3phx_B            3 EPLSILVRNNKGRSSTYEVR-LTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRLRG   79 (79)
T ss_dssp             CCEEEEEECTTSCEEEEEEC-TTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEECCBC
T ss_pred             CCEEEEEEeCCCCEEEEEEC-CcChHHHHHHHHHhhcCCCHHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEecCC
Confidence            47999999999999999997 89999999999999999999999999999999999999986    579999999987

>3u5e_m 60S ribosomal protein L40; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3u5i_m 4b6a_m 4a18_K 4a19_K 4a1b_K 4a1d_K 4adx_5 3izc_p 3izs_p 3iz5_p 3izr_p

Probab=99.55  E-value=5.1e-16  Score=136.48  Aligned_cols=103  Identities=38%  Similarity=0.528  Sum_probs=21.1

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCCCcc
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGGKGG   86 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GGKGG   86 (466)
                      |+|+|++++|++++|.|+ +++||.+||.+|++.+|||++.|+|+|+|++|.|+.+|.+|    +++|+|++|++||+  
T Consensus         1 M~I~Vk~~~G~~~~l~v~-~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~~I~~gsti~l~~rl~GG~--   77 (128)
T 3u5e_m            1 MQIFVKTLTGKTITLEVE-SSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGI--   77 (128)
T ss_dssp             -----------------------------------------------------------------------------C--
T ss_pred             CEEEEEeCCCCEEEEEeC-CCCCHHHHHHHHHHHhCcChHHEEEEECCEECCCCCchhhhccCCCCEEEEEEEcCCCC--
Confidence            899999999999999997 89999999999999999999999999999999999999886    57999999999997  


Q ss_pred             cCcchhhhhhhhccccccCcccccccCCCc-cccc
Q 012310           87 FGSLLRGAATKAGQKKTNNFDACRDMSGRR-LRHV  120 (466)
Q Consensus        87 FGS~LRa~g~r~~~kKt~n~daCRdL~GRR-lr~V  120 (466)
                      +...|+..+.+.+.    |.-+||.|+.|- .++.
T Consensus        78 ~~~sl~~la~k~n~----~~~ic~~~~~~~~~~~~  108 (128)
T 3u5e_m           78 IEPSLKALASKYNC----DKSVCRKCYARLPPRAT  108 (128)
T ss_dssp             CCHHHHHHHHHHHT----SCEEETTTCCEECTTCS
T ss_pred             CChhHHHHHHHhhc----ceEeeccccccCCchhh
Confidence            45567887766654    445999999886 4443

>3dbh_I NEDD8; cell cycle, activating enzyme, apoptosis, membrane, UBL conjugation pathway, ATP-binding, ligase, nucleotide- binding, polymorphism; 2.85A {Homo sapiens} SCOP: d.15.1.1 PDB: 3dbr_I 3dbl_I

Probab=99.55  E-value=1.5e-14  Score=117.22  Aligned_cols=76  Identities=38%  Similarity=0.511  Sum_probs=71.5

Q ss_pred             CCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecC
Q 012310            7 SPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLG   82 (466)
Q Consensus         7 s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~G   82 (466)
                      +...|+|+|++++|++++|.|. ++.||.+||.+|++..+||++.|+|+|+|++|.|+.+|.+|    +++|+|++|++|
T Consensus         9 ~~~~m~i~vk~~~g~~~~~~v~-~~~tV~~lK~~i~~~~gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~i~l~~rl~G   87 (88)
T 3dbh_I            9 SGGSMLIKVKTLTGKEIEIDIE-PTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLRLRG   87 (88)
T ss_dssp             CCCCEEEEEECTTSCEEEEEEC-TTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTSBGGGGTCCTTCEEEECCCCCC
T ss_pred             CCCcEEEEEEcCCCCEEEEEEC-CCCCHHHHHHHHHHHHCcCHHHEEEEECCeECCCCCcHHHcCCCCCCEEEEEEeCCC
Confidence            4568999999999999999997 89999999999999999999999999999999999999886    579999999999


Q ss_pred             C
Q 012310           83 G   83 (466)
Q Consensus        83 G   83 (466)
                      |
T Consensus        88 G   88 (88)
T 3dbh_I           88 G   88 (88)
T ss_dssp             C
T ss_pred             C
Confidence            8

>2uyz_B Small ubiquitin-related modifier 1; sumoylation, cell division, nuclear protein, ubiquitin-like modifier, UBL conjugation pathway; 1.4A {Homo sapiens} SCOP: d.15.1.1 PDB: 2vrr_B 2iy0_B 2iy1_B 2g4d_B 2las_A 2io2_B 1z5s_B 3uip_B* 1tgz_B* 2bf8_B

Probab=99.52  E-value=2.3e-14  Score=114.45  Aligned_cols=73  Identities=12%  Similarity=0.197  Sum_probs=68.7

Q ss_pred             cEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCC
Q 012310           10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGG   83 (466)
Q Consensus        10 ~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GG   83 (466)
                      .|+|+|++++|+++++.+. +++||.+||++|++..|||+++|+|+|+|++|.|+.+|.+|    +++|+|++|++||
T Consensus         3 ~m~i~vk~~~g~~~~~~v~-~~~tv~~lk~~i~~~~gi~~~~qrL~~~G~~L~d~~tl~~~~i~~~~~i~l~~~~~GG   79 (79)
T 2uyz_B            3 YIKLKVIGQDSSEIHFKVK-MTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQTGG   79 (79)
T ss_dssp             EEEEEEECTTCCEEEEEEE-TTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCHHHHTCCTTEEEEEEECCCC-
T ss_pred             eEEEEEECCCCCEEEEEEC-CCChHHHHHHHHHHHHCCCcccEEEEECCEEeCCCCCHHHcCCCCCCEEEEEEeccCC
Confidence            6999999999999999998 89999999999999999999999999999999999999875    6799999999997

>1ndd_A NEDD8, protein (ubiquitin-like protein NEDD8); proteolysis, signaling protei; 1.60A {Homo sapiens} SCOP: d.15.1.1 PDB: 1r4m_I 1r4n_I* 1xt9_B 2ko3_A 3gzn_I* 2bkr_B 2nvu_I* 3dqv_A 1bt0_A

Probab=99.51  E-value=3.7e-14  Score=110.98  Aligned_cols=72  Identities=38%  Similarity=0.512  Sum_probs=66.7

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCC
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGG   83 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GG   83 (466)
                      |+|+|++++|+++++.+. ++.||.+||.+|++..+||++.|+|+|+|+.|.|+.+|.+|    +++|+|++|++||
T Consensus         1 M~i~vk~~~g~~~~~~v~-~~~tv~~lK~~i~~~~~i~~~~q~L~~~g~~L~d~~tL~~~~i~~g~~i~l~~~~~GG   76 (76)
T 1ndd_A            1 MLIKVKTLTGKEIEIDIE-PTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLALRGG   76 (76)
T ss_dssp             CEEEEECTTSCEEEEECC-TTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEECCC--
T ss_pred             CEEEEECCCCCEEEEEEC-CCChHHHHHHHHHHHHCcChHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEeCCCC
Confidence            899999999999999997 89999999999999999999999999999999999999886    6799999999998

>4hcn_B Polyubiquitin, ubiquitin; ubiquitin/NEDD8 deamidase, NEDD8, protein binding; 2.60A {Saccharomyces cerevisiae}

Probab=99.51  E-value=3.4e-14  Score=119.04  Aligned_cols=75  Identities=43%  Similarity=0.628  Sum_probs=69.6

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCC
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGG   83 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GG   83 (466)
                      ...|+|+|++++|+++.|.|. ++.||.+||.+|++..+||++.|+|+|+|+.|.|+.+|.+|    +++|+|++|++||
T Consensus        20 ~~~m~I~Vk~~~g~~~~l~v~-~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~i~l~~rl~GG   98 (98)
T 4hcn_B           20 GRPMQIFVKTLTGKTITLEVE-SSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG   98 (98)
T ss_dssp             --CCEEEEEETTCCEEEEECC-TTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTCBSGGGTCCTTEEEEEECBCSCC
T ss_pred             CCeEEEEEEeCCCCEEEEEEC-CCCcHHHHHHHHHHHhCCChhHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEecCCC
Confidence            467999999999999999997 89999999999999999999999999999999999999886    5699999999998

>1wyw_B Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Homo sapiens} SCOP: d.15.1.1 PDB: 1y8r_C* 2asq_A 2pe6_B 1a5r_A 2kqs_A 3kyc_D* 3rzw_C

Probab=99.51  E-value=2.8e-14  Score=119.57  Aligned_cols=75  Identities=12%  Similarity=0.190  Sum_probs=70.8

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCC
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGG   83 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GG   83 (466)
                      +..|+|+|++++|++++|.|. +++||.+||.+|+...|||+++|+|+|+|++|.|+.+|.+|    +++|+|++|++||
T Consensus        19 ~~~m~I~Vk~~~g~~~~l~v~-~~~tv~~lK~~i~~~~gip~~~qrLif~Gk~L~d~~tl~dy~i~~g~~I~l~~~~~GG   97 (97)
T 1wyw_B           19 GEYIKLKVIGQDSSEIHFKVK-MTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQTGG   97 (97)
T ss_dssp             CCEEEEEEECTTCCEEEEEEE-TTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCHHHHTCCTTCEEEEEESSSCC
T ss_pred             CCcEEEEEEeCCCCEEEEEEC-CCCcHHHHHHHHHHHHCCChhhEEEEECCeEcCCCCCHHHCCCCCCCEEEEEEecCCC
Confidence            457999999999999999998 89999999999999999999999999999999999999875    6799999999998

>1wy8_A NP95-like ring finger protein, isoform A; ubiquitin-like domain, NP95/ICBP90-like ring finger (NIRF), ubiquitin ligase, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=99.50  E-value=7.5e-14  Score=113.81  Aligned_cols=77  Identities=23%  Similarity=0.389  Sum_probs=71.0

Q ss_pred             CCCcEEEEEEeCCC-CEEEE-EecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeee
Q 012310            7 SPKALQLFVKLLNG-KTTTL-NFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRL   80 (466)
Q Consensus         7 s~~~MqIfVKtldG-kT~tL-~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL   80 (466)
                      ....|+|+|++++| ++++| .|. ++.||.+||.+|++..+||++.|+|+|+|++|.|+.+|.+|    +++|+|++|+
T Consensus         4 ~~~~m~i~Vk~~~g~~~~~l~~v~-~~~tV~~lK~~i~~~~gip~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~~~   82 (89)
T 1wy8_A            4 GSSGMWIQVRTIDGSKTCTIEDVS-RKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFDYDVGLNDIIQLLVRP   82 (89)
T ss_dssp             CSSCEEEEEEETTCSCEEEEEEEC-TTCBHHHHHHHHHHHSCCCTTTEEEEETTEECCSSSBHHHHTCCTTCEEEEEECC
T ss_pred             CCCcEEEEEEECCCCceEEEEecC-CCCCHHHHHHHHHHHHCcChhhEEEEECCeECCCCCCHHHCCCCCCCEEEEEEeC
Confidence            45789999999999 69999 597 89999999999999999999999999999999999998875    5799999999


Q ss_pred             cCCC
Q 012310           81 LGGK   84 (466)
Q Consensus        81 ~GGK   84 (466)
                      +||+
T Consensus        83 ~gG~   86 (89)
T 1wy8_A           83 DSGP   86 (89)
T ss_dssp             CCSS
T ss_pred             CCCC
Confidence            9996

>2kdi_A Ubiquitin, vacuolar protein sorting-associated protein 27 fusion protein; ubiquitin interacting motif, UIM, protein domain interface; NMR {Saccharomyces cerevisiae}

Probab=99.50  E-value=1.2e-13  Score=119.49  Aligned_cols=90  Identities=38%  Similarity=0.484  Sum_probs=81.1

Q ss_pred             CCCCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeee
Q 012310            5 ATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRL   80 (466)
Q Consensus         5 ~~s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL   80 (466)
                      +|-.-.++|+|++++|+++++.|. ++.||.+||.+|++..|||++.|+|+|+|++|.|+.+|.+|    +++|+|++|+
T Consensus         4 ~~~~~~~~i~vk~l~G~~~~l~v~-~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~~~   82 (114)
T 2kdi_A            4 HHHHGEFQIFAKTLTGKTITLEVE-SSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSDYNIQRESTLHLVLRL   82 (114)
T ss_dssp             SCCCCCCEEEEEETTCCEEEEECC-TTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTTTTTCCSSCEEEEEECC
T ss_pred             cccCCcEEEEEEeCCCcEEEEEEC-CCCcHHHHHHHHHHHHCcChHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEEc
Confidence            445678999999999999999997 89999999999999999999999999999999999999886    5799999999


Q ss_pred             cCCCcccCc---chhhhh
Q 012310           81 LGGKGGFGS---LLRGAA   95 (466)
Q Consensus        81 ~GGKGGFGS---~LRa~g   95 (466)
                      +||+.+|..   .+.|..
T Consensus        83 ~GG~~~~~~~~~~~~g~~  100 (114)
T 2kdi_A           83 RGGSMGGAADEEELIRKA  100 (114)
T ss_dssp             CSSCCCSSCSSSHHHHHH
T ss_pred             CCCceeeccccccccCce
Confidence            999999977   445443

>1sif_A Ubiquitin; hydrophobic mutants, folding, stability, structural protein; 2.18A {Homo sapiens} SCOP: d.15.1.1

Probab=99.50  E-value=4.6e-14  Score=116.01  Aligned_cols=76  Identities=42%  Similarity=0.576  Sum_probs=64.1

Q ss_pred             CcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCCC
Q 012310            9 KALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGGK   84 (466)
Q Consensus         9 ~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GGK   84 (466)
                      .-|+|+|++++|+++.+.|+ ++.||.+||.+|++.++||++.|+|+|+|+.|.|+.+|.+|    +++|+|++|++||+
T Consensus         8 ~~~~i~v~~~~G~~~~l~v~-~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~r~~GG~   86 (88)
T 1sif_A            8 QGLQLFIKTLTGKTFTVEME-PSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGG   86 (88)
T ss_dssp             --CEEEEEETTSCEEEEECC-TTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBSGGGTCCTTCEEEEEC------
T ss_pred             cceEEEEEeCCCCEEEEEEC-CCChHHHHHHHHHHHHCcChhhEEEEECCEECCCCCcHHHcCCCCCCEEEEEEeCCCCC
Confidence            46999999999999999997 89999999999999999999999999999999999999886    57999999999997


Q ss_pred             c
Q 012310           85 G   85 (466)
Q Consensus        85 G   85 (466)
                      .
T Consensus        87 ~   87 (88)
T 1sif_A           87 L   87 (88)
T ss_dssp             -
T ss_pred             C
Confidence            3

>3q3f_A Ribonuclease/ubiquitin chimeric protein; domain SWAP, oligomerization, ubiquitin insertion, hydrolase binding; 2.17A {Bacillus amyloliquefaciens}

Probab=99.49  E-value=4.7e-14  Score=132.78  Aligned_cols=80  Identities=41%  Similarity=0.539  Sum_probs=75.5

Q ss_pred             CcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCCC
Q 012310            9 KALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGGK   84 (466)
Q Consensus         9 ~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GGK   84 (466)
                      -.|||||++++|++++|.|. +++||.+||.+|++.++||+++|+|+|+|++|.|+.+|.+|    +++|+|++|++||+
T Consensus       104 ~eMqI~VKtl~Gkt~~l~V~-~s~TV~~LK~kI~~~~gIp~~~QrLi~~Gk~L~D~~tL~dygI~~gstI~LvlrlrGG~  182 (189)
T 3q3f_A          104 YGGQIFVKTLTGKTITLEVE-PSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGG  182 (189)
T ss_dssp             CCEEEEEECTTSCEEEEEEC-TTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTCBGGGGTCCTTCEEEECCCCCCCC
T ss_pred             cceeeeeecCCCCEEEEEeC-CCCcHHHHHHHHHhccCCCHHHEEEEECCEECCCCCCHHHCCCCCCCEEEEEEEcCCCC
Confidence            46999999999999999997 89999999999999999999999999999999999999886    57999999999999


Q ss_pred             cccCc
Q 012310           85 GGFGS   89 (466)
Q Consensus        85 GGFGS   89 (466)
                      ++|..
T Consensus       183 ~~fvk  187 (189)
T 3q3f_A          183 QTFTK  187 (189)
T ss_dssp             CCCCC
T ss_pred             cceEe
Confidence            99974

>2hj8_A Interferon-induced 17 kDa protein; HR2873B, human ISG15, structure, northeast structural genomics consortium, protein structure initiative, NESG; NMR {Homo sapiens}

Probab=99.49  E-value=5.2e-14  Score=115.58  Aligned_cols=75  Identities=21%  Similarity=0.303  Sum_probs=65.8

Q ss_pred             cEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCCCc
Q 012310           10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGGKG   85 (466)
Q Consensus        10 ~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GGKG   85 (466)
                      +|+|+|++++|+++++.|. ++.||.+||.+|+...|||++.|+|+|+|++|.|+.+|.+|    +++|+|+++++|||-
T Consensus         4 ~m~I~Vk~~~g~~~~~~v~-~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~~I~~g~~i~l~~~~~gg~~   82 (88)
T 2hj8_A            4 PLSILVRNNKGRSSTYEVR-LTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRLRGGLE   82 (88)
T ss_dssp             EEEEEEEETTSCEEEEEEE-SSSBHHHHHHHHHHHTCSCTTTEEEESSSSCCCTTSBHHHHHCSTTCEEEEEEC------
T ss_pred             cEEEEEECCCCCEEEEEEC-CCCcHHHHHHHHHHHhCCChhHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEEcCCCcc
Confidence            7999999999999999998 89999999999999999999999999999999999999875    679999999999984

>3a9j_A Ubiquitin; protein complex, cytoplasm, isopeptide bond, metal-binding, zinc; 1.18A {Mus musculus} PDB: 3a1q_B 2znv_B 3a9k_A 3h7p_A 3jsv_A 3dvg_Y 3dvn_Y 3nob_A 2o6v_D* 3jw0_X 3jvz_X 3nhe_B* 1aar_A 1d3z_A 1f9j_A 1fxt_B 1g6j_A 1nbf_C 1cmx_B 1q5w_B ...

Probab=99.49  E-value=9.3e-14  Score=108.71  Aligned_cols=72  Identities=44%  Similarity=0.627  Sum_probs=68.3

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCC
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGG   83 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GG   83 (466)
                      |+|+|++++|+++.+.++ ++.||.+||.+|++..++|++.|+|+|+|+.|.|+.+|.+|    +++|+|++|++||
T Consensus         1 M~i~vk~~~g~~~~i~v~-~~~tv~~lK~~i~~~~~i~~~~q~L~~~g~~L~d~~tL~~~~i~~g~~i~l~~~~~GG   76 (76)
T 3a9j_A            1 MQIFVKTLTGKTITLEVE-PSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQRESTLHLVLRLRGG   76 (76)
T ss_dssp             CEEEEEETTSCEEEEECC-TTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTGGGTCCTTCEEEEEECCCCC
T ss_pred             CEEEEEcCCCCEEEEEEC-CCCcHHHHHHHHHHHHCcCHHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEEeCCCC
Confidence            899999999999999997 89999999999999999999999999999999999999886    6799999999998

>4dwf_A HLA-B-associated transcript 3; ubiquitin-like domain, BAT3 protein, PF00240, structural GEN joint center for structural genomics, JCSG; 1.80A {Homo sapiens} PDB: 1wx9_A

Probab=99.48  E-value=1.2e-13  Score=113.08  Aligned_cols=76  Identities=30%  Similarity=0.429  Sum_probs=69.7

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC---CCceeEEeeecCCC
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD---HITFNLVLRLLGGK   84 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~---gsTL~LvlRL~GGK   84 (466)
                      +.+|+|||++++|++++|.|. ++.||.+||.+|+..++||++.|+|+|+|+.|.|+.+|.+|   +++|+|++|++++-
T Consensus         3 ~~~m~i~Vk~~~g~~~~~~v~-~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~d~~tL~~~~i~g~~i~l~~~~~~~~   81 (90)
T 4dwf_A            3 PDSLEVLVKTLDSQTRTFIVG-AQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYNVGGKVIHLVERAPPQT   81 (90)
T ss_dssp             CCEEEEEEEETTCCEEEEEEE-TTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTCTTEEEEEEECCCC--
T ss_pred             CcEEEEEEEcCCCCEEEEEEC-CCCCHHHHHHHHHHHhCCCHHHEEEEECCeECCCCCCHHHcCCCCcEEEEEecCCCCC
Confidence            578999999999999999998 89999999999999999999999999999999999999886   57999999987764

>3vdz_A Ubiquitin-40S ribosomal protein S27A; gadolinium, MRI contrast agent, peptide-based contrast agent lanthanide binding TAG; 2.40A {Synthetic construct} PDB: 2ojr_A

Probab=99.47  E-value=1e-13  Score=119.16  Aligned_cols=74  Identities=45%  Similarity=0.611  Sum_probs=69.4

Q ss_pred             CcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCC
Q 012310            9 KALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGG   83 (466)
Q Consensus         9 ~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GG   83 (466)
                      ..|+|+|++++|+++.|.|. ++.||.+||.+|+...+||++.|+|+|+|++|.|+.+|.+|    +++|+|++|++||
T Consensus        34 ~~m~I~Vk~~~G~~~~l~v~-~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~gI~~gs~I~l~~rl~GG  111 (111)
T 3vdz_A           34 LAMQIFVKTLTGKTITLEVE-PSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG  111 (111)
T ss_dssp             GCEEEEEECSSSCEEEEEEC-TTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTTTTTCCTTCEEEEEECCCC-
T ss_pred             ccEEEEEEeCCCCEEEEEeC-CCCCHHHHHHHHHHHhCCChHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEecCCC
Confidence            57999999999999999997 89999999999999999999999999999999999999886    5799999999998

>3k9o_B Ubiquitin, UBB+1; E2-25K, complex structure, ATP-binding, isopeptide BO ligase, nucleotide-binding, UBL conjugation pathway; 1.80A {Homo sapiens} PDB: 2k25_A 2kx0_A

Probab=99.47  E-value=1.1e-13  Score=114.34  Aligned_cols=73  Identities=42%  Similarity=0.568  Sum_probs=67.9

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCCC
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGGK   84 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GGK   84 (466)
                      |+|+|++++|++++|.|. ++.||.+||.+|+..++||++.|+|+|+|+.|.|+.+|.+|    +++|+|++|++||.
T Consensus         2 m~i~vk~~~g~~~~~~v~-~~~TV~~LK~~i~~~~gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~i~l~~r~~gG~   78 (96)
T 3k9o_B            2 MQIFVKTLTGKTITLEVE-PSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGYA   78 (96)
T ss_dssp             CEEEEEETTCCEEEEECC-TTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECCCC--
T ss_pred             cEEEEEeCCCCEEEEEEC-CCCCHHHHHHHHHhhhCCChhHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEEcCCCC
Confidence            899999999999999997 89999999999999999999999999999999999999886    57999999999985

>2kan_A Uncharacterized protein AR3433A; ubiquitin fold, alpha+beta, structural genomics, protein structure initiative; NMR {Arabidopsis thaliana}

Probab=99.47  E-value=1.3e-13  Score=115.30  Aligned_cols=77  Identities=17%  Similarity=0.262  Sum_probs=70.9

Q ss_pred             CCCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCC-CccccC----CCceeEEeee
Q 012310            6 TSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDR-TVISDD----HITFNLVLRL   80 (466)
Q Consensus         6 ~s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~Ds-stLss~----gsTL~LvlRL   80 (466)
                      .+...|+|||+++.| ++++.|. ++.||.+||.+|+..+|||+++|+|+|+|++|.|+ .+|.+|    +++|+|++|+
T Consensus        11 ~~~~~~~I~Vk~~~~-~~~l~v~-~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~~tL~~ygI~~gstl~lv~r~   88 (94)
T 2kan_A           11 AAVRKIHVTVKFPSK-QFTVEVD-RTETVSSLKDKIHIVENTPIKRMQLYYSGIELADDYRNLNEYGITEFSEIVVFLKS   88 (94)
T ss_dssp             SSSCCEEEEEECSSC-EEEEEEC-TTCBHHHHHHHHHHHSSSCTTTEEEEETTEEECCTTSBHHHHTCCTTEEEEEEECC
T ss_pred             cCCCCEEEEEEcCCc-EEEEEEC-CCCcHHHHHHHHHHHHCcCHHHEEEEECCEECCCCcccHHHCCCCCCCEEEEEEeC
Confidence            346789999999988 8999997 89999999999999999999999999999999999 899875    5699999999


Q ss_pred             cCCC
Q 012310           81 LGGK   84 (466)
Q Consensus        81 ~GGK   84 (466)
                      +||+
T Consensus        89 ~gg~   92 (94)
T 2kan_A           89 INRA   92 (94)
T ss_dssp             CSSC
T ss_pred             CCCC
Confidence            9996

>3v6c_B Ubiquitin; structural genomics, structural genomics consortium, SGC, UB protease, hydrolase-signaling protein complex; 1.70A {Homo sapiens} PDB: 3v6e_B

Probab=99.46  E-value=2.3e-13  Score=112.00  Aligned_cols=75  Identities=36%  Similarity=0.504  Sum_probs=69.5

Q ss_pred             CCCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeec
Q 012310            6 TSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLL   81 (466)
Q Consensus         6 ~s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~   81 (466)
                      +++..|+|+|++++|+++.+.|. ++.||.+||.+|++.+|||++.|+|+|+|+.|.|+.+|.+|    +++|+|++||+
T Consensus        13 ~~~~~m~i~Vk~~~g~~~~l~v~-~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~rlr   91 (91)
T 3v6c_B           13 VPRGSMQIFVNTLTGTHITLEVE-PSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR   91 (91)
T ss_dssp             CCCCSEEEEEECTTSCEEEEEEC-TTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTCBTGGGTCCTTCEEEEECCCC
T ss_pred             CCCCeEEEEEEeCCCCEEEEEEC-CCCCHHHHHHHHHhhhCCChhhEEEEECCeECCCcCcHHHCCCCCCCEEEEEEecC
Confidence            34678999999999999999997 89999999999999999999999999999999999999886    57999999985

>2xzm_9 RPS31E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_9

Probab=99.43  E-value=1.1e-14  Score=137.23  Aligned_cols=73  Identities=26%  Similarity=0.449  Sum_probs=1.1

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccCCCceeEEeeecCCCc
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDHITFNLVLRLLGGKG   85 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~gsTL~LvlRL~GGKG   85 (466)
                      |+|||++++|++++|.|. |++||.+||.+|++.+|||+++|+|+|+|++|.|+.+|+ .++||+|++||+||+-
T Consensus         1 MqI~VKtL~GktitLeV~-~sdTV~~LK~kI~~keGIP~~qQRLIf~GK~LeD~~TLs-~~STLhLvlRLrGG~~   73 (189)
T 2xzm_9            1 MQVQVKTLEGETKIYTLE-QGTSVLDLKSQISQDMGFEIDMMTLVNNGFIAPNTELVT-DDVTYYLSLKLLGGKK   73 (189)
T ss_dssp             -------------------------------------------------------------------------CC
T ss_pred             CEEEEEcCCCCEEEEEEC-CcChHHHHHHHHHHHhCcChhHEEEEecCeECCCCCccc-CCCEEEEEEecCCCcc
Confidence            899999999999999997 899999999999999999999999999999999999998 8899999999999973

>3plu_A Ubiquitin-like modifier HUB1; ubiquitin-like, HUB-1, SNU66, peptide binding protein; 1.40A {Saccharomyces cerevisiae} PDB: 3plv_A 1m94_A 1p0r_A

Probab=99.43  E-value=3.1e-13  Score=114.16  Aligned_cols=70  Identities=16%  Similarity=0.115  Sum_probs=64.3

Q ss_pred             CCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEE
Q 012310            7 SPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLV   77 (466)
Q Consensus         7 s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~Lv   77 (466)
                      .+.+|+|||+++.|++++|.|. |++||.+||++|+++.|||+++|||+|+|++|.|..+|.+|    +++|+|.
T Consensus        18 ~~~mIqI~Vk~~~Gkk~~v~v~-p~DTI~~LK~~I~~k~Gip~~qQrLif~Gk~LkD~~TL~dY~I~dgstLhL~   91 (93)
T 3plu_A           18 GSHMIEVVVNDRLGKKVRVKCL-GEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKDHISLEDYEVHDQTNLELY   91 (93)
T ss_dssp             --CEEEEEEECTTSCEEEEEEE-TTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEE
T ss_pred             CCceEEEEEECCCCCEEEEEEC-CcCHHHHHHHHHHHHhCCCHHHEEEEeCCEEccCcCCHHHcCCCCCCEEEEE
Confidence            5789999999999999999998 99999999999999999999999999999999999999987    5688774

>3u30_A Ubiquitin, linear DI-ubiquitin; immune system; 2.43A {Homo sapiens}

Probab=99.42  E-value=2.6e-13  Score=123.73  Aligned_cols=84  Identities=40%  Similarity=0.526  Sum_probs=75.5

Q ss_pred             CCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecC
Q 012310            7 SPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLG   82 (466)
Q Consensus         7 s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~G   82 (466)
                      .+..|+|||++++|++++|.|. +++||.+||.+|++.+|||+++|+|+|+|++|.|+.+|.+|    +++|+|+++++|
T Consensus        17 ~~~~m~i~Vk~~~g~~~~l~v~-~~~tV~~lK~~I~~~~gip~~~QrL~~~g~~L~d~~tL~~~~i~~~~~l~l~~~~~g   95 (172)
T 3u30_A           17 RGSHMQIFVKTLTGKTITLEVE-PSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG   95 (172)
T ss_dssp             --CCEEEEEEETTTEEEEEEEC-TTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTGGGTCCTTCEEEEEECCCC
T ss_pred             CCCcEEEEEEeCCCCEEEEEEC-CCCcHHHHHHHHHHHHCcChHHEEEEECCccccccCCHhHcCCcccceeeeeecccc
Confidence            3578999999999999999997 89999999999999999999999999999999999999886    569999999999


Q ss_pred             CCcccCcch
Q 012310           83 GKGGFGSLL   91 (466)
Q Consensus        83 GKGGFGS~L   91 (466)
                      |...|...+
T Consensus        96 g~~i~Vk~~  104 (172)
T 3u30_A           96 GMQIFVKTL  104 (172)
T ss_dssp             CEEEEEEES
T ss_pred             cccceeecc
Confidence            987775443

>1we6_A Splicing factor, putative; structural genomics, ubiquitin-like domain, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: d.15.1.1

Probab=99.42  E-value=3.2e-13  Score=115.61  Aligned_cols=76  Identities=21%  Similarity=0.222  Sum_probs=71.2

Q ss_pred             CCcEEEEEEeC---CCCEEEEEecCC-CCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEee
Q 012310            8 PKALQLFVKLL---NGKTTTLNFTTC-HVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLR   79 (466)
Q Consensus         8 ~~~MqIfVKtl---dGkT~tL~V~sP-s~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlR   79 (466)
                      +..|+|+|+++   +|+++++.|. + +.||.+||.+|+..+|||++.|+|+|+|++|.|+.+|.+|    +++|+|++|
T Consensus        25 ~~~i~i~Vk~~~~~~g~~~~l~v~-~l~~TV~~LK~~I~~~~gip~~~QrL~~~Gk~L~D~~tL~~y~I~~g~~l~l~~r  103 (111)
T 1we6_A           25 PGPATIRVSKPNENDGQFMEITVQ-SLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMSLAHYNVGAGEILTLSLR  103 (111)
T ss_dssp             CSCEEEEECCTTCSSSCCEEEEES-CSSSBHHHHHHHHHHHTTCCTTTSEEECSSSBCCTTSBTTTTTCSSSCEEEEECS
T ss_pred             CCcEEEEEEecccCCCcEEEEEec-CCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCCcHHHCCCCCCCEEEEEEE
Confidence            46799999999   8999999997 7 9999999999999999999999999999999999999886    579999999


Q ss_pred             ecCCC
Q 012310           80 LLGGK   84 (466)
Q Consensus        80 L~GGK   84 (466)
                      ++|||
T Consensus       104 ~~GGk  108 (111)
T 1we6_A          104 ERSGP  108 (111)
T ss_dssp             SCCSS
T ss_pred             cCCCC
Confidence            99997

>1wgd_A Homocysteine-responsive endoplasmic reticulum- resident ubiquitin-like domain member...; ENDPLASMIC reticulum stress, UBL domain; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=99.42  E-value=3.6e-13  Score=111.42  Aligned_cols=78  Identities=24%  Similarity=0.247  Sum_probs=69.8

Q ss_pred             CCCcEEEEEEeCCCC--EEEEEecCCCCCHHHHHHHHHHhh--CCCCCCeEEEecCeecCCCCccccC------CCceeE
Q 012310            7 SPKALQLFVKLLNGK--TTTLNFTTCHVYGHEIKNRIYEAT--KIPTHLQRLIYSGLQLKDRTVISDD------HITFNL   76 (466)
Q Consensus         7 s~~~MqIfVKtldGk--T~tL~V~sPs~TVsdLK~rI~e~~--GIP~e~QRLIfnGK~L~DsstLss~------gsTL~L   76 (466)
                      ....|+|+|++++|+  +++|.+. ++.||.+||++|++.+  +||+++|||+|+|++|.|+.+|.+|      +++|||
T Consensus         4 ~~~~m~i~Vk~~~~~~~~~~v~v~-~~~TV~~lK~~I~~~~~~~i~~~~QrLi~~Gk~L~D~~tL~~~~~~i~~~~~i~l   82 (93)
T 1wgd_A            4 GSSGVTLLVKSPNQRHRDLELSGD-RGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCLRDLLPKQEKRHVLHL   82 (93)
T ss_dssp             CSCCCEEEEECSSSSCCCEEEECC-TTSCHHHHHHHHHHHSTTCCCTTTCEEEETTEECCSSSCHHHHSCSSSCSEEEEE
T ss_pred             CCcEEEEEEEeCCCCeEEEEEecC-CCCcHHHHHHHHHHHhcCCCChHHeEEEECCEECcCcCCHHHHhcCCCCCCEEEE
Confidence            356799999999998  6788886 7999999999999998  9999999999999999999888876      359999


Q ss_pred             EeeecCCCc
Q 012310           77 VLRLLGGKG   85 (466)
Q Consensus        77 vlRL~GGKG   85 (466)
                      ++|++||+.
T Consensus        83 v~~~~gg~~   91 (93)
T 1wgd_A           83 VCNVKSGPS   91 (93)
T ss_dssp             ECCCCCCCC
T ss_pred             EeCCCCCCC
Confidence            999999974

>2l7r_A Ubiquitin-like protein FUBI; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; NMR {Homo sapiens}

Probab=99.42  E-value=2.1e-13  Score=113.41  Aligned_cols=73  Identities=25%  Similarity=0.347  Sum_probs=66.3

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCC
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGG   83 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GG   83 (466)
                      +..|+|+|++  |+++++.|. ++.||.+||.+|++..+||++.|+|+|+|++|.|+.+|.+|    +++|+|++|++||
T Consensus        17 ~~~m~I~Vk~--g~~~~l~v~-~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~y~I~~gstI~lv~rl~GG   93 (93)
T 2l7r_A           17 RGSMQLFVRA--QELHTFEVT-GQETVAQIKAHVASLEGIAPEDQVVLLAGAPLEDEATLGQCGVEALTTLEVAGRMLGG   93 (93)
T ss_dssp             ---CEEEEES--SSEEEEECC-SSCBHHHHHHHHHHHHTCCGGGCEEEETTEECCTTSBHHHHTCCSSCEEEEECCCCCC
T ss_pred             CCcEEEEEEC--CCEEEEEeC-CCCcHHHHHHHHHHHhCcChhHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEecCCC
Confidence            4579999998  899999997 89999999999999999999999999999999999998875    6799999999998

>3rt3_B Ubiquitin-like protein ISG15; ubiquitin-like domain, isgylation, antiviral protein-viral P complex; 2.01A {Homo sapiens} PDB: 3sdl_C 3r66_C 3pse_B 1z2m_A

Probab=99.41  E-value=5.3e-13  Score=119.71  Aligned_cols=75  Identities=21%  Similarity=0.318  Sum_probs=69.6

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCC
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGG   83 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GG   83 (466)
                      +..|+|+|++++|+++++.+. ++.||.+||.+|+...|||++.|+|+|+|++|.|+.+|.+|    +++|+|++|++||
T Consensus        79 ~~~m~i~vk~~~g~~~~~~v~-~~~tV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~y~i~~g~~l~l~~rl~GG  157 (159)
T 3rt3_B           79 DEPLSILVRNNKGRSSTYEVR-LTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRLRGG  157 (159)
T ss_dssp             CCCEEEEEECTTSCEEEEEEC-TTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEECCC--
T ss_pred             CCcEEEEEECCCCCEEEEEeC-CCCCHHHHHHHHHHHHCCCHHHEEEEECCeecCCCCCHHHcCCCCCCEEEEEEecCCC
Confidence            568999999999999999997 89999999999999999999999999999999999999987    5799999999998

>3l0w_B Monoubiquitinated proliferating cell nuclear antigen, proliferating cell nuclear antigen; replication, DNA damage, DNA repair; 2.80A {Saccharomyces cerevisiae} PDB: 3l10_B

Probab=99.41  E-value=4.8e-13  Score=123.25  Aligned_cols=76  Identities=43%  Similarity=0.624  Sum_probs=69.0

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCCCcc
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGGKGG   86 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GGKGG   86 (466)
                      |+|+|++++|+++++.|. +++||.+||.+|++..|||+++|+|+|+|++|.|+.+|.+|    +++|+|++|++||+..
T Consensus         1 MqI~Vk~~~Gk~~~l~v~-~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~y~I~~gstI~Lvlrl~GG~k~   79 (169)
T 3l0w_B            1 MQIFVKTLTGKTITLEVE-SSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGGGE   79 (169)
T ss_dssp             CEEEEEETTSCEEEEECC-TTCBHHHHHHHHHHHHCCCTTTEEEEETTEECCTTSBGGGGTCCTTCEEEEEECCCC---C
T ss_pred             CEEEEEeCCCCEEEEEeC-CCCCHHHHHHHHHHHHCcCHHHEEEEECCccccCcCcHHHcCCCCCCEEEEEEEecccccc
Confidence            899999999999999997 89999999999999999999999999999999999999886    5799999999999854


Q ss_pred             c
Q 012310           87 F   87 (466)
Q Consensus        87 F   87 (466)
                      .
T Consensus        80 ~   80 (169)
T 3l0w_B           80 T   80 (169)
T ss_dssp             C
T ss_pred             c
Confidence            4

>2ojr_A Ubiquitin; lanthide-binding TAG, terbium, TB, SAD phasing, protein binding; 2.60A {Homo sapiens}

Probab=99.41  E-value=8.7e-13  Score=113.05  Aligned_cols=75  Identities=44%  Similarity=0.593  Sum_probs=69.7

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCC
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGG   83 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GG   83 (466)
                      ...|+|+|++++|+++.+.|. ++.||.+||.+|++..+||++.|+|+|+|+.|.|+.+|.+|    +++|+|++|++||
T Consensus        33 ~~~m~I~Vk~~~g~~~~l~v~-~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~gI~~gs~I~l~~rl~GG  111 (111)
T 2ojr_A           33 LLAMQIFVKTLTGKTITLEVE-PSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG  111 (111)
T ss_dssp             SSCEEEEEECSSSCEEEEEEC-TTCBHHHHHHHHHHHHCCCTTTEEEEETTEECCSSCBTTTTTCCTTCEEEEEECCCC-
T ss_pred             CCeEEEEEEcCCCCEEEEEeC-CCCCHHHHHHHHHHHHCcCcccEEEEECCEECCCCCcHHHcCCCCCCEEEEEEeCCCC
Confidence            468999999999999999997 89999999999999999999999999999999999999886    6799999999997

>4eew_A Large proline-rich protein BAG6; ubiquitin-like fold, GP78-binding, chaperone; 1.30A {Homo sapiens}

Probab=99.41  E-value=7.3e-13  Score=107.90  Aligned_cols=72  Identities=32%  Similarity=0.481  Sum_probs=66.4

Q ss_pred             CCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC---CCceeEEee
Q 012310            7 SPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD---HITFNLVLR   79 (466)
Q Consensus         7 s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~---gsTL~LvlR   79 (466)
                      .+..|+|+|++++|+++++.+. ++.||.+||.+|++.+|||++.|+|+|+|+.|.|+.+|.+|   +++|||++|
T Consensus        14 ~~~~m~i~Vk~~~g~~~~~~v~-~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i~g~~i~lv~R   88 (88)
T 4eew_A           14 EPDSLEVLVKTLDSQTRTFIVG-AQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYNVGGKVIHLVER   88 (88)
T ss_dssp             -CCEEEEEEEETTSCEEEEEEE-TTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTCTTEEEEEEEC
T ss_pred             CCCeEEEEEEcCCCCEEEEEEC-CCCCHHHHHHHHHHHhCCCHHHEEEEECCEECCCCCcHHHcCCCCcEEEEEEC
Confidence            3578999999999999999998 89999999999999999999999999999999999999886   568999876

>2dzi_A Ubiquitin-like protein 4A; GDX, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.39  E-value=1.6e-12  Score=103.48  Aligned_cols=74  Identities=30%  Similarity=0.446  Sum_probs=68.4

Q ss_pred             CCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeec
Q 012310            7 SPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLL   81 (466)
Q Consensus         7 s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~   81 (466)
                      ++.+|+|+|++++|+++++.|. ++.||.+||.+|++..+||++.|+|+|+|+.|.|+.+|.+|    +++|+|++|++
T Consensus         4 ~~~~m~i~vk~~~g~~~~~~v~-~~~tV~~LK~~i~~~~~i~~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~~~~   81 (81)
T 2dzi_A            4 GSSGMQLTVKALQGRECSLQVP-EDELVSTLKQLVSEKLNVPVRQQRLLFKGKALADGKRLSDYSIGPNSKLNLVVKPL   81 (81)
T ss_dssp             SSSSEEEEEEETTSCEEEEEEC-SSCBHHHHHHHHHHHTCCCTTTCEEEETTEECCTTSBGGGGTCCSSBCCEEECCCC
T ss_pred             CCCcEEEEEEeCCCCEEEEEEC-CCCcHHHHHHHHHHHHCcCHHHEEEEECCeECCCCCcHHHcCCCCCCEEEEEEeCC
Confidence            5678999999999999999997 89999999999999999999999999999999999999886    57999998874

>1wx8_A Riken cDNA 4931431F19; ubiquitin-like domain, ubiquilin 1-like, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.15.1.1

Probab=99.39  E-value=6e-13  Score=110.38  Aligned_cols=78  Identities=19%  Similarity=0.252  Sum_probs=71.6

Q ss_pred             CCCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeec
Q 012310            6 TSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLL   81 (466)
Q Consensus         6 ~s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~   81 (466)
                      .++..|+|+|+++ |+++++.|. ++.||.+||.+|++.++||++.|+|+|+|+.|.|+.+|.+|    +++|+|++|++
T Consensus        13 ~~~~~m~i~Vk~~-g~~~~~~v~-~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~~~~   90 (96)
T 1wx8_A           13 PSSRIIRVSVKTP-QDCHEFFLA-ENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDILSQRGILDGSTVHVVVRSH   90 (96)
T ss_dssp             CCSCEEEEEEECS-SSEEEEEEE-TTCCHHHHHHHHHHHTCSCTTTBCCEETTEECCTTSCHHHHTCCTTEEEECCBCCS
T ss_pred             CCCCcEEEEEEEC-CeEEEEEEC-CCCCHHHHHHHHHHHhCCCHHHEEEEECCEECCCcCCHHHCCCCCCCEEEEEEeCC
Confidence            3567899999998 999999998 89999999999999999999999999999999999998875    56999999999


Q ss_pred             CCCc
Q 012310           82 GGKG   85 (466)
Q Consensus        82 GGKG   85 (466)
                      ||+.
T Consensus        91 ~g~~   94 (96)
T 1wx8_A           91 SGPS   94 (96)
T ss_dssp             SCSS
T ss_pred             CCCC
Confidence            9873

>2kk8_A Uncharacterized protein AT4G05270; solution arabidopsis thaliana, uncharacterized putative protein, NESG, structural genomics; NMR {Arabidopsis thaliana}

Probab=99.38  E-value=1.6e-12  Score=106.53  Aligned_cols=77  Identities=19%  Similarity=0.286  Sum_probs=69.2

Q ss_pred             CCCCCCCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCee-cCCCCccccC----CCceeE
Q 012310            2 EDQATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQ-LKDRTVISDD----HITFNL   76 (466)
Q Consensus         2 ~~~~~s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~-L~DsstLss~----gsTL~L   76 (466)
                      --.++-.+.|+|||++++|+++++.|+ ++.||.+||.+|++..|||+++|+|+|+|++ |.|+.+|.+|    +++|+|
T Consensus         2 ~~~~~~~~~~~i~vk~l~g~~~~l~v~-~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~lL~D~~tL~~y~I~~gs~i~l   80 (84)
T 2kk8_A            2 GHHHHHHSHMKFLVENLNGSSFELEVD-YRDTLLVVKQKIERSQHIPVSKQTLIVDGIVILREDLTVEQCQIVPTSDIQL   80 (84)
T ss_dssp             CCCCCCCCCEEEEEEETTSCEEEEEEC-TTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCCSSSBHHHHTCCTTSCEEE
T ss_pred             CccccccCceEEEEEecCCcEEEEEEC-CCChHHHHHHHHHHHHCcChHHEEEEECCEEecCCcCCHHHcCCCCCCEEEE
Confidence            333556789999999999999999997 8999999999999999999999999999999 9999999875    568988


Q ss_pred             Eee
Q 012310           77 VLR   79 (466)
Q Consensus        77 vlR   79 (466)
                      ++|
T Consensus        81 v~~   83 (84)
T 2kk8_A           81 EVS   83 (84)
T ss_dssp             EEC
T ss_pred             EEc
Confidence            876

>2faz_A Ubiquitin-like containing PHD and ring finger DOM protein 1; cell cycle, DNA damage, DNA repair, DNA-binding, ligase, Met binding, nuclear protein; 2.00A {Homo sapiens} SCOP: d.15.1.1

Probab=99.38  E-value=1.7e-12  Score=103.08  Aligned_cols=71  Identities=27%  Similarity=0.429  Sum_probs=65.5

Q ss_pred             cEEEEEEeCCCCEE-EEE-ecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeec
Q 012310           10 ALQLFVKLLNGKTT-TLN-FTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLL   81 (466)
Q Consensus        10 ~MqIfVKtldGkT~-tL~-V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~   81 (466)
                      .|+|+|++++|+++ ++. +. ++.||.+||.+|++..|||++.|+|+|+|++|.|+.+|.+|    +++|+|++|++
T Consensus         2 ~m~i~Vk~~~g~~~~~l~~v~-~~~tv~~lK~~i~~~~gip~~~qrL~~~g~~L~d~~tL~~~~i~~g~~i~l~~r~~   78 (78)
T 2faz_A            2 SMWIQVRTMDGRQTHTVDSLS-RLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFDYEVRLNDTIQLLVRQS   78 (78)
T ss_dssp             CEEEEEEETTSSCEEEEEEEC-TTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTTTTTCCTTCEEEEEECCC
T ss_pred             cEEEEEEECCCCEEEEEeccC-CCCCHHHHHHHHHHHHCcChhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEEeCC
Confidence            69999999999985 998 97 89999999999999999999999999999999999999886    56999999863

>1wgh_A Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fold, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: d.15.1.1

Probab=99.37  E-value=1.8e-12  Score=113.42  Aligned_cols=77  Identities=22%  Similarity=0.344  Sum_probs=68.5

Q ss_pred             CCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHH------hhCC--CCCCeEEEecCeecCCCCccccCC------C
Q 012310            7 SPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYE------ATKI--PTHLQRLIYSGLQLKDRTVISDDH------I   72 (466)
Q Consensus         7 s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e------~~GI--P~e~QRLIfnGK~L~DsstLss~g------s   72 (466)
                      +...|+|+|++++|++++|.|. |++||.+||++|++      .+++  |+++|||||+|++|.|+.+|++|+      .
T Consensus        13 ~~~~m~I~vKtl~G~t~~lev~-~s~TV~~lK~kI~~~~p~dwke~~p~p~~qqrLIy~GK~LeD~~TL~~y~I~~~~~~   91 (116)
T 1wgh_A           13 PADMINLRLILVSGKTKEFLFS-PNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTT   91 (116)
T ss_dssp             CSSSEEEEEECSSSCEEEEEEC-TTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSSCBTTTTTCCSSCEE
T ss_pred             CCCeEEEEEEeCCCCEEEEEEC-CcCHHHHHHHHHHHhcccccccCCCCChHHEEEEECCcCCCCCCcHHHcCCCCCCce
Confidence            3567999999999999999998 89999999999998      5575  699999999999999999999875      4


Q ss_pred             ceeEEeeecCCC
Q 012310           73 TFNLVLRLLGGK   84 (466)
Q Consensus        73 TL~LvlRL~GGK   84 (466)
                      ||||++|+.+..
T Consensus        92 tlhLvlr~~~~~  103 (116)
T 1wgh_A           92 VMHLVARETLPE  103 (116)
T ss_dssp             EEEEEECSSCSS
T ss_pred             EEEEEccCCCCC
Confidence            799999987554

>3b1l_X E3 ubiquitin-protein ligase parkin; proteasome, ALFA-beta-protein; 1.85A {Mus musculus} PDB: 1mg8_A 2zeq_A 2knb_A 1iyf_A

Probab=99.03  E-value=9e-14  Score=109.82  Aligned_cols=71  Identities=14%  Similarity=0.263  Sum_probs=67.0

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecC
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLG   82 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~G   82 (466)
                      |+|+|++++|+++++.+. ++.||.+||.+|+...|||++.|+|+|+|+.|.|+.+|.+|    +++|+|++|++|
T Consensus         1 M~i~Vk~~~g~~~~~~v~-~~~tV~~lK~~i~~~~gi~~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~rlrg   75 (76)
T 3b1l_X            1 MIVFVRFNSSYGFPVEVD-SDTSILQLKEVVAKQQGVPADQLRVIFAGKELPNHLTVQNCDLEQQSIVHIVQRPRR   75 (76)
Confidence            899999999999999997 89999999999999999999999999999999999999886    579999999986

>1yqb_A Ubiquilin 3; structural genomics consortium, ubiquitin, ubiquitin-like domain, structural genomics, signaling protein SGC; 2.00A {Homo sapiens} SCOP: d.15.1.1

Probab=99.34  E-value=2.2e-12  Score=108.94  Aligned_cols=77  Identities=23%  Similarity=0.261  Sum_probs=70.7

Q ss_pred             CCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecC
Q 012310            7 SPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLG   82 (466)
Q Consensus         7 s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~G   82 (466)
                      .+..|+|+|++++|+ +++.|. ++.||.+||.+|++..+||++.|+|+|+|+.|.|+.+|.+|    +++|+|++|++|
T Consensus        19 ~~~~m~I~Vk~~~g~-~~l~v~-~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~~   96 (100)
T 1yqb_A           19 SPHLIKVTVKTPKDK-EDFSVT-DTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIKRQH   96 (100)
T ss_dssp             CTTEEEEEEECSSCE-EEEEEE-TTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBHHHHTCCTTCEEEEEECCCC
T ss_pred             CCCeEEEEEEcCCCc-EEEEEC-CCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCcCcHHHCCCCCCCEEEEEEcCCC
Confidence            567899999999986 689998 89999999999999999999999999999999999999875    679999999999


Q ss_pred             CCc
Q 012310           83 GKG   85 (466)
Q Consensus        83 GKG   85 (466)
                      |..
T Consensus        97 ~p~   99 (100)
T 1yqb_A           97 RAM   99 (100)
T ss_dssp             SCC
T ss_pred             CCC
Confidence            875

>1se9_A Ubiquitin family; ubiquitin-like, cell-free, wheat GERM, structural genomics, protein structure initiative, CESG; NMR {Arabidopsis thaliana} SCOP: d.15.1.1

Probab=99.33  E-value=3.8e-12  Score=112.97  Aligned_cols=77  Identities=17%  Similarity=0.247  Sum_probs=68.4

Q ss_pred             CCCcEEEEEEeCCCCEE-EEEecCCCCCHHHHHHHH-----HHhhCCCC--CCeEEEecCeecCCCCccccC----C---
Q 012310            7 SPKALQLFVKLLNGKTT-TLNFTTCHVYGHEIKNRI-----YEATKIPT--HLQRLIYSGLQLKDRTVISDD----H---   71 (466)
Q Consensus         7 s~~~MqIfVKtldGkT~-tL~V~sPs~TVsdLK~rI-----~e~~GIP~--e~QRLIfnGK~L~DsstLss~----g---   71 (466)
                      ....|+|+|++++|+.+ .+.++ |++||.+||++|     ++..+||+  ++|||||+|++|.|+.+|++|    +   
T Consensus        13 ~~~~~~i~~kt~~G~~i~~l~v~-psdTV~~lK~kI~~~~p~dkegiP~~~~qQrLIy~GK~LeD~~TLsdy~I~~~~~~   91 (126)
T 1se9_A           13 VHNQLEIKFRLTDGSDIGPKAFP-DATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKTVKDYRSPVSNLA   91 (126)
T ss_dssp             SCCCEEEEEEETTSCEEEEEEEC-TTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTSBGGGGSCCTTSCT
T ss_pred             hcccEEEEEEECCCCEEEeeecC-ccCHHHHHHHHHHhhcccccccCCCChhhEEEEECCeECcCCCcHHHcCCCcCCcc
Confidence            35689999999999987 79998 899999999999     45678997  799999999999999999986    3   


Q ss_pred             ---CceeEEeeecCCC
Q 012310           72 ---ITFNLVLRLLGGK   84 (466)
Q Consensus        72 ---sTL~LvlRL~GGK   84 (466)
                         .|+||++|++||+
T Consensus        92 ~~v~tmhlVlrl~g~~  107 (126)
T 1se9_A           92 GAVTTMHVIIQAPVTE  107 (126)
T ss_dssp             TCCEEEEEEECCCSSC
T ss_pred             CCcEEEEEEeccCCcc
Confidence               5799999999885

>2gow_A HCG-1 protein, ubiquitin-like protein 3; BC059385, structural genomics, protein structure initiative, PSI; NMR {Homo sapiens}

Probab=99.33  E-value=3.1e-12  Score=113.17  Aligned_cols=78  Identities=22%  Similarity=0.324  Sum_probs=69.6

Q ss_pred             CCCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHH------hhCCC--CCCeEEEecCeecCCCCccccCC----C-
Q 012310            6 TSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYE------ATKIP--THLQRLIYSGLQLKDRTVISDDH----I-   72 (466)
Q Consensus         6 ~s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e------~~GIP--~e~QRLIfnGK~L~DsstLss~g----s-   72 (466)
                      +..+.|+|+|++++|++++|.|. |++||.+||++|+.      .+++|  +++|||||+|++|.|+.+|++|+    + 
T Consensus        13 ~~~~~m~I~vktl~G~~~~lev~-~s~TV~~lK~~I~~~~p~dwke~ip~~~~~qrLIy~GK~LeD~~TL~~y~I~~~~~   91 (125)
T 2gow_A           13 VPADMINLRLILVSGKTKEFLFS-PNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKT   91 (125)
T ss_dssp             CCTTCEEEEEECTTSCEEEEEEC-TTSBHHHHHHHHHSSCCCSCCCCTTCCGGGEEEESSSSEEESSCBTGGGCCCTTSE
T ss_pred             CCCCeEEEEEEeCCCCEEEEEeC-CccHHHHHHHHHHHHCCcccccCCCCChHHEEEEECCcCCCCCCcHHHcCCCCCCc
Confidence            34677999999999999999998 89999999999998      67885  89999999999999999999874    3 


Q ss_pred             -ceeEEeeecCCC
Q 012310           73 -TFNLVLRLLGGK   84 (466)
Q Consensus        73 -TL~LvlRL~GGK   84 (466)
                       ||+|++|++++.
T Consensus        92 ~tlhlv~r~~~~~  104 (125)
T 2gow_A           92 TVMHLVARETLPE  104 (125)
T ss_dssp             EEEEEEECSCCSS
T ss_pred             eEEEEEecCCCCc
Confidence             799999998764

>3rt3_B Ubiquitin-like protein ISG15; ubiquitin-like domain, isgylation, antiviral protein-viral P complex; 2.01A {Homo sapiens} PDB: 3sdl_C 3r66_C 3pse_B 1z2m_A

Probab=99.33  E-value=2.3e-12  Score=115.54  Aligned_cols=104  Identities=22%  Similarity=0.235  Sum_probs=85.4

Q ss_pred             cEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEE-e-cCeecCCCCccccC----CCceeEEee-ecC
Q 012310           10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLI-Y-SGLQLKDRTVISDD----HITFNLVLR-LLG   82 (466)
Q Consensus        10 ~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLI-f-nGK~L~DsstLss~----gsTL~LvlR-L~G   82 (466)
                      .|+|+|++++|+++++.|. +++||.+||.+|+..+|||+++|+|+ | +|++|.|+.+|.+|    +++|+|+++ +++
T Consensus         2 ~m~i~vk~~~g~~~~l~v~-~~~tV~~lK~~I~~~~gip~~~QrL~~~~~g~~L~d~~tL~~y~i~~~~~l~l~~~~~~~   80 (159)
T 3rt3_B            2 GWDLTVKMLAGNEFQVSLS-SSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVVDKSDE   80 (159)
T ss_dssp             -CEEEEEETTSCEEEEECC-TTCCHHHHHHHHHHHHCCCGGGEEEEEETTCCBCCTTSCGGGGTCCTTCEEEEEECCCCC
T ss_pred             ceEEEEEECCCCEEEEEeC-CCCcHHHHHHHHHHHhCCCHHHEEEEEcCCCCCCCCCCCHHHcCCCCCCEEEEEccCCCC
Confidence            4999999999999999997 89999999999999999999999999 9 89999999999986    679999999 577


Q ss_pred             CCcccCcchhhhhhhhccccccCcccccccCCCcc-cccchHHHHHHHHHHHHH
Q 012310           83 GKGGFGSLLRGAATKAGQKKTNNFDACRDMSGRRL-RHVNAEKKLEEWKAEEEE  135 (466)
Q Consensus        83 GKGGFGS~LRa~g~r~~~kKt~n~daCRdL~GRRl-r~Vn~ek~l~e~~~~~~~  135 (466)
                      +...|...                     ++|+.+ .+|.+...+.+.+++.++
T Consensus        81 ~m~i~vk~---------------------~~g~~~~~~v~~~~tV~~lK~~i~~  113 (159)
T 3rt3_B           81 PLSILVRN---------------------NKGRSSTYEVRLTQTVAHLKQQVSG  113 (159)
T ss_dssp             CEEEEEEC---------------------TTSCEEEEEECTTSBHHHHHHHHHH
T ss_pred             cEEEEEEC---------------------CCCCEEEEEeCCCCCHHHHHHHHHH
Confidence            76555433                     333332 367777777777766543

>1uh6_A Ubiquitin-like 5; beta-grAsp fold, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: d.15.1.1

Probab=99.32  E-value=2.2e-12  Score=110.31  Aligned_cols=69  Identities=14%  Similarity=0.054  Sum_probs=63.9

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEE
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLV   77 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~Lv   77 (466)
                      ..+|+|||+++.|++++|.|. |++||.+||.+|+++.|||+++|||+|+|++|.|+.+|.+|    +++|+|+
T Consensus        26 ~~mm~I~VKtl~Gk~i~lev~-p~dTV~~lK~~Ia~k~Gip~~qQrLi~~Gk~L~D~~TL~dygI~~gstlhL~   98 (100)
T 1uh6_A           26 ATMIEVVCNDRLGKKVRVKCN-TDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHVSLGDYEIHDGMNLELY   98 (100)
T ss_dssp             CCEEEEEEECSSSSCEEEEEE-TTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCSSCBHHHHTCCTTEEEEEE
T ss_pred             CCeEEEEEECCCCCEEEEEeC-CCCcHHHHHHHHHHHhCCCHHHEEEEECCEECCCCCCHHHcCCCCCCEEEEE
Confidence            456999999999999999998 89999999999999999999999999999999999999886    4688876

>2wyq_A HHR23A, UV excision repair protein RAD23 homolog A; DNA binding protein, DNA excision repair, proteasomal degrad polyubiquitin; 1.65A {Homo sapiens} PDB: 1p98_A 1p9d_U 1p1a_A

Probab=99.32  E-value=6.2e-12  Score=101.20  Aligned_cols=72  Identities=24%  Similarity=0.286  Sum_probs=65.1

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHh---hCCCCCCeEEEecCeecCCCCccccC----CCceeEEeee
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEA---TKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRL   80 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~---~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL   80 (466)
                      +..|+|+|++++|+++++.|. ++.||.+||.+|+..   .|||++.|+|+|+|+.|.|+.+|.+|    +++|+|+++.
T Consensus         3 ~~~m~i~vk~~~g~~~~~~v~-~~~TV~~lK~~i~~~~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~i~l~~~~   81 (85)
T 2wyq_A            3 PMAVTITLKTLQQQTFKIRME-PDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMVTK   81 (85)
T ss_dssp             -CCEEEEEEETTSCEEEEEEC-TTSBHHHHHHHHHHHHCTTTCCGGGEEEEETTEECCTTSBGGGGCCCTTSEEEEEEC-
T ss_pred             CceEEEEEEECCCCEEEEEEC-CCCCHHHHHHHHHhhccccCCCHHHeEEEECCEECcCCCCHHHcCCCCCCEEEEEEcC
Confidence            678999999999999999997 899999999999997   89999999999999999999999886    5688888764

>1j8c_A Ubiquitin-like protein hplic-2; ubiquitin-like domain, structural genomics; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=99.31  E-value=9.2e-12  Score=109.53  Aligned_cols=76  Identities=22%  Similarity=0.270  Sum_probs=65.6

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCC
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGG   83 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GG   83 (466)
                      ...|+|+|+++ |++++|.|. ++.||.+||.+|+..++||++.|+|+|+|+.|.|+.+|.+|    +++|+|+++++||
T Consensus        30 ~~~m~I~Vk~~-g~~~~l~v~-~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~dygI~~gstI~lv~~~~gg  107 (125)
T 1j8c_A           30 PKIIKVTVKTP-KEKEEFAVP-ENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQHGIHDGLTVHLVIKRDPN  107 (125)
T ss_dssp             CCCEEEEEECS-SCEEEEEEC-TTCCHHHHHHHHHHHHCSCSSSEEEEETTEEESTTSCGGGTTCSSSEEEEEEEC----
T ss_pred             CCcEEEEEEeC-CeEEEEEEC-CCCcHHHHHHHHHHHHCcCcceEEEEECCEEcCCCCCHHHcCCCCCCEEEEEeccCCC
Confidence            46799999999 999999997 89999999999999999999999999999999999999886    5699999999998


Q ss_pred             Cc
Q 012310           84 KG   85 (466)
Q Consensus        84 KG   85 (466)
                      +.
T Consensus       108 ~~  109 (125)
T 1j8c_A          108 SS  109 (125)
T ss_dssp             --
T ss_pred             CC
Confidence            74

>1we7_A SF3A1 protein; structural genomics, ubiquitin-like domain, riken structural genomics/proteomics initiative, RSGI, gene regulation; NMR {Mus musculus} SCOP: d.15.1.1 PDB: 1zkh_A

Probab=99.31  E-value=4.5e-12  Score=109.26  Aligned_cols=76  Identities=25%  Similarity=0.325  Sum_probs=69.1

Q ss_pred             CCcEEEEEEeC----------CCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCc
Q 012310            8 PKALQLFVKLL----------NGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HIT   73 (466)
Q Consensus         8 ~~~MqIfVKtl----------dGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsT   73 (466)
                      +..|+|+|+.+          +|+++++.|. ++.||.+||.+|+...|||++.|+|+|+|+.|.|+.+|.+|    +++
T Consensus        23 ~~~i~l~V~~p~~~~~~~~~L~G~~~~l~v~-~~~TV~~LK~~I~~~~gip~~~QrL~~~Gk~L~D~~tL~~y~i~~g~~  101 (115)
T 1we7_A           23 KGPVSIKVQVPNMQDKTEWKLNGQGLVFTLP-LTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMASGAV  101 (115)
T ss_dssp             CSCEEEEEEECCCSSSCSSCCSSEEEEEEEC-SCSBTHHHHHHHHHHSSCCTTTEEEEETTEEECTTSBHHHHTCCSSCE
T ss_pred             CCCEEEEEEcCCCccccccccCCeEEEEEEC-CCCCHHHHHHHHHHHHCCChHHEEEEECCEECCCCCCHHHCCCCCCCE
Confidence            45788999876          4789999997 89999999999999999999999999999999999998875    679


Q ss_pred             eeEEeeecCCC
Q 012310           74 FNLVLRLLGGK   84 (466)
Q Consensus        74 L~LvlRL~GGK   84 (466)
                      |+|++|++|||
T Consensus       102 i~lv~rl~GGk  112 (115)
T 1we7_A          102 IHLALKERSGP  112 (115)
T ss_dssp             EEEEECCCSCC
T ss_pred             EEEEEEcCCCC
Confidence            99999999997

>3u30_A Ubiquitin, linear DI-ubiquitin; immune system; 2.43A {Homo sapiens}

Probab=99.30  E-value=4.4e-12  Score=115.61  Aligned_cols=75  Identities=43%  Similarity=0.595  Sum_probs=65.9

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCC
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGG   83 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GG   83 (466)
                      ...|+|+|++++|+++++.+. ++.||.+||.+|+..+|||++.|+|+|+|++|.|+.+|.+|    +++|+|++||+||
T Consensus        94 ~gg~~i~Vk~~~g~~~~l~v~-~~~tV~~lK~~I~~~~gip~~~q~L~~~g~~L~D~~tL~~y~i~~g~tl~l~~rlrgG  172 (172)
T 3u30_A           94 RGGMQIFVKTLTGKTITLEVE-PSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG  172 (172)
T ss_dssp             CCCEEEEEEESSCCEEEEEEC-TTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTSBSGGGTCCTTCEEEECC-----
T ss_pred             cccccceeecccCcceeEEec-CCCCHHHHHHHHHHHhCCCceeEEEEECCccCCCCCcHHHhCCCCCCEEEEEEecCCC
Confidence            457999999999999999997 89999999999999999999999999999999999999886    5799999999997

>1wx7_A Ubiquilin 3; ubiquitin-like domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=99.29  E-value=7.7e-12  Score=106.06  Aligned_cols=77  Identities=23%  Similarity=0.280  Sum_probs=70.2

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCC
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGG   83 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GG   83 (466)
                      +..|+|+|+++.|+ +.|.|. ++.||.+||.+|++.++||++.|+|+|+|+.|.|+.+|.+|    +++|+|++|+.||
T Consensus        15 ~~~m~I~Vk~~~g~-~~l~v~-~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~gi~~g~~i~l~~~~~~~   92 (106)
T 1wx7_A           15 PHLIKVTVKTPKDK-EDFSVT-DTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIKRQHR   92 (106)
T ss_dssp             SSEEEEEEECSSCE-EEEEEE-TTCCHHHHHHHHHHHHTCCTTTEEEEETTEECCTTSCHHHHTCCTTEEEEEEECCCCC
T ss_pred             CceEEEEEEeCCCc-EEEEEC-CCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCcCcHHHcCCCCCCEEEEEEcCCCC
Confidence            56799999999886 789997 79999999999999999999999999999999999898875    5699999999999


Q ss_pred             Ccc
Q 012310           84 KGG   86 (466)
Q Consensus        84 KGG   86 (466)
                      +.+
T Consensus        93 ~~~   95 (106)
T 1wx7_A           93 AMG   95 (106)
T ss_dssp             SCC
T ss_pred             CCC
Confidence            853

>3b08_A Polyubiquitin-C, ubiquitin; protein complex, signaling protein-metal binding protein COM; HET: TRE; 1.70A {Homo sapiens} PDB: 2w9n_A* 3b0a_A* 3axc_A 2zvn_A 2zvo_A 2y5b_B

Probab=99.27  E-value=1.4e-11  Score=108.35  Aligned_cols=75  Identities=43%  Similarity=0.595  Sum_probs=69.4

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCC
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGG   83 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GG   83 (466)
                      +..|+|+|++++|+++.+.+. ++.||.+||.+|+...|||++.|+|+|+|+.|.|+.+|.+|    +++|+|++|++||
T Consensus        74 ~~~~~i~Vk~~~g~~~~~~v~-~~~tv~~lK~~i~~~~gi~~~~qrL~~~g~~L~d~~tL~~~~i~~~~~i~l~~r~~GG  152 (152)
T 3b08_A           74 RGGMQIFVKTLTGKTITLEVE-PSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG  152 (152)
T ss_dssp             TTCEEEEEEESSSCEEEEEEC-TTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECCCC-
T ss_pred             ccccceeeeecCCCEEEEEeC-CCCcHHHHHHHHHHHhCcChhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEEecCCC
Confidence            346999999999999999997 89999999999999999999999999999999999999886    5799999999998

>2lxa_A Ubiquitin-like protein MDY2; ubiquitin-like domain, protein-protein interaction, SGT2 BIN domain, GET pathway, protein binding; NMR {Saccharomyces cerevisiae}

Probab=99.27  E-value=4.2e-12  Score=105.46  Aligned_cols=70  Identities=17%  Similarity=0.215  Sum_probs=61.2

Q ss_pred             cEEEEEEeCCCCEEEEEec-CCCCCHHHHHHHH-HHhhCCCCCCeEEEecCeecCCCCccccCC-----CceeEEee
Q 012310           10 ALQLFVKLLNGKTTTLNFT-TCHVYGHEIKNRI-YEATKIPTHLQRLIYSGLQLKDRTVISDDH-----ITFNLVLR   79 (466)
Q Consensus        10 ~MqIfVKtldGkT~tL~V~-sPs~TVsdLK~rI-~e~~GIP~e~QRLIfnGK~L~DsstLss~g-----sTL~LvlR   79 (466)
                      +|+||||++.|++++|.+. .|++||.+||++| ++..|||+++|||+|+|++|.|+.+|++|+     ++|+|+++
T Consensus         1 mmqI~VKtl~g~~~~i~v~v~~~~TV~~lK~~I~~~~~gip~~~QrLi~~Gk~L~D~~tL~~y~I~~~~stl~v~~~   77 (87)
T 2lxa_A            1 MVHLTLKKIQAPKFSIEHDFSPSDTILQIKQHLISEEKASHISEIKLLLKGKVLHDNLFLSDLKVTPANSTITVMIK   77 (87)
T ss_dssp             CCEEEEEECSSSCEECCEECCTTCBHHHHHHHHHHTTSCSSSTTEEEEETTEECCTTCBHHHHCCCGGGCEEEEEEC
T ss_pred             CEEEEEEcCCCCEEEEEEcCCCCCcHHHHHHHHHHHhcCCChHHEEEEECCEECcCcCCHHHcCCCCCCCEEEEEcC
Confidence            4999999999998888743 2799999999999 999999999999999999999999998864     46777664

>3u5c_f 40S ribosomal protein S31; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3u5g_f

Probab=99.27  E-value=4.1e-13  Score=122.29  Aligned_cols=73  Identities=44%  Similarity=0.633  Sum_probs=0.0

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCCC
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGGK   84 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GGK   84 (466)
                      |+|+|++++|++++|.|+ +++||.+||.+|++.+|||+++|+|+|+|++|.|+.+|.+|    +++|+|++|++||.
T Consensus         1 MqI~VK~l~G~~~~l~V~-~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~dygI~~gstL~Lvlrl~GGg   77 (152)
T 3u5c_f            1 MQIFVKTLTGKTITLEVE-SSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGG   77 (152)
T ss_dssp             ------------------------------------------------------------------------------
T ss_pred             CEEEEEeCCCCEEEEEEC-CCCCHHHHHHHHHHHhCCCHHHEEEEECCEEccccCcHHHcCCCCCCEEEEEeeccCCC
Confidence            899999999999999997 89999999999999999999999999999999999999886    57999999999983

>3m62_B UV excision repair protein RAD23; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=99.27  E-value=6.4e-12  Score=107.08  Aligned_cols=71  Identities=18%  Similarity=0.192  Sum_probs=63.9

Q ss_pred             cEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeec
Q 012310           10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLL   81 (466)
Q Consensus        10 ~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~   81 (466)
                      +|+|+|++++|++++|.|. ++.||.+||.+|+...|||++.|+|+|+|++|.|+.+|.+|    +++|+|+++..
T Consensus         1 mm~I~Vk~~~g~~~~l~v~-~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~~i~~g~~i~lv~~~~   75 (106)
T 3m62_B            1 MVSLTFKNFKKEKVPLDLE-PSNTILETKTKLAQSISCEESQIKLIYSGKVLQDSKTVSECGLKDGDQVVFMVSQK   75 (106)
T ss_dssp             --CEEEECTTCCEEEECCC-TTSBHHHHHHHHHHTTTSCGGGCEEEETTEECCTTSBTTTTTCCTTCEEEEECCC-
T ss_pred             CEEEEEEeCCCCEEEEEEC-CCCcHHHHHHHHHHHHCCChhhEEEEECCEECCCcCCHHHcCCCCCCEEEEEEcCC
Confidence            4899999999999999997 89999999999999999999999999999999999999887    56899988753

>1ttn_A DC-UBP, dendritic cell-derived ubiquitin-like protein; ubiquitin-like domain, solution structure, signaling protein; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=99.26  E-value=1.1e-11  Score=105.38  Aligned_cols=75  Identities=20%  Similarity=0.208  Sum_probs=68.2

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCC
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGG   83 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GG   83 (466)
                      ...|+|+|++++|+++++.|. ++.||.+||.+|+...|||++.|+|+|+|++|.|+.+|.+|    +++|+|+++...+
T Consensus        21 ~~~m~I~Vk~~~g~~~~l~v~-~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~g~ti~lv~~~~~~   99 (106)
T 1ttn_A           21 GYECQLRLRLSTGKDLKLVVR-STDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELKIPKDYVVQVIVSQPVQ   99 (106)
T ss_dssp             CCSEEEEEEETTTEEEEEEEC-TTSHHHHHHHHHHHTTCCCSTTCEEEETTEECCTTSHHHHCCCSSSCEEEEECCCSSC
T ss_pred             CCeEEEEEEcCCCCEEEEEeC-CCCcHHHHHHHHHHHHCcCcccEEEEECCEECCCCCcHHHcCCCCCCEEEEEEeCCCC
Confidence            457999999999999999997 89999999999999999999999999999999999999876    5799999886543

>1v2y_A 3300001G02RIK protein; hypothetical protein, ubiquitin-like fold, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.15.1.1

Probab=99.26  E-value=4.8e-12  Score=108.92  Aligned_cols=76  Identities=14%  Similarity=0.184  Sum_probs=68.0

Q ss_pred             CCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCC---------------CCeEEEecCeecC-CCCccccC
Q 012310            7 SPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPT---------------HLQRLIYSGLQLK-DRTVISDD   70 (466)
Q Consensus         7 s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~---------------e~QRLIfnGK~L~-DsstLss~   70 (466)
                      ....|+|+|++++|++++|.|. |+.||.+||.+|++..++|+               .+|+|+|+|++|. |+.+|.+|
T Consensus         4 ~~~~M~I~Vk~l~g~~~~v~V~-~~~TV~dLK~~I~~~~~i~~~~q~g~~~isw~~~w~q~~Li~~Gk~L~dD~~tL~dy   82 (105)
T 1v2y_A            4 GSSGMTVRVCKMDGEVMPVVVV-QNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKKLRDY   82 (105)
T ss_dssp             CCCSEEEEEECSSSCEEEEEEC-TTCBHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHTTEEEESSSCEECCSSSBHHHH
T ss_pred             CCCcEEEEEEecCCCEEEEEEC-CCChHHHHHHHHHHHhCCCcccccCcceeeeeecceeEEEEeCCcCccCCcCCHHHc
Confidence            4567999999999999999998 89999999999999999987               4679999999996 56889886


Q ss_pred             ----CCceeEEeeecCC
Q 012310           71 ----HITFNLVLRLLGG   83 (466)
Q Consensus        71 ----gsTL~LvlRL~GG   83 (466)
                          +++|+|++||+|.
T Consensus        83 gI~~g~~l~lv~~lr~~   99 (105)
T 1v2y_A           83 GIRNRDEVSFIKKLGQK   99 (105)
T ss_dssp             TCCSSEEEEEEECSCSC
T ss_pred             CCCCCCEEEEEehhccC
Confidence                5799999999875

>3b08_A Polyubiquitin-C, ubiquitin; protein complex, signaling protein-metal binding protein COM; HET: TRE; 1.70A {Homo sapiens} PDB: 2w9n_A* 3b0a_A* 3axc_A 2zvn_A 2zvo_A 2y5b_B

Probab=99.26  E-value=9.1e-12  Score=109.55  Aligned_cols=102  Identities=38%  Similarity=0.518  Sum_probs=83.9

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCCCcc
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGGKGG   86 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GGKGG   86 (466)
                      |+|+|++++|+++++.|. ++.||.+||.+|++..|+|++.|+|+|+|+.|.|+.+|.+|    +++|+|+.+++||...
T Consensus         1 M~i~vk~~~g~~~~~~v~-~~~tv~~lK~~i~~~~gip~~~q~L~~~g~~L~d~~tL~~~~i~~~~~l~l~~~~~~~~~i   79 (152)
T 3b08_A            1 MQIFVKTLTGKTITLEVE-PSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGMQI   79 (152)
T ss_dssp             CEEEEEETTSCEEEEECC-TTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECCTTCEEE
T ss_pred             CEEEEEeCCCCEEEEEEC-CCCCHHHHHHHHHHHHCcChHHeEEEECCeECcCcccHHHhccCCCCeeEEEeecccccce
Confidence            899999999999999997 89999999999999999999999999999999999999886    5799999999888655


Q ss_pred             cCcchhhhhhhhccccccCcccccccCCCc-ccccchHHHHHHHHHHHH
Q 012310           87 FGSLLRGAATKAGQKKTNNFDACRDMSGRR-LRHVNAEKKLEEWKAEEE  134 (466)
Q Consensus        87 FGS~LRa~g~r~~~kKt~n~daCRdL~GRR-lr~Vn~ek~l~e~~~~~~  134 (466)
                      |...+                     +|+. -.+|+....+.++++..+
T Consensus        80 ~Vk~~---------------------~g~~~~~~v~~~~tv~~lK~~i~  107 (152)
T 3b08_A           80 FVKTL---------------------TGKTITLEVEPSDTIENVKAKIQ  107 (152)
T ss_dssp             EEEES---------------------SSCEEEEEECTTCBHHHHHHHHH
T ss_pred             eeeec---------------------CCCEEEEEeCCCCcHHHHHHHHH
Confidence            54333                     2322 235666667777765543

>4a20_A Ubiquitin-like protein MDY2; protein binding, GET-pathway, tail-anchored proteins; 1.78A {Saccharomyces cerevisiae} PDB: 2lxc_A 4goc_A

Probab=99.25  E-value=1.6e-11  Score=104.19  Aligned_cols=73  Identities=19%  Similarity=0.252  Sum_probs=62.3

Q ss_pred             CCCCcEEEEEEeCCCCEEEE--EecCCCCCHHHHHHHH-HHhhCCCCCCeEEEecCeecCCCCccccCC-----CceeEE
Q 012310            6 TSPKALQLFVKLLNGKTTTL--NFTTCHVYGHEIKNRI-YEATKIPTHLQRLIYSGLQLKDRTVISDDH-----ITFNLV   77 (466)
Q Consensus         6 ~s~~~MqIfVKtldGkT~tL--~V~sPs~TVsdLK~rI-~e~~GIP~e~QRLIfnGK~L~DsstLss~g-----sTL~Lv   77 (466)
                      ..+.+|+|+|+++.|+++++  .|. ++.||.+||++| ++..|+|+++|||+|+|++|.|+.+|++|+     ++|+|+
T Consensus        15 ~~~~~m~I~VKtl~g~~~~i~v~v~-~~~TV~~lK~~I~~~~~gip~~~QrLi~~Gk~L~D~~tL~dy~I~~~g~ti~lm   93 (98)
T 4a20_A           15 MDNAAVHLTLKKIQAPKFSIEHDFS-PSDTILQIKQHLISEEKASHISEIKLLLKGKVLHDNLFLSDLKVTPANSTITVM   93 (98)
T ss_dssp             ---CCEEEEEEECSSSCEEEEEEEC-TTCBHHHHHHHHHHTTSCSCGGGEEEEETTEEECTTCBGGGSCCBTTBCEEEEE
T ss_pred             CCCCCEEEEEEcCCCCEEEEEEecC-CCChHHHHHHHHHHHhcCCChhhEEEEECCEECcCcCCHHHcCcCCCCCEEEEE
Confidence            35678999999999997776  555 799999999999 888899999999999999999999998874     378887


Q ss_pred             ee
Q 012310           78 LR   79 (466)
Q Consensus        78 lR   79 (466)
                      ++
T Consensus        94 vs   95 (98)
T 4a20_A           94 IK   95 (98)
T ss_dssp             EC
T ss_pred             Ee
Confidence            75

>2bwf_A Ubiquitin-like protein DSK2; signaling protein, UBA, signaling proteins; 1.15A {Saccharomyces cerevisiae} SCOP: d.15.1.1 PDB: 2bwe_S

Probab=99.25  E-value=1.6e-11  Score=96.71  Aligned_cols=69  Identities=29%  Similarity=0.328  Sum_probs=63.2

Q ss_pred             CcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEee
Q 012310            9 KALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLR   79 (466)
Q Consensus         9 ~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlR   79 (466)
                      +.|+|+|++ +|+++++.++ ++.||.+||.+|+...|||++.|+|+|+|+.|.|+.+|.+|    +++|+|+.+
T Consensus         3 M~m~i~vk~-~g~~~~~~v~-~~~tV~~LK~~i~~~~~i~~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~~   75 (77)
T 2bwf_A            3 MSLNIHIKS-GQDKWEVNVA-PESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLVKS   75 (77)
T ss_dssp             EEEEEEEEE-TTEEEEEEEC-TTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEEC
T ss_pred             eEEEEEEEE-CCEEEEEEEC-CCCcHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCCCHHHcCCCCCCEEEEEEc
Confidence            569999999 9999999997 89999999999999999999999999999999999999886    568888764

>1uel_A HHR23B, UV excision repair protein RAD23 homolog B; UBL, UIM, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=99.25  E-value=2.5e-11  Score=100.97  Aligned_cols=74  Identities=20%  Similarity=0.250  Sum_probs=66.2

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHh---hCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeec-C
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEA---TKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLL-G   82 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~---~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~-G   82 (466)
                      |+|+|++++|+++++.|. ++.||.+||.+|+..   .|||++.|+|+|+|+.|.|+.+|.+|    +++|+|+++.+ +
T Consensus         1 M~I~Vk~~~g~~~~~~v~-~~~TV~~LK~~I~~~~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~g~~i~l~~~~~~~   79 (95)
T 1uel_A            1 MQVTLKTLQQQTFKIDID-PEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEYKIDEKNFVVVMVTKPKA   79 (95)
T ss_dssp             CEEEEEETTCCEEEEECC-TTSBHHHHHHHHHHHHCTTTCCTTTEEEEETTEECCTTSBGGGGTCCSSSEEEEEESSCCC
T ss_pred             CEEEEEeCCCCEEEEEEC-CCCHHHHHHHHHHhhcccCCCChhhEEEEECCEECCCcCcHHHCCCCCCCEEEEEEeCCCC
Confidence            899999999999999997 899999999999998   78999999999999999999999886    56899988754 4


Q ss_pred             CCc
Q 012310           83 GKG   85 (466)
Q Consensus        83 GKG   85 (466)
                      ++.
T Consensus        80 ~~~   82 (95)
T 1uel_A           80 VST   82 (95)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            443

>2fnj_B Transcription elongation factor B polypeptide 2; beta-sandwich, lectin-like, SPRY, protein transport/signaling protein complex; 1.80A {Mus musculus} SCOP: d.15.1.1 PDB: 1lm8_B 1lqb_A 1vcb_A 2c9w_B 2izv_B 2jz3_B 2xai_C 3dcg_A 3zrc_A* 3zrf_A

Probab=99.24  E-value=1e-11  Score=108.99  Aligned_cols=74  Identities=22%  Similarity=0.221  Sum_probs=62.6

Q ss_pred             EEEEEEeCCCC-EEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC-----------CCceeEEe
Q 012310           11 LQLFVKLLNGK-TTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD-----------HITFNLVL   78 (466)
Q Consensus        11 MqIfVKtldGk-T~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~-----------gsTL~Lvl   78 (466)
                      |+|||+...|+ +++|.|. ++.||.+||.+|+..+|||+++|||+|+|++|.|+.+|++|           ++||+|++
T Consensus         1 M~mfl~ir~~ktti~lev~-~sdTV~~lK~kI~~~egIP~~qQrLi~~Gk~LeD~~TLsdy~I~~~~a~~q~~stL~L~l   79 (118)
T 2fnj_B            1 MDVFLMIRRHKTTIFTDAK-ESSTVFELKRIVEGILKRPPEEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATVGLAF   79 (118)
T ss_dssp             CEEEEEEEEBTEEEEEEEE-TTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBHHHHTCCTTTSBTTBCEEEEEEE
T ss_pred             CcEEEEEecCCEEEEEEeC-CcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCCCCHHHcCcccccccCCCCCEEEEEe
Confidence            45566555576 5899998 89999999999999999999999999999999999998864           46899999


Q ss_pred             eecCCCcccC
Q 012310           79 RLLGGKGGFG   88 (466)
Q Consensus        79 RL~GGKGGFG   88 (466)
                      | .||  .|-
T Consensus        80 r-~~g--~fe   86 (118)
T 2fnj_B           80 R-ADD--TFE   86 (118)
T ss_dssp             B-SSS--CBC
T ss_pred             c-CCC--cee
Confidence            9 555  453

>1v5o_A 1700011N24RIK protein; hypothetical protein, ubiquitin-like fold, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.15.1.1

Probab=99.23  E-value=1.6e-11  Score=103.70  Aligned_cols=77  Identities=12%  Similarity=0.059  Sum_probs=68.6

Q ss_pred             CCCcEEEEEEeCCC----CEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCC-CccccC----CCceeEE
Q 012310            7 SPKALQLFVKLLNG----KTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDR-TVISDD----HITFNLV   77 (466)
Q Consensus         7 s~~~MqIfVKtldG----kT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~Ds-stLss~----gsTL~Lv   77 (466)
                      ....|+|+|+++.|    +++++.|. ++.||.+||.+|+..++||+++|+|+|+|++|.|+ .+|.+|    +++|+|+
T Consensus         4 ~~~~m~I~Vk~~~~~~~~~~~~i~v~-~~~TV~~LK~~I~~~~gip~~~qrL~~~gk~L~D~~~tL~~ygI~~g~~l~l~   82 (102)
T 1v5o_A            4 GSSGMLITVYCVRRDLTEVTFSLQVN-PDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVVLL   82 (102)
T ss_dssp             CSCCEEEEEEECCCCCCCCEEEEEEC-TTCBHHHHHHHHHHHTCCCGGGBCEEETTEEECCSSSBHHHHTCCTTEEEEEC
T ss_pred             CCCeEEEEEEECCCCcCceEEEEEcC-CCCCHHHHHHHHHHHHCcChHHeEEEECCEECCCCcccHHHCCCCCCCEEEEE
Confidence            35679999999755    79999997 89999999999999999999999999999999887 578875    5699999


Q ss_pred             eeecCCC
Q 012310           78 LRLLGGK   84 (466)
Q Consensus        78 lRL~GGK   84 (466)
                      .+++||-
T Consensus        83 ~~~~gg~   89 (102)
T 1v5o_A           83 QKDNVGL   89 (102)
T ss_dssp             BCCCCCC
T ss_pred             ECCCCCC
Confidence            9999885

>2kdb_A Homocysteine-responsive endoplasmic reticulum- resident ubiquitin-like domain member...; UBL domain, membrane, polymorphism, transmembrane; NMR {Homo sapiens}

Probab=99.21  E-value=1.7e-11  Score=104.01  Aligned_cols=72  Identities=26%  Similarity=0.293  Sum_probs=58.3

Q ss_pred             CCCCCcEEEEEEeCCCC--EEEEEecCCCCCHHHHHHHHHHh-hCCC-CCCeEEEecCeecCCCCccccC--C----Cce
Q 012310            5 ATSPKALQLFVKLLNGK--TTTLNFTTCHVYGHEIKNRIYEA-TKIP-THLQRLIYSGLQLKDRTVISDD--H----ITF   74 (466)
Q Consensus         5 ~~s~~~MqIfVKtldGk--T~tL~V~sPs~TVsdLK~rI~e~-~GIP-~e~QRLIfnGK~L~DsstLss~--g----sTL   74 (466)
                      ..++..|+|+|++++|+  +++|.++ |++||.+||++|++. .|+| +++|||+|+|++|.|+.+|.+|  +    ++|
T Consensus        18 ~~~~~~m~I~VK~~~g~~~~i~l~v~-~~~TV~~LK~~I~~~~~g~pp~~~QrLIy~Gk~L~D~~tL~~y~~~I~~~~ti   96 (99)
T 2kdb_A           18 YFQGHPVTLIIKAPNQKYSDQTISCF-LNWTVGKLKTHLSNVYPSKPLTKDQRLVYSGRLLPDHLQLKDILRKQDEYHMV   96 (99)
T ss_dssp             -----CEEEEEECTTSSSCCEEEEEC-TTSBHHHHHHHHHHHSTTCCCTTTCCEEETTEEECTTSBTHHHHTTTCSEEEE
T ss_pred             CCCCCeEEEEEEcCCCCEEEEEEEcC-CCCHHHHHHHHHHHHhcCCCChhhEEEEECCEECCCCCCHHHHhcCCCCCCEE
Confidence            34567899999999998  6789997 899999999999986 5666 5999999999999999999877  3    467


Q ss_pred             eEE
Q 012310           75 NLV   77 (466)
Q Consensus        75 ~Lv   77 (466)
                      +|+
T Consensus        97 hLv   99 (99)
T 2kdb_A           97 HLV   99 (99)
T ss_dssp             EEC
T ss_pred             EeC
Confidence            664

>2klc_A Ubiquilin-1; ubiquitin-like, structural genomics, PSI-2, protein structur initiative, northeast structural genomics consortium, NESG; NMR {Homo sapiens}

Probab=99.20  E-value=6.2e-11  Score=100.10  Aligned_cols=73  Identities=25%  Similarity=0.320  Sum_probs=67.1

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecC
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLG   82 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~G   82 (466)
                      +..|+|+|+++ |+++++.|. ++.||.+||.+|+...|||++.|+|+|+|+.|.|+.+|.+|    +++|+|+++++.
T Consensus        23 ~~~m~I~Vk~~-g~~~~l~v~-~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~gI~~g~~I~l~~~~~~   99 (101)
T 2klc_A           23 PKIMKVTVKTP-KEKEEFAVP-ENSSVQQFKEEISKRFKSHTDQLVLIFAGKILKDQDTLSQHGIHDGLTVHLVIKTQN   99 (101)
T ss_dssp             CCCEEEEEECS-SCEEEEEEC-SCCCHHHHHHHHHHHHTCCGGGEEEEETTEEECTTCCTGGGTCCTTCEEEEEECCSS
T ss_pred             CCeEEEEEEeC-CcEEEEEEC-CCCCHHHHHHHHHHHHCcChhhEEEEECCEECCCcCcHHHcCCCCCCEEEEEEcCCC
Confidence            56899999998 999999997 89999999999999999999999999999999999999886    568999998764

>4ajy_B Transcription elongation factor B polypeptide 2; E3 ubiquitin ligase, transcription factor, hypoxic signaling transcription; 1.73A {Homo sapiens} PDB: 1lqb_A 1vcb_A 2c9w_B 2izv_B 2jz3_B 2xai_C 3dcg_A 3zrc_A* 3zrf_A 3ztc_A* 3ztd_A* 3zun_A* 1lm8_B 4b95_A* 2fnj_B 4b9k_A* 4awj_A*

Probab=99.19  E-value=3.8e-11  Score=105.46  Aligned_cols=75  Identities=21%  Similarity=0.223  Sum_probs=66.2

Q ss_pred             EEEEEEeCCCC-EEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC-----------CCceeEEe
Q 012310           11 LQLFVKLLNGK-TTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD-----------HITFNLVL   78 (466)
Q Consensus        11 MqIfVKtldGk-T~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~-----------gsTL~Lvl   78 (466)
                      |.|||+...++ ++++.+. |+.||.+||.+|+..+|||+++|||+|+|++|.|+.+|++|           ++||+|++
T Consensus         1 m~vFl~Ikr~ktTI~ldve-~sdTV~~lK~kI~~~~giPp~qQrLI~~Gk~LeD~kTL~dy~I~~~ta~~q~~atl~Lvl   79 (118)
T 4ajy_B            1 MDVFLMIRRHKTTIFTDAK-ESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATVGLAF   79 (118)
T ss_dssp             CEEEEEEEEBTEEEEEEEE-TTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTTTTTCCGGGSBTTBCEEEEEEE
T ss_pred             CceEEEEecCCEEEEEEcC-CCChHHHHHHHHHHHHCCCHHHeEEEeCCeECCCcCCHHHcCCCcCcccCCCCCEEEEEE
Confidence            67888887777 7899998 89999999999999999999999999999999999999886           35899999


Q ss_pred             eecCCCcccCc
Q 012310           79 RLLGGKGGFGS   89 (466)
Q Consensus        79 RL~GGKGGFGS   89 (466)
                      |+ |  |.|..
T Consensus        80 r~-~--~~fE~   87 (118)
T 4ajy_B           80 RA-D--DTFEA   87 (118)
T ss_dssp             CC-S--SCCCC
T ss_pred             ec-C--CCccc
Confidence            97 4  46654

>1wju_A NEDD8 ultimate buster-1; ubiquitin-like domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, protein binding; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=99.16  E-value=4.6e-11  Score=102.10  Aligned_cols=70  Identities=19%  Similarity=0.306  Sum_probs=61.2

Q ss_pred             EEEEEeCC----CCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCC
Q 012310           12 QLFVKLLN----GKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGG   83 (466)
Q Consensus        12 qIfVKtld----GkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GG   83 (466)
                      .|.|+..+    |++++|.|. |+.||.+||.+|++.+|||+++|+|||+|++|.|+.+|.+|    +++| ++++|+|.
T Consensus        17 ti~V~~~~~~~~~~~~~lev~-~~~TV~~lK~kI~~k~gip~~qQrLI~~GKiL~D~~TL~~y~I~~gsti-~vl~lrg~   94 (100)
T 1wju_A           17 TIEVFLPPRLKKDRKNLLETR-LHITGRELRSKIAETFGLQENYIKIVINKKQLQLGKTLEEQGVAHNVKA-MVLELKQS   94 (100)
T ss_dssp             EEEEECCTTTCCSSSEEEEEE-SSSBHHHHHHHHHHHTTCCSTTCEEEETTEECCTTSBHHHHTCCSSEEE-EEECCCCC
T ss_pred             EEEEEecCCCCCCcEEEEEeC-CcCHHHHHHHHHHHHHCcCHHHeEEEeCCeECCCCCcHHHcCCCCCCEE-EEEEECCC
Confidence            44455555    778999998 89999999999999999999999999999999999999986    5688 88888765

>1wia_A Hypothetical ubiquitin-like protein (riken cDNA 2010008E23); 'structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.15.1.1

Probab=99.10  E-value=2.2e-10  Score=94.78  Aligned_cols=74  Identities=16%  Similarity=0.193  Sum_probs=65.8

Q ss_pred             CCCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCC-CccccC----CCceeEEeee
Q 012310            6 TSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDR-TVISDD----HITFNLVLRL   80 (466)
Q Consensus         6 ~s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~Ds-stLss~----gsTL~LvlRL   80 (466)
                      ++...|+|+|++++|+++.+.|. ++.||.+||.+|+...   +++|+|+|+|++|.|+ .+|.+|    +++|+|+++.
T Consensus         3 ~~~~~m~i~Vk~~~g~~~~~~v~-~~~TV~~LK~~i~~~~---~~~qrLi~~Gk~L~D~~~tL~~y~i~~g~~i~l~~~~   78 (95)
T 1wia_A            3 SGSSGINVRLKFLNDTEELAVAR-PEDTVGTLKSKYFPGQ---ESQMKLIYQGRLLQDPARTLSSLNITNNCVIHCHRSP   78 (95)
T ss_dssp             CCCCSEEEEEEETTTEEEEEEEC-SSSBHHHHHHHHSSST---TTTCEEEETTEECCCSSCBTTTTTCCTTEEEEEECCC
T ss_pred             CCCCeEEEEEEeCCCCEEEEEEC-CCCcHHHHHHHHHhhC---cCcEEEEECCEEccCCcCCHHHcCCCCCCEEEEEECC
Confidence            35678999999999999999997 8999999999999887   8899999999999998 899886    5689999887


Q ss_pred             cCC
Q 012310           81 LGG   83 (466)
Q Consensus        81 ~GG   83 (466)
                      ++.
T Consensus        79 ~~~   81 (95)
T 1wia_A           79 PGA   81 (95)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            544

>2io1_B Small ubiquitin-related modifier 3 precursor; SUMO, SENP, ULP, complex, protein binding, hydrolase; 2.60A {Homo sapiens} SCOP: d.15.1.1

Probab=99.09  E-value=2.7e-10  Score=95.78  Aligned_cols=76  Identities=13%  Similarity=0.183  Sum_probs=70.2

Q ss_pred             CCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecC
Q 012310            7 SPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLG   82 (466)
Q Consensus         7 s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~G   82 (466)
                      .+..|+|+|++.+|+.+.+.+. +++++..|+..++++.|||+.++||+|+|++|.++.++.++    +++|++++++.|
T Consensus         4 ~~~~i~ikVk~~~g~~i~~~v~-~~t~l~kl~~~y~~~~gi~~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~~~~G   82 (94)
T 2io1_B            4 MNDHINLKVAGQDGSVVQFKIK-RHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQQTG   82 (94)
T ss_dssp             --CEEEEEEECTTSCEEEEEEE-TTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCTTTTTCCTTCEEEEEECCEE
T ss_pred             CCCeEEEEEECCCCCEEEEEEC-CCCHHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEeccC
Confidence            3568999999999999999998 89999999999999999999999999999999999888874    689999999999


Q ss_pred             C
Q 012310           83 G   83 (466)
Q Consensus        83 G   83 (466)
                      |
T Consensus        83 G   83 (94)
T 2io1_B           83 G   83 (94)
T ss_dssp             S
T ss_pred             C
Confidence            9

>4dbg_A Ranbp-type and C3HC4-type zinc finger-containing; ubiquitin fold, ubiquitination, ligase; 2.71A {Homo sapiens} PDB: 2lgy_A

Probab=99.01  E-value=9.2e-10  Score=94.83  Aligned_cols=71  Identities=15%  Similarity=0.082  Sum_probs=63.9

Q ss_pred             CCcEEEEEEeCCC--CEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC-----CCceeEEee
Q 012310            8 PKALQLFVKLLNG--KTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD-----HITFNLVLR   79 (466)
Q Consensus         8 ~~~MqIfVKtldG--kT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~-----gsTL~LvlR   79 (466)
                      +..|+|+|+.+.+  .+++|.+. |++||.+||++|++.+|||++.|||+|+|+++.|+.+|.+|     ++++||++-
T Consensus        22 ~i~l~v~v~d~~s~~~~i~l~V~-ps~TV~~LK~~I~~k~Gipp~~QRli~ggkll~D~~TL~~ygI~~~G~t~hL~l~   99 (105)
T 4dbg_A           22 DIRLWVSVEDAQMHTVTIWLTVR-PDMTVASLKDMVFLDYGFPPVLQQWVIGQRLARDQETLHSHGVRQNGDSAYLYLL   99 (105)
T ss_dssp             CEEEEEEEEESSSCCEEEEEEEC-TTCBHHHHHHHHHHHHCCCGGGEEEEETTEEECTTCBTGGGTCCSTTCEEEEEEC
T ss_pred             cEEEEEEEEccCCCCceEEEEEC-CcChHHHHHHHHHHHhCCCHHHEEEeccCeEccCcCcHHHcCCCCCCCEEEEEEE
Confidence            4579999999985  68999998 99999999999999999999999999999999999998876     458999874

>1x1m_A Ubiquitin-like protein SB132; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.15.1.1

Probab=99.01  E-value=5.1e-10  Score=95.32  Aligned_cols=74  Identities=22%  Similarity=0.194  Sum_probs=64.5

Q ss_pred             CCcEEEEEEeCCC---CEEEEEecC-------C-CCCHHHHHHHHHHhh--CCCCCC-eEEEecCeecCCCCccccC---
Q 012310            8 PKALQLFVKLLNG---KTTTLNFTT-------C-HVYGHEIKNRIYEAT--KIPTHL-QRLIYSGLQLKDRTVISDD---   70 (466)
Q Consensus         8 ~~~MqIfVKtldG---kT~tL~V~s-------P-s~TVsdLK~rI~e~~--GIP~e~-QRLIfnGK~L~DsstLss~---   70 (466)
                      ...|+|+|++++|   ++++|.|+.       + +.||.+||.+|+..+  +||++. |+|+|+|+.|.|+.+|.+|   
T Consensus        10 ~~~~~i~Vk~~~~~~~~~~~l~v~~~~~~~v~~~~~TV~~LK~~i~~~~~~gip~~~~qrLi~~Gk~L~D~~tL~~y~i~   89 (107)
T 1x1m_A           10 LSDWHLAVKLADQPLAPKSILQLPETELGEYSLGGYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLKDDQTLDFYGIQ   89 (107)
T ss_dssp             CCSCCEEEEETTCTTSCCEEECCCCCSSCSSCCCCCBHHHHHHHHHHHCTTTCCCSSSEEEEETTEECCTTCBHHHHTCC
T ss_pred             CCceEEEEEeCCCCCccEEEEEecCccccccCcccCCHHHHHHHHHHHhccCCChhhcEEEEECCeECCCCCcHHHcCCC
Confidence            4579999999999   889999641       3 499999999999999  999999 9999999999999999875   


Q ss_pred             -CCceeEEeeec
Q 012310           71 -HITFNLVLRLL   81 (466)
Q Consensus        71 -gsTL~LvlRL~   81 (466)
                       +++|+|+++..
T Consensus        90 ~g~~i~lv~~~~  101 (107)
T 1x1m_A           90 PGSTVHVLRKSW  101 (107)
T ss_dssp             TTCEEEEEESSC
T ss_pred             CCCEEEEEeCCC
Confidence             56899988764

>3ai5_A Yeast enhanced green fluorescent protein, ubiquit; ubiquitin, fusion protein, fluore protein, transcription; HET: CR2; 1.40A {Aequorea victoria} PDB: 3ako_B*

Probab=99.00  E-value=7.3e-10  Score=111.27  Aligned_cols=74  Identities=41%  Similarity=0.543  Sum_probs=66.6

Q ss_pred             CCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeec
Q 012310            7 SPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLL   81 (466)
Q Consensus         7 s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~   81 (466)
                      .+..|+|+|++++|++++|.|. ++.||.+||.+|++..+||+++|+|+|+|++|.|+.+|.+|    +++|+|++||+
T Consensus       230 ~~~~MqI~VKtl~Gk~~~leV~-~s~TV~dLK~kI~~~~GIp~~~QRLi~~Gk~L~D~~TLsdygI~~gstL~LvlRLr  307 (307)
T 3ai5_A          230 ITGSMQIFVKTLTGKTITLEVE-PSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR  307 (307)
T ss_dssp             SCCCEEEEEECTTSCEEEEEEC-TTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBTGGGTCCTTCEEEEEC---
T ss_pred             CCCeEEEEEEeCCCCEEEEEEC-CCCcHHHHHHHHHHHHCcChHHEEEEeCCeecCCCCCHHHcCCCCCCEEEEEEeCC
Confidence            4678999999999999999997 89999999999999999999999999999999999999886    56999999975

>1v5t_A 8430435I17RIK protein; hypothetical protein, ubiquitin-like fold, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.15.1.1 PDB: 2kx3_A

Probab=99.00  E-value=4.3e-10  Score=92.86  Aligned_cols=70  Identities=13%  Similarity=0.175  Sum_probs=61.7

Q ss_pred             CCCcEEEEEEeCCCCEEEE-EecCCCCCHHHHHHHHHHhhCCCCCCeEEE---ecCeecCCCCccccC----CCceeEEe
Q 012310            7 SPKALQLFVKLLNGKTTTL-NFTTCHVYGHEIKNRIYEATKIPTHLQRLI---YSGLQLKDRTVISDD----HITFNLVL   78 (466)
Q Consensus         7 s~~~MqIfVKtldGkT~tL-~V~sPs~TVsdLK~rI~e~~GIP~e~QRLI---fnGK~L~DsstLss~----gsTL~Lvl   78 (466)
                      ...+|+|+|+. .|++++| .++ ++.||.+||.+|++.+|||+++|+|+   |+|++|.|+.+|.+|    +++|+|+.
T Consensus         4 ~~~~m~i~Vk~-~g~~~~i~~v~-~~~TV~~lK~~I~~~~gip~~~QkLi~~k~~Gk~L~D~~~L~~~~i~~g~~l~l~~   81 (90)
T 1v5t_A            4 GSSGLPIIVKW-GGQEYSVTTLS-EDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKLGALKLKPNTKIMMMG   81 (90)
T ss_dssp             CCCSCCEEEEE-TTEEEEECSCC-SSSBHHHHHHHHHHHTCCCTTTCEEESCEETTEECCTTSBHHHHTCCTTEEEEEEC
T ss_pred             CCceEEEEEEE-CCEEEEEEEeC-CCCCHHHHHHHHHHHHCcCHHHeEEEeeccCCcCcCCCCCHHHcCCCCCCEEEEEe
Confidence            45679999996 7999999 887 89999999999999999999999999   999999999888875    45776653

>1wgg_A Ubiquitin carboxyl-terminal hydrolase 14; ubiquitin specific protease 14, USP14, ubiquitin-like fold, structural genomics; NMR {Mus musculus} SCOP: d.15.1.1

Probab=99.00  E-value=6.9e-10  Score=93.07  Aligned_cols=69  Identities=14%  Similarity=0.149  Sum_probs=60.5

Q ss_pred             CCCcEEEEEEeCCCCEE-EEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEe
Q 012310            7 SPKALQLFVKLLNGKTT-TLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVL   78 (466)
Q Consensus         7 s~~~MqIfVKtldGkT~-tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~Lvl   78 (466)
                      ...+|+|+|+. .|+++ .|.++ ++.||.+||.+|++.+|||+++|+|+|+|++|.|+ +|.+|    +++|+|+.
T Consensus         4 ~~~~m~i~Vk~-~g~~~~~l~v~-~~~TV~~lK~~I~~~tgip~~~QkLi~~Gk~L~D~-tL~~~~I~~g~~i~l~~   77 (96)
T 1wgg_A            4 GSSGYSVTVKW-GKEKFEGVELN-TDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDD-DWGNIKMKNGMTVLMMG   77 (96)
T ss_dssp             CCCEEEEEEEE-TTEEEEEEEEE-SSSCHHHHHHHHHHHTCCCTTTSCCEETTEECCSS-CCCSCCCCSSCEEECCC
T ss_pred             CCcEEEEEEEE-CCEEEEEEEEC-CCCcHHHHHHHHHHHHCcCHHHeEEEECCcCCCCC-CHHHCCCCCCCEEEEEe
Confidence            35689999995 78999 59998 89999999999999999999999999999999998 98886    45666643

>3m63_B Ubiquitin domain-containing protein DSK2; armadillo-like repeats, UBL conjugation pathway, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=98.99  E-value=2.1e-10  Score=97.05  Aligned_cols=70  Identities=29%  Similarity=0.325  Sum_probs=61.3

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEee
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLR   79 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlR   79 (466)
                      .+.|+|+|++ .|+++.+.|. ++.||.+||.+|+..+|||++.|+|+|+|+.|.|+.+|.+|    +++|+|+.+
T Consensus        26 ~m~i~I~Vk~-~g~~~~l~v~-~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~gI~~g~tI~lv~~   99 (101)
T 3m63_B           26 AMSLNIHIKS-GQDKWEVNVA-PESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLVKS   99 (101)
T ss_dssp             ---CCEEEEC-SSCCCCBCCC-TTSBHHHHHHHHHHHHSCCSTTCCEEETTEECCTTSBTTTTTCCTTEEEEECCC
T ss_pred             CcEEEEEEEE-CCEEEEEEeC-CCCCHHHHHHHHHHHHCcChHHEEEEECCEECCCcCcHHHCCCCCCCEEEEEeC
Confidence            4568899998 8999999997 89999999999999999999999999999999999999886    468888764

>1wxv_A BAG-family molecular chaperone regulator-1; structural genomics, apoptosis, riken structural genomics/proteomics initiative, RSGI, NPPSFA; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=98.99  E-value=1.2e-09  Score=89.98  Aligned_cols=71  Identities=21%  Similarity=0.317  Sum_probs=61.1

Q ss_pred             CCCcEEEEEEeCCCCEEEEEecCCC-----CCHHHHHHHHHHhhCCCCCCeEEEecCeecCC-CCccccC----CCceeE
Q 012310            7 SPKALQLFVKLLNGKTTTLNFTTCH-----VYGHEIKNRIYEATKIPTHLQRLIYSGLQLKD-RTVISDD----HITFNL   76 (466)
Q Consensus         7 s~~~MqIfVKtldGkT~tL~V~sPs-----~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~D-sstLss~----gsTL~L   76 (466)
                      ...+|+|+|++ .|+++.+.|+ +.     .||.+||.+|++.+|||++.|+|+|+|+.|.| +.+|.+|    +++|+|
T Consensus         4 ~~~~~~v~Vk~-~~~~~~i~v~-~~~~~~~~TV~~LK~~i~~~~gip~~~qrL~~~Gk~L~D~~~~L~~~~i~~g~~i~l   81 (92)
T 1wxv_A            4 GSSGLTVTVTH-SNEKHDLHVT-SQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETPLSALGIQDGCRVML   81 (92)
T ss_dssp             CCSSEEEEEEC-SSSEEEEEEC-CCSSSSSCBHHHHHHHHHHHTCCCTTTCEEEETTEEECCSSSBHHHHTCCSSEEEEE
T ss_pred             CCCeEEEEEEE-CCEEEEEEEC-CCcCcccCcHHHHHHHHHHHHCcCHHHEEEEECCeecCCCcccHHHCCCCCCCEEEE
Confidence            45689999998 5899999997 64     99999999999999999999999999999998 5578775    457877


Q ss_pred             Eee
Q 012310           77 VLR   79 (466)
Q Consensus        77 vlR   79 (466)
                      +.+
T Consensus        82 ~~~   84 (92)
T 1wxv_A           82 IGK   84 (92)
T ss_dssp             ESC
T ss_pred             Eec
Confidence            654

>2kd0_A LRR repeats and ubiquitin-like domain-containing protein AT2G30105; ubiquitin-like protein, NESG, leucine-rich repeat, structural genomics; NMR {Arabidopsis thaliana}

Probab=98.96  E-value=2.2e-09  Score=87.79  Aligned_cols=72  Identities=19%  Similarity=0.307  Sum_probs=61.0

Q ss_pred             CCCCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEe
Q 012310            5 ATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVL   78 (466)
Q Consensus         5 ~~s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~Lvl   78 (466)
                      +++..++.+.+ +++|+++.+.|+ ++.||.+||.+|+..+|||++.|+|+|+|++|.|+.+|.+|    +++|+|+.
T Consensus         7 ~~~~~~~~~~~-~~~g~~~~l~v~-~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~l~l~~   82 (85)
T 2kd0_A            7 HHSHSTIKLTV-KFGGKSIPLSVS-PDCTVKDLKSQLQPITNVLPRGQKLIFKGKVLVETSTLKQSDVGSGAKLMLMA   82 (85)
T ss_dssp             GCSCCCEEEEE-EETTEEEEEEEC-TTSBHHHHHHHHHHHHCCCTTTCEEEETTEECCTTCBTTTTTCCTTEEEEEEC
T ss_pred             cccCCcEEEEE-EECCEEEEEEEC-CCCcHHHHHHHHHHHHCcChHHEEEEECCeECCCcCCHHHCCCCCCCEEEEEE
Confidence            34566666544 568999999997 89999999999999999999999999999999999999886    45776654

>2dzm_A FAS-associated factor 1; ubiquitin-like domain, HFAF1, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.96  E-value=8.5e-10  Score=94.00  Aligned_cols=72  Identities=17%  Similarity=0.116  Sum_probs=63.2

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEe--cCeecCCCCccccC----CCceeEEeeec
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIY--SGLQLKDRTVISDD----HITFNLVLRLL   81 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIf--nGK~L~DsstLss~----gsTL~LvlRL~   81 (466)
                      +..|++|+..+.|++++|.|+ +++||.+||++|++++|||+++|+|++  .|+ |.|+.+|++|    +++|+|+++-.
T Consensus         6 ~~~m~~~~vk~~Gk~~~v~v~-~~~TV~~LK~~I~~~tgIpp~~QkLi~~~~gk-L~D~~tLs~~~I~~gstL~lvl~~~   83 (100)
T 2dzm_A            6 SGRMLDFRVEYRDRNVDVVLE-DTCTVGEIKQILENELQIPVSKMLLKGWKTGD-VEDSTVLKSLHLPKNNSLYVLTPDL   83 (100)
T ss_dssp             CCCEEEEEEECSSCEEEEEEE-TTSBHHHHHHHHHHHHCCCTTTCCEECCSSSC-CCTTSBHHHHCCCSEEEEEECCSSS
T ss_pred             CcceEEEEEEeCCeEEEEEEC-CCCcHHHHHHHHHHHHCCChhHeEEEccCCCC-CCCcCCHHHcCCCCCCEEEEEecCC
Confidence            346999999999999999998 899999999999999999999999996  666 8888888875    56899988643

>1v86_A DNA segment, CHR 7, wayne state university 128, expressed; ubiquitin fold, structural genomics, D7WSU128E protein; HET: DNA; NMR {Mus musculus} SCOP: d.15.1.1

Probab=98.93  E-value=1.1e-09  Score=91.58  Aligned_cols=69  Identities=19%  Similarity=0.317  Sum_probs=59.6

Q ss_pred             CCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEe
Q 012310            7 SPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVL   78 (466)
Q Consensus         7 s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~Lvl   78 (466)
                      ..+.|+|+|+ ..|+++.|.|+ ++.||.+||++|+..++||+++|+|+|.|++| ++.+|.+|    +++|+|+.
T Consensus        14 ~~~~~~i~Vk-~~g~~~~i~v~-~~~TV~~LK~~I~~~tgip~~~QrL~~~Gk~L-dd~tL~~~~i~~g~~i~lv~   86 (95)
T 1v86_A           14 GKELVDLKII-WNKTKHDVKVP-LDSTGSELKQKIHSITGLPPAMQKVMYKGLVP-EDKTLREIKVTSGAKIMVVG   86 (95)
T ss_dssp             CCCCEEEEEE-ETTEEEEEEEC-TTSBHHHHHHHHHHHHCSCSTTCCCBSSSBCC-SSSBHHHHCCCTTEEEEECC
T ss_pred             CCceEEEEEE-ECCEEEEEEEC-CCCcHHHHHHHHHHHHCcCHHHeEEEECCeeC-CcCcHHHCCCCCCCEEEEEe
Confidence            4578999999 57999999997 89999999999999999999999999999999 44588775    45777754

>2d07_B Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Homo sapiens} SCOP: d.15.1.1 PDB: 2rpq_A 2awt_A 2io3_B 2iyd_B 1u4a_A 2k1f_A

Probab=98.92  E-value=4e-09  Score=88.30  Aligned_cols=75  Identities=13%  Similarity=0.192  Sum_probs=67.2

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCC
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGG   83 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GG   83 (466)
                      +..|+|.|++.+|+.+.+.+. +++++..|+..++++.|||+..+||+|+|++|.++.++.++    +++|++++++.||
T Consensus        15 ~~~i~ikV~~~~g~~i~~~v~-~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~Tp~dl~medgD~Idv~~~q~GG   93 (93)
T 2d07_B           15 NDHINLKVAGQDGSVVQFKIK-RHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQQTGG   93 (93)
T ss_dssp             CCEEEEEEECTTSCEEEEEEE-TTSCHHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEECC---
T ss_pred             CCeEEEEEECCCCCEEEEEEc-cCCHHHHHHHHHHHHhCCCccceEEEECCEEcCCCCCHHHcCCCCCCEEEEEeeccCC
Confidence            568999999999999999998 89999999999999999999999999999999999888774    6799999999987

>2dzj_A Synaptic glycoprotein SC2; ubiquitin-like fold, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.92  E-value=2.3e-09  Score=88.83  Aligned_cols=66  Identities=21%  Similarity=0.152  Sum_probs=57.0

Q ss_pred             CCCCCcEEEEEEeCCCCEE--EE-EecCCCCCHHHHHHHHHHh-hCCCCCCeEEEec--CeecCCCCccccCC
Q 012310            5 ATSPKALQLFVKLLNGKTT--TL-NFTTCHVYGHEIKNRIYEA-TKIPTHLQRLIYS--GLQLKDRTVISDDH   71 (466)
Q Consensus         5 ~~s~~~MqIfVKtldGkT~--tL-~V~sPs~TVsdLK~rI~e~-~GIP~e~QRLIfn--GK~L~DsstLss~g   71 (466)
                      ++....|+|+|+++.|+.+  +| .|+ |+.||.+||++|++. .+||+++|||+|.  |++|.|+.+|.+|+
T Consensus         5 ~~~~~~M~I~Vk~~~g~~~~~~l~~v~-~~~TV~~lK~~I~~~~~~i~~~~QrL~~~~~Gk~L~D~~tL~~y~   76 (88)
T 2dzj_A            5 SSGMKHYEVEILDAKTREKLCFLDKVE-PHATIAEIKNLFTKTHPQWYPARQSLRLDPKGKSLKDEDVLQKLP   76 (88)
T ss_dssp             CCCCCCEEEEEEESSSCCCCEEEEEEC-SSCBHHHHHHHHHHHCSSSCTTTCCEESSTTSCCCCTTCBTTTSS
T ss_pred             CCceEEEEEEEECCCCCEEeeEEeEcC-CCCcHHHHHHHHHHHhcCCChHHeEEEecCCCcCcCCCCCHHHcC
Confidence            3445569999999998764  57 887 899999999999994 8999999999976  99999999999874

>1oqy_A HHR23A, UV excision repair protein RAD23 homolog A; DNA repair, proteasome-mediated degradation, protein- protein interaction, replication; NMR {Homo sapiens} SCOP: a.5.2.1 a.5.2.1 a.189.1.1 d.15.1.1 PDB: 1qze_A 1tp4_A

Probab=98.91  E-value=1.4e-09  Score=111.70  Aligned_cols=77  Identities=25%  Similarity=0.311  Sum_probs=69.0

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHH---hhCCCCCCeEEEecCeecCCCCccccC----CCce-eEEee
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYE---ATKIPTHLQRLIYSGLQLKDRTVISDD----HITF-NLVLR   79 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e---~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL-~LvlR   79 (466)
                      ...|+|+||+++|++++|.|. ++.||.+||.+|+.   ..|||++.|+|+|+|++|.|+.+|.+|    +++| +|+.|
T Consensus         5 ~~~M~I~VKtl~Gk~~~leV~-~~~TV~~LK~~I~~~~~~~gip~~~QrLiy~GK~L~D~~tL~dygI~~gstIv~lv~k   83 (368)
T 1oqy_A            5 SSAVTITLKTLQQQTFKIRME-PDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMVTK   83 (368)
T ss_dssp             -CCCCEEEEETTTEEEEECCC-TTCBHHHHHHHHHHHTCSSSCCSTEEEEESSSSEECSSSBTTTTCCCTTSCEEEEEEC
T ss_pred             CceEEEEEEeCCCCEEEEEeC-CCChHHHHHHHHHHHhCcCCCChhheEEEECCeecCCcCCHHHcCCCCCCEEEEEEec
Confidence            457999999999999999997 89999999999999   577999999999999999999999887    4567 88889


Q ss_pred             ecCCCc
Q 012310           80 LLGGKG   85 (466)
Q Consensus        80 L~GGKG   85 (466)
                      +.||+.
T Consensus        84 ~~~~~~   89 (368)
T 1oqy_A           84 TKAGQG   89 (368)
T ss_dssp             CCSSSC
T ss_pred             CCCCCC
Confidence            988874

>2io0_B Small ubiquitin-related modifier 2 precursor; SUMO, SENP, ULP, complex, protein binding, hydrolase; 2.30A {Homo sapiens} SCOP: d.15.1.1

Probab=98.91  E-value=5.8e-09  Score=87.27  Aligned_cols=75  Identities=13%  Similarity=0.188  Sum_probs=69.8

Q ss_pred             CcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCCC
Q 012310            9 KALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGGK   84 (466)
Q Consensus         9 ~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GGK   84 (466)
                      ..|+|.|++.+|+.+.+.+. +++++..|+..++++.|||+..+||+|+|++|.++.++.++    +++|++++++.||.
T Consensus         4 ~~i~ikVk~~~g~~v~~~vk-~~t~l~kl~~~y~~~~gi~~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~~q~gg~   82 (91)
T 2io0_B            4 DHINLKVAGQDGSVVQFKIK-RHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQQTGGV   82 (91)
T ss_dssp             CEEEEEEECTTSCEEEEEEE-TTSCTHHHHHHHHHHTTCCSTTEEEEETTEECCTTCCTTTTTCCTTEEEEEEECCCCCC
T ss_pred             CeEEEEEECCCCCEEEEEEC-CCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEeccCCc
Confidence            47999999999999999998 89999999999999999999999999999999999888774    67999999999984

>2daf_A FLJ35834 protein; hypothetical protein FLJ35834, ubiquitin-like domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.86  E-value=4.9e-09  Score=91.97  Aligned_cols=72  Identities=15%  Similarity=0.207  Sum_probs=64.4

Q ss_pred             CCcEEEEEE-eCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeee
Q 012310            8 PKALQLFVK-LLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRL   80 (466)
Q Consensus         8 ~~~MqIfVK-tldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL   80 (466)
                      ...|.|.|+ +.+|+.+++.|. ++.||.+||..|+..+++|++.|+|+|+||.|.|+.+|.+|    +.|+||+++-
T Consensus        13 ~~~itvkv~l~~~~~k~tv~v~-~d~TV~dLKe~ls~~~~iP~e~qrLIy~GKiLKD~eTL~~~gIk~g~TIhLvi~s   89 (118)
T 2daf_A           13 DSLATVKVVLIPVGQEIVIPFK-VDTILKYLKDHFSHLLGIPHSVLQIRYSGKILKNNETLVQHGVKPQEIVQVEIFS   89 (118)
T ss_dssp             SSCEEEEEEETTTCCEEEEEEC-SSSCSHHHHHHHHHHHTCCTTTEEEEETTEEECSSCCHHHHSCCSSCEEEEEEEE
T ss_pred             CccEEEEEEEcCCCcEEEEEeC-CCCcHHHHHHHHHhhhCCChHHEEEEECCeEcCCcchHHHcCCCCCCEEEEEEec
Confidence            346888887 557889999997 89999999999999999999999999999999999999986    5699999864

>1wz0_A Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-like molecule, structural genomics, sentrin2, NPPFSA; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=98.85  E-value=9.7e-09  Score=88.00  Aligned_cols=76  Identities=12%  Similarity=0.159  Sum_probs=70.3

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCC
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGG   83 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GG   83 (466)
                      ...|+|+|++.+|+.+.+.+. +++++..|+..++++.|||+..+||+|+|++|.++.++.++    +++|++++++.||
T Consensus        22 ~~~I~IkVk~~~g~~i~~kVk-~~t~l~kL~~~y~ek~gi~~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~~q~GG  100 (104)
T 1wz0_A           22 NDHINLKVAGQDGSVVQFKIK-RHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQQTSG  100 (104)
T ss_dssp             SCCEEEEEECSSSCEEEEEEC-TTSCHHHHHHHHHHHHTCCTTTSCEESSSSBCCTTSCTTTTTCCTTEEEEECCCCCCC
T ss_pred             CCeEEEEEECCCCCEEEEEEc-CCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEeccCC
Confidence            468999999999999999997 89999999999999999999999999999999999888774    6799999999998


Q ss_pred             C
Q 012310           84 K   84 (466)
Q Consensus        84 K   84 (466)
                      -
T Consensus       101 ~  101 (104)
T 1wz0_A          101 P  101 (104)
T ss_dssp             S
T ss_pred             C
Confidence            4

>2kjr_A CG11242; UBL, ubiquitin, ubiquitin-like, structural genomics, PSI-2, protein structure initiative; NMR {Drosophila melanogaster}

Probab=98.81  E-value=1.5e-08  Score=85.20  Aligned_cols=70  Identities=6%  Similarity=0.032  Sum_probs=59.4

Q ss_pred             CCCcEEEEEEeCCCC--EEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEec--Ce---ec-CCCCccccC----CCce
Q 012310            7 SPKALQLFVKLLNGK--TTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYS--GL---QL-KDRTVISDD----HITF   74 (466)
Q Consensus         7 s~~~MqIfVKtldGk--T~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfn--GK---~L-~DsstLss~----gsTL   74 (466)
                      .+..++|+|++..+.  ++++.|+ ++.||.+||.+|+..+|||+++|||+|.  |+   +| .|+.+|.+|    +++|
T Consensus        12 ~~~~v~l~It~s~~~~~~~~~~v~-~~~TV~~LK~kI~~~~GiP~~~QrL~~~~~g~~~~~L~~D~~tL~~Y~i~~gsti   90 (95)
T 2kjr_A           12 KSDFIKVNVSNSHNDAVAFEVKLA-KDLTVAQLKTKLEILTGGCAGTMKVQVFKGDTCVSTMDNNDAQLGYYANSDGLRL   90 (95)
T ss_dssp             CCCEEEEEEEESSCSCEEEEEEEE-TTCBHHHHHHHHHHHHCSCTTTEEEEEEETTEEEEECCCTTSBHHHHCCSSSCEE
T ss_pred             CCCeEEEEEEECCCCceEEEEEeC-ccCHHHHHHHHHHHHHCcCHHHeEEEEecCCcccceeCCCCCCHhHCCcCCCCEE
Confidence            356899999987664  8899998 8999999999999999999999999997  55   44 788888876    5688


Q ss_pred             eEE
Q 012310           75 NLV   77 (466)
Q Consensus        75 ~Lv   77 (466)
                      +|+
T Consensus        91 hlv   93 (95)
T 2kjr_A           91 HVV   93 (95)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            775

>1wf9_A NPL4 family protein; beta-grAsp fold like domain, hypothetical protein, structural genomics, NPPSFA; NMR {Arabidopsis thaliana} SCOP: d.15.1.1

Probab=98.73  E-value=1.5e-08  Score=86.34  Aligned_cols=71  Identities=20%  Similarity=0.153  Sum_probs=59.8

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCe-----------e----cCCCCccccC--
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGL-----------Q----LKDRTVISDD--   70 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK-----------~----L~DsstLss~--   70 (466)
                      .+.|+|+|++++|+. .|.|..|+.||.+||.+|++.++||+++|+|+|+|+           +    +.++.+|.+|  
T Consensus         5 ~~~M~irvrs~~G~~-~v~v~~~~~Tv~~LK~kI~~~~gip~~~QrL~~~~~~~~~k~~~~~~~l~~~l~d~~tL~~~gi   83 (107)
T 1wf9_A            5 SSGTMLRVRSRDGLE-RVSVDGPHITVSQLKTLIQDQLQIPIHNQTLSTNRNLLLAKSPSDFLAFTDMADPNLRISSLNL   83 (107)
T ss_dssp             CCCEEEEEECSSCEE-EEEECCTTSBHHHHHHHHHHHSCCCTTTCCCBSSGGGGTCCSHHHHTTCCSSCCTTCBGGGTCC
T ss_pred             CCeEEEEEECCCCCE-EEEECCCCCcHHHHHHHHHHHhCcCcccCEEEECCccccccCccccccccccCCCCCCHHHCCC
Confidence            456999999999976 688854789999999999999999999999999888           4    4677888886  


Q ss_pred             --CCceeEEee
Q 012310           71 --HITFNLVLR   79 (466)
Q Consensus        71 --gsTL~LvlR   79 (466)
                        +++|||+..
T Consensus        84 ~~G~~L~l~~~   94 (107)
T 1wf9_A           84 AHGSMVYLAYE   94 (107)
T ss_dssp             CTTCEEECCCS
T ss_pred             CCCCEEEEEeC
Confidence              568887653

>2eke_C Ubiquitin-like protein SMT3; UBC9, SUMO binding motif, SBM, ligase/protein binding complex; 1.90A {Saccharomyces cerevisiae} SCOP: d.15.1.1

Probab=98.71  E-value=4e-08  Score=84.64  Aligned_cols=74  Identities=11%  Similarity=0.124  Sum_probs=66.0

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCC
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGG   83 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GG   83 (466)
                      +..|+|.|++ +|+.+.+.+. +++++..|+..++++.||++..+||+|+|++|.++.+..++    +++|++.+++.||
T Consensus        29 ~~~I~IkV~~-~g~~i~fkIk-~tt~l~kL~~ay~ek~gi~~~~~rF~FdG~rl~~~~Tp~dl~medgD~Idv~~~q~GG  106 (106)
T 2eke_C           29 ETHINLKVSD-GSSEIFFKIK-KTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIGG  106 (106)
T ss_dssp             CSEEEEEEEC-SSCEEEEEEE-TTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEECC---
T ss_pred             CCeEEEEEec-CCcEEEEEeC-CCCHHHHHHHHHHHHhCCCcccEEEEECCeEcCCCCCHHHcCCCCCCEEEEEeecccC
Confidence            4679999999 9999999998 89999999999999999999999999999999999888774    6799999999987

>2k8h_A Small ubiquitin protein; SUMO, post-translational modifier, signaling protein; NMR {Trypanosoma brucei}

Probab=98.68  E-value=3.6e-08  Score=85.40  Aligned_cols=76  Identities=9%  Similarity=0.164  Sum_probs=69.7

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCC
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGG   83 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GG   83 (466)
                      +..|+|+|++.+|+.+.+.+. +++++..|+..++++.|||+.++||+|.|++|.++.++.++    +++|++++.+.||
T Consensus        24 ~~~I~IkVk~~~g~~i~fkVk-~~t~l~kL~~ay~ek~gi~~~~~rfiFdG~~L~~~~Tp~dl~mEDgD~Idv~~~q~Gg  102 (110)
T 2k8h_A           24 TALVAVKVVNADGAEMFFRIK-SRTALKKLIDTYCKKQGISRNSVRFLFDGTPIDETKTPEELGMEDDDVIDAMVEQTGG  102 (110)
T ss_dssp             CCCEEEEEEETTSCCEEEEEC-TTSSHHHHHHHHHHHHTCCSSSCEEESSSCBCCSSSHHHHHHCSSEEEEEEECCCCCC
T ss_pred             CCeEEEEEECCCCCEEEEEEC-CCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEcccCc
Confidence            467999999999999999997 89999999999999999999999999999999999887763    6799999999998


Q ss_pred             C
Q 012310           84 K   84 (466)
Q Consensus        84 K   84 (466)
                      -
T Consensus       103 ~  103 (110)
T 2k8h_A          103 L  103 (110)
T ss_dssp             -
T ss_pred             c
Confidence            5

>2kj6_A Tubulin folding cofactor B; methods development, NESG, solution PSI-2, structural genomics, protein structure initiative; NMR {Arabidopsis thaliana}

Probab=98.65  E-value=5.4e-08  Score=82.28  Aligned_cols=70  Identities=9%  Similarity=0.120  Sum_probs=58.4

Q ss_pred             CCCcEEEEEEeCCC--CEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecC---ee----cCCCCccccC----CCc
Q 012310            7 SPKALQLFVKLLNG--KTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSG---LQ----LKDRTVISDD----HIT   73 (466)
Q Consensus         7 s~~~MqIfVKtldG--kT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnG---K~----L~DsstLss~----gsT   73 (466)
                      ....+.|+|++...  +.+.+.|+ |+.||.+||.+|+..+|||+++|||+|.|   +.    +.|+.+|.+|    +++
T Consensus        11 ~~~~v~l~It~s~~~~~~~e~~v~-~~~TV~~LK~kIe~~~Gip~~~QrLi~~g~~g~~~~~L~~D~~tL~~Y~I~~g~~   89 (97)
T 2kj6_A           11 GDDSVHLHITHANLKSFSADARFS-PQMSVEAVKEKLWKKCGTSVNSMALELYDDSGSKVAVLSDDSRPLGFFSPFDGFR   89 (97)
T ss_dssp             CCCCEEEEEEETTSSCCCEEEEEC-TTCCHHHHHHHHHHHHCCCTTSEEEEEECSSSCBCCCSSGGGSCHHHHCCCSCCE
T ss_pred             CCceEEEEEEECCCCceEEEEEeC-CCChHHHHHHHHHHHHCcCHHHeEEEEecCCCcccceecCCcCCHHHCCCCCCCE
Confidence            35789999997544  47899998 89999999999999999999999999987   33    3777888876    568


Q ss_pred             eeEE
Q 012310           74 FNLV   77 (466)
Q Consensus        74 L~Lv   77 (466)
                      |+|+
T Consensus        90 Ihlv   93 (97)
T 2kj6_A           90 LHII   93 (97)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            8776

>1v6e_A Cytoskeleton-associated protein 1; tubulin-specific chaperone B, tubulin folding cofactor B, microtubule, ubiquitin-like fold, structural genomics; NMR {Mus musculus} SCOP: d.15.1.1

Probab=98.56  E-value=2e-07  Score=77.54  Aligned_cols=70  Identities=9%  Similarity=0.094  Sum_probs=57.5

Q ss_pred             CCcEEEEEEeCCCC-EEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecC---ee----cCCCCccccC----CCcee
Q 012310            8 PKALQLFVKLLNGK-TTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSG---LQ----LKDRTVISDD----HITFN   75 (466)
Q Consensus         8 ~~~MqIfVKtldGk-T~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnG---K~----L~DsstLss~----gsTL~   75 (466)
                      .+.|.|+|+..... .+.+.|+ ++.||.+||.+|+..+|||+++|||+|.|   +.    +.|+.+|.+|    +++||
T Consensus         5 ~~~v~l~I~~~~~~~~~~~~v~-~~~TV~~lK~ki~~~~gip~~~qrL~~~~~~g~~~~~l~~D~~tL~~y~i~~g~~l~   83 (95)
T 1v6e_A            5 SSGVMVFISSSLNSFRSEKRYS-RSLTIAEFKCKLELVVGSPASCMELELYGADDKFYSKLDQEDALLGSYPVDDGCRIH   83 (95)
T ss_dssp             CCCEEEEEEETTSSSCEEEEEC-TTSBHHHHHHHHHHHTCSCTTTCBCEEECSSSCEEEECCCSSSBTTSSSCCTTCEEE
T ss_pred             CcEEEEEEEECCCCeeEEEEcC-ccCHHHHHHHHHHHHHCCCHHHeEEEEeCCCCccccccCCCcCCHhHCCCCCCCEEE
Confidence            34589999875442 6899997 89999999999999999999999999976   43    4788899886    46787


Q ss_pred             EEe
Q 012310           76 LVL   78 (466)
Q Consensus        76 Lvl   78 (466)
                      |+-
T Consensus        84 v~d   86 (95)
T 1v6e_A           84 VID   86 (95)
T ss_dssp             EBC
T ss_pred             EEE
Confidence            764

>1t0y_A Tubulin folding cofactor B; ubiquitin-like, cytoskeleton, microtubule, CESG, structural genomics, protein structure initiative, PSI; NMR {Caenorhabditis elegans} SCOP: d.15.1.1

Probab=98.55  E-value=2.3e-07  Score=80.91  Aligned_cols=69  Identities=7%  Similarity=0.036  Sum_probs=57.8

Q ss_pred             CcEEEEEEeCCCC-EEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecC---e---e-cCCCCccccC----CCceeE
Q 012310            9 KALQLFVKLLNGK-TTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSG---L---Q-LKDRTVISDD----HITFNL   76 (466)
Q Consensus         9 ~~MqIfVKtldGk-T~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnG---K---~-L~DsstLss~----gsTL~L   76 (466)
                      ..|.|+|+...+. .+.+.|+ |+.||.+||.+|+..+|||+++|||+|.|   +   + +.|+.+|.+|    +++|||
T Consensus         5 ~~v~l~V~~~~~~~~~e~~v~-~~~TV~~lK~ki~~~~Gip~~~qrL~~~g~~~~~~~~l~~D~~tL~~y~i~~g~~ihv   83 (122)
T 1t0y_A            5 EVYDLEITTNATDFPMEKKYP-AGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDGYRIHA   83 (122)
T ss_dssp             CEEEEEEEESSCCSCEEEEEE-TTSBHHHHHHHHHHHHCCCTTTEEEEEECSSSSEEEECCCCSSBTTTTTCCSSEEEEE
T ss_pred             CEEEEEEEECCCCccEEEEeC-CCCcHHHHHHHHHHHhCCCHHHeEEEEecCCCccccccCCCcCCHHHCCCCCCCEEEE
Confidence            3799999986543 6899998 89999999999999999999999999976   4   3 3678888886    568888


Q ss_pred             Ee
Q 012310           77 VL   78 (466)
Q Consensus        77 vl   78 (466)
                      +.
T Consensus        84 vd   85 (122)
T 1t0y_A           84 VD   85 (122)
T ss_dssp             EE
T ss_pred             Ee
Confidence            75

>1wm3_A Ubiquitin-like protein SMT3B; ubiquitin fold, half-open barrel, two helices, protein transport; 1.20A {Homo sapiens} SCOP: d.15.1.1 PDB: 1wm2_A 3uin_B 3uio_B 2ckh_B

Probab=98.55  E-value=3.1e-07  Score=72.93  Aligned_cols=67  Identities=12%  Similarity=0.166  Sum_probs=61.0

Q ss_pred             cEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEE
Q 012310           10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLV   77 (466)
Q Consensus        10 ~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~Lv   77 (466)
                      .|+|.|++.+|+.+.+.+. +++++..|+..++++.|+|+..++|+|+|++|.++.++.++    +++|++.
T Consensus         1 ~i~lkV~~~~g~~v~~~v~-~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~Tp~~l~medgD~Idv~   71 (72)
T 1wm3_A            1 HINLKVAGQDGSVVQFKIK-RHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVF   71 (72)
T ss_dssp             CEEEEEECTTSCEEEEEEC-TTSCTHHHHHHHHHHHTCCTTTCEEEETTEECCTTCCTTTTTCCTTEEEEEE
T ss_pred             CEEEEEECCCCCEEEEEEC-CCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCCCHHHcCCCCCCEEEEE
Confidence            3899999999999999997 89999999999999999999999999999999999888774    5677764

>4b6w_A Tubulin-specific chaperone; CAP-Gly, ubiquitin-like; HET: MSE; 2.35A {Trypanosoma brucei brucei strain 927}

Probab=98.54  E-value=1.1e-07  Score=78.61  Aligned_cols=69  Identities=7%  Similarity=0.073  Sum_probs=58.1

Q ss_pred             cEEEEEEe--CCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEe-------cCeecCCCCccccC----CCceeE
Q 012310           10 ALQLFVKL--LNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIY-------SGLQLKDRTVISDD----HITFNL   76 (466)
Q Consensus        10 ~MqIfVKt--ldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIf-------nGK~L~DsstLss~----gsTL~L   76 (466)
                      .+.|.|..  ...+.+-++|+ ++.||.+||.+|+..+|||+++|||+|       .|+++.|+.+|.+|    +++|||
T Consensus         2 ~V~v~iths~~~~~~~E~r~~-~s~TI~~lK~ki~~~~Gip~~~QrLi~~~~~~~~~g~~l~d~~tL~~Y~i~~g~~ihl   80 (86)
T 4b6w_A            2 VVKVSLTHSASRMRVPEKRYG-LAQTIESIKENVFTHFATPPEYMQLQLIDDRGITIEKNMANDKQLGYYQCRDEFVIHV   80 (86)
T ss_dssp             EEEEEEEETTCSCCEEEEEEE-TTSBHHHHHHHHHTTSCCCGGGEEEEEECTTSCEEESSCCTTSBGGGGTCCTTCEEEE
T ss_pred             EEEEEEEEcCCCCeEEEEEcC-ccCcHHHHHHHHHHHHCCCHHHEEEEEecCCCCceeeEcCCCCCHHHCCCCCCCEEEE
Confidence            45666653  34566789997 899999999999999999999999996       58899999999987    579999


Q ss_pred             Eee
Q 012310           77 VLR   79 (466)
Q Consensus        77 vlR   79 (466)
                      +-+
T Consensus        81 vd~   83 (86)
T 4b6w_A           81 VDL   83 (86)
T ss_dssp             EEC
T ss_pred             EeC
Confidence            864

>3a4r_A Nfatc2-interacting protein; ubiquitin fold, coiled coil, cytoplasm, methylation, nucleus, transcription; 1.00A {Mus musculus} PDB: 3a4s_C 3rd2_A

Probab=98.48  E-value=6.3e-07  Score=72.59  Aligned_cols=70  Identities=13%  Similarity=0.125  Sum_probs=62.4

Q ss_pred             CCCcEEEEEEeCCCC-EEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEE
Q 012310            7 SPKALQLFVKLLNGK-TTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLV   77 (466)
Q Consensus         7 s~~~MqIfVKtldGk-T~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~Lv   77 (466)
                      .+..|+|.|++.+|+ .+.+.+. +++++..|+..++++.|||+.++||+|.|++|.++.++.++    +++|++.
T Consensus         4 ~~~~i~ikV~~~~g~~~i~~~i~-~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~Tp~~l~medgD~Idv~   78 (79)
T 3a4r_A            4 GSQELRLRVQGKEKHQMLEISLS-PDSPLKVLMSHYEEAMGLSGHKLSFFFDGTKLSGKELPADLGLESGDLIEVW   78 (79)
T ss_dssp             CCCCEEEEEECSSTTCEEEEEEC-TTSCHHHHHHHHHHHHTCTTCCCEEEETTEECCSCCCHHHHTCCTTCEEEEE
T ss_pred             CCCEEEEEEEeCCCCEEEEEEEC-CCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEe
Confidence            467899999999996 8999997 89999999999999999999999999999999999887763    5677663

>3shq_A UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila melanogaster}

Probab=98.43  E-value=2.7e-07  Score=92.98  Aligned_cols=67  Identities=24%  Similarity=0.375  Sum_probs=60.0

Q ss_pred             CcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEE---ecCeecCCCCccccC----CCceeEE
Q 012310            9 KALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLI---YSGLQLKDRTVISDD----HITFNLV   77 (466)
Q Consensus         9 ~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLI---fnGK~L~DsstLss~----gsTL~Lv   77 (466)
                      .+|+|.|+. .|++++|.++ ++.||.+||++|++.+|||+++|+|+   |+|++|.|+.+|+++    +++|+|+
T Consensus         4 ~~i~i~Vk~-~g~~~~v~v~-~~~Tv~~lK~~I~~~tgVpp~~QkLi~~k~~Gk~l~D~~~L~~~~ik~g~~l~L~   77 (320)
T 3shq_A            4 KEVVVIVKW-SGKEYPVDLT-DQDTVEVLRHEIFRKTQVRPERQKLLNLKYKGKTAADNVKISALELKPNFKLMMV   77 (320)
T ss_dssp             CEEEEEEEE-TTEEEEEEEE-TTSBHHHHHHHHHHHHCCCGGGCEETTCBSSSSBCCTTSBTTSSCCC--CEEEEE
T ss_pred             ceEEEEEEE-CCEEEEEEEC-CCCcHHHHHHHHHHHHCcCHHHeEEeecccCCcccCccccHHHcCCCCCCEEEEE
Confidence            479999995 7999999998 89999999999999999999999999   899999999998876    5577665

>2kzr_A Ubiquitin thioesterase OTU1; structural genomics, northeast structural genomics consortiu PSI-2, protein structure initiative, hydrolase; NMR {Mus musculus}

Probab=98.43  E-value=2.2e-07  Score=75.81  Aligned_cols=66  Identities=17%  Similarity=0.125  Sum_probs=54.4

Q ss_pred             EEEEEEeCCCCEEEEE-ecCCCCCHHHHHHHHHHhhCCCCCCeEEEec--CeecC---CCCccccC----CCceeEEe
Q 012310           11 LQLFVKLLNGKTTTLN-FTTCHVYGHEIKNRIYEATKIPTHLQRLIYS--GLQLK---DRTVISDD----HITFNLVL   78 (466)
Q Consensus        11 MqIfVKtldGkT~tL~-V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfn--GK~L~---DsstLss~----gsTL~Lvl   78 (466)
                      |+|+|++.+|+. .+. |+ ++.||.+||++|++..|||++.|+|+|+  +++|.   ++.+|.++    +++|+|.-
T Consensus         1 m~i~vr~~~G~~-~v~~l~-~~~Tv~~Lk~~I~~~~gi~~~~qrL~~~~p~k~l~l~~~~~tL~~~gl~~g~~l~v~~   76 (86)
T 2kzr_A            1 WRVRCKAKGGTH-LLQGLS-SRTRLRELQGQIAAITGIAPGSQRILVGYPPECLDLSDRDITLGDLPIQSGDMLIVEE   76 (86)
T ss_dssp             CCEEEEETTEEE-EECSCC-TTCBHHHHHHHHHHHTCCCTTTCCCEESSCCCCCCCCCSSCBTTTSSCCTTCEEECCC
T ss_pred             CEEEEEcCCCCE-EeeecC-CCCCHHHHHHHHHHHhCCCccceEEEeCCCCcccccCCCCCCHHHcCCCCCCEEEEEe
Confidence            789999999965 477 76 7999999999999999999999999986  47774   56788876    45666653

>3kyd_D Small ubiquitin-related modifier 1; SUMO, thioester, adenylation, inhibitor, TETR intermediate, ligase, nucleus, phosphoprotein; HET: VMX; 2.61A {Homo sapiens} SCOP: d.15.1.1

Probab=98.12  E-value=1.2e-05  Score=70.16  Aligned_cols=73  Identities=11%  Similarity=0.202  Sum_probs=65.5

Q ss_pred             CcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCcccc----CCCceeEEeeecC
Q 012310            9 KALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD----DHITFNLVLRLLG   82 (466)
Q Consensus         9 ~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss----~gsTL~LvlRL~G   82 (466)
                      ..|+|.|+..+|....+.+. +++++..|+..++++.|+|+..+||+|.|++|.++.+..+    .+++|.+.+...|
T Consensus        39 ~~I~LKV~~qdg~ev~fkIk-~tt~L~KLm~aY~er~Gl~~~~irFlFDG~rI~~~~TP~dL~MEDgD~IdV~~~Q~G  115 (115)
T 3kyd_D           39 EYIKLKVIGQDSSEIHFKVK-MTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQCG  115 (115)
T ss_dssp             CEEEEEEECTTSCEEEEEEE-TTSCTHHHHHHHHHHHTCCTTSEEEEETTEECCTTCCTTTTTCCTTCEEEEEECCCC
T ss_pred             CeEEEEEEcCCCCEEEEEEc-cCChHHHHHHHHHHHhCCChhhEEEEECCeECCCCCCHHHcCCCCCCEEEEEeeccC
Confidence            57999999999999999997 8999999999999999999999999999999999888766    3779988887654

>3pge_A SUMO-modified proliferating cell nuclear antigen; DNA replication, DNA binding protein; 2.80A {Saccharomyces cerevisiae}

Probab=97.96  E-value=2.6e-05  Score=74.00  Aligned_cols=76  Identities=13%  Similarity=0.183  Sum_probs=67.8

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCcccc----CCCceeEEeeecCC
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD----DHITFNLVLRLLGG   83 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss----~gsTL~LvlRL~GG   83 (466)
                      ...|+|.|+ .+|....+.+. +++++..|+..++++.|+|..++||+|+|++|.++.+..+    .+++|++.+.+.||
T Consensus        27 ~~~I~LkV~-~~g~~v~fkIk-~~t~l~kL~~ay~er~Gi~~~~~RF~FdG~rI~~~~TP~dL~MEdgD~Idv~~~q~gg  104 (200)
T 3pge_A           27 ETHINLKVS-DGSSEIFFKIK-KTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIGG  104 (200)
T ss_dssp             CCCEEEEEE-CSSCEEEEEEC-TTSCTHHHHHHHHHHHSSCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEECCSCC
T ss_pred             CCeEEEEEe-cCCCEEEEEEe-cCCHHHHHHHHHHHHhCCChhhEEEEECCEEcCCCCCHHHcCCCCCCEEEEEeccCcC
Confidence            456999997 59999999997 8999999999999999999999999999999999988776    37899999999887


Q ss_pred             Cc
Q 012310           84 KG   85 (466)
Q Consensus        84 KG   85 (466)
                      .+
T Consensus       105 ~k  106 (200)
T 3pge_A          105 GG  106 (200)
T ss_dssp             C-
T ss_pred             cC
Confidence            63

>1wjn_A Tubulin-folding protein TBCE; ubiquitin-like domain, progressive motor neuropathy, structural genomics; NMR {Mus musculus} SCOP: d.15.1.1

Probab=97.90  E-value=3.9e-05  Score=63.74  Aligned_cols=70  Identities=14%  Similarity=0.100  Sum_probs=56.5

Q ss_pred             CCcEEEEEEe---CCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecC-------eec-CCCCccccC----CC
Q 012310            8 PKALQLFVKL---LNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSG-------LQL-KDRTVISDD----HI   72 (466)
Q Consensus         8 ~~~MqIfVKt---ldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnG-------K~L-~DsstLss~----gs   72 (466)
                      ...++|+|++   ++|..+.+.|+ ++.||.+||.+|+..+|+|+..|+|+|.+       ..| +|..+|..|    ++
T Consensus         7 ~~~v~l~I~~~~~~~~~~~e~~l~-~~~TV~~LK~~i~~~~gip~~~q~L~~~~~~~~~~~~~L~~d~~~L~~y~i~~G~   85 (97)
T 1wjn_A            7 GQLLTLKIKCSNQPERQILEKQLP-DSMTVQKVKGLLSRLLKVPVSELLLSYESSKMPGREIELENDLQPLQFYSVENGD   85 (97)
T ss_dssp             SCEEEEEEEESSCSSSCCEEEEEE-TTSBHHHHHHHHHTTTTCCTTTCEEEEECTTSCSCEEECCCSSSBSGGGTCCTTC
T ss_pred             CccEEEEEEecCCCCCcEEEEECC-CCCCHHHHHHHHHHHHCCChhHeEEEEEcCCCCceeeccCCCcccHhhcCCCCCC
Confidence            3468888876   47888999998 89999999999999999999999999862       224 456778776    56


Q ss_pred             ceeEEe
Q 012310           73 TFNLVL   78 (466)
Q Consensus        73 TL~Lvl   78 (466)
                      +|+|..
T Consensus        86 ~I~V~d   91 (97)
T 1wjn_A           86 CLLVRW   91 (97)
T ss_dssp             EEEEEC
T ss_pred             EEEEEe
Confidence            888765

>3tix_A Ubiquitin-like protein SMT3, RNA-induced transcri silencing complex protein TAS3; PIN, rossmann fold, SPOC, alpha-helical hairpin, heterochrom silencing, RITS, RNAI, argonaute; 2.90A {Saccharomyces cerevisiae}

Probab=97.81  E-value=2.8e-05  Score=73.71  Aligned_cols=77  Identities=10%  Similarity=0.122  Sum_probs=68.9

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCcccc----CCCceeEEeeecCC
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD----DHITFNLVLRLLGG   83 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss----~gsTL~LvlRL~GG   83 (466)
                      ...|+|.|+ .+|..+.+.|. +++++..|+..++++.|||+..++|+|+|+.|.++.|..+    .+++|.+.+.+.||
T Consensus        55 ~e~InLKVk-~dG~eV~FKIK-rtTpL~KLmeAYcERqGL~~~sIRFLFDGqRI~~ddTPeDLdMEDGDtIDV~leQ~GG  132 (207)
T 3tix_A           55 ETHINLKVS-DGSSEIFFKIK-KTTPLRRLMEAFAKRQGKEMDSLTFLYDGIEIQADQTPEDLDMEDNDIIEAHREQIGG  132 (207)
T ss_dssp             CCEEEEEEE-CSSCEEEEEEE-TTSCTHHHHHHHHHHTTCCGGGSCEEETTEECCSSCCTTTTTCCTTEEEEECCCCCTT
T ss_pred             CCcEEEEEe-cCCCEEEEEEc-cCChHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCHHHcCCCCCCEEEEEEeccCC
Confidence            456999997 59999999998 8999999999999999999999999999999999888766    37899999999998


Q ss_pred             Ccc
Q 012310           84 KGG   86 (466)
Q Consensus        84 KGG   86 (466)
                      -.-
T Consensus       133 ~~~  135 (207)
T 3tix_A          133 LPS  135 (207)
T ss_dssp             GGG
T ss_pred             Ccc
Confidence            643

>3v7o_A Minor nucleoprotein VP30; ssgcid, seattle structural genomics center for infectious disease, SMT, transcription; 2.25A {Reston ebolavirus}

Probab=97.34  E-value=3.2e-05  Score=74.21  Aligned_cols=74  Identities=12%  Similarity=0.153  Sum_probs=0.9

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCcccc----CCCceeEEeeecCC
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD----DHITFNLVLRLLGG   83 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss----~gsTL~LvlRL~GG   83 (466)
                      ...|+|.| +.+|....+.+. +++.+..|+..++++.|+|+..+||+|+|++|.++.|..+    .+++|.+.+.+.||
T Consensus        19 ~e~InLKV-~qdGseV~FKIK-rtTpL~KLM~AYcERqGLs~~siRFLFDGqRI~dddTPadL~MEDGDtIDV~leQ~GG   96 (227)
T 3v7o_A           19 ETHINLKV-SDGSSEIFFKIK-KTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIGG   96 (227)
T ss_dssp             -------------------------------------------------------------------------------C
T ss_pred             CCeEEEEE-eCCCCEEEEEEc-cCChHHHHHHHHHHHhCCCccceEEEECCEecCCCCCHHHcCCCCCCEEEEEecccCC
Confidence            35799999 789999999997 8999999999999999999999999999999999888766    47899999999998

>4efo_A Serine/threonine-protein kinase TBK1; ubiquitin like domain, transferase; 1.77A {Homo sapiens}

Probab=97.25  E-value=0.00043  Score=58.46  Aligned_cols=45  Identities=22%  Similarity=0.227  Sum_probs=40.9

Q ss_pred             CCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCC
Q 012310           18 LNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKD   63 (466)
Q Consensus        18 ldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~D   63 (466)
                      ..+..+.|.+. |..|+..||++|++++|||+.+|+|+|.|+++.-
T Consensus        21 ~~a~~h~v~I~-~~etv~~~ke~V~eqTgIp~~~Q~LL~eg~~l~l   65 (94)
T 4efo_A           21 QQMTAHKIYIH-SYNTATIFHELVYKQTKIISSNQELIYEGRRLVL   65 (94)
T ss_dssp             TTTEEEEEEEE-TTCBHHHHHHHHHHHHCCCGGGEEEEETTEEECC
T ss_pred             ccceEEEEEec-cchHHHHHHHHHHHHhCCCHHHHHHHhCCCcccc
Confidence            35778999998 8999999999999999999999999999988754

>3uf8_A Ubiquitin-like protein SMT3, peptidyl-prolyl CIS- isomerase; ssgcid, seattle structural genomics center for in disease; HET: FK5; 1.50A {Burkholderia pseudomallei} PDB: 4ggq_C* 3vaw_A* 3uqa_A* 4g50_A* 4fn2_A* 3uqb_A* 4giv_A* 1euv_B 3v60_A 3v61_A 3v62_A*

Probab=97.12  E-value=0.0013  Score=62.26  Aligned_cols=76  Identities=12%  Similarity=0.161  Sum_probs=65.9

Q ss_pred             CCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCcccc----CCCceeEEeeecC
Q 012310            7 SPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD----DHITFNLVLRLLG   82 (466)
Q Consensus         7 s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss----~gsTL~LvlRL~G   82 (466)
                      +...|+|.|+. +|....+.+. +++.+..|+...+++.|+|..+++|+|.|+.+.++.+...    .+++|.+.....|
T Consensus        18 ~~~~i~ikv~~-~~~~v~~~i~-~~~~l~kl~~~y~~~~g~~~~~~~f~fdG~~i~~~~Tpk~L~~ed~d~I~~~~eq~G   95 (209)
T 3uf8_A           18 PETHINLKVSD-GSSEIFFKIK-KTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIG   95 (209)
T ss_dssp             CCSEEEEEEEC-SSCEEEEEEE-TTSCTHHHHHHHHHHHTCCGGGCEEEETTEECCTTCCTTTTTCCTTEEEEEECSCTT
T ss_pred             CCCcEEEEEEc-CCCEEEEEEe-eCCHHHHHHHHHHHhhCCChheEEEEECCEeccCCCChHHhhhcccccchhhccccc
Confidence            45679999997 8888889997 7999999999999999999999999999999998765443    4678999998888


Q ss_pred             CC
Q 012310           83 GK   84 (466)
Q Consensus        83 GK   84 (466)
                      |-
T Consensus        96 g~   97 (209)
T 3uf8_A           96 GS   97 (209)
T ss_dssp             CC
T ss_pred             cc
Confidence            74

>3ix6_A TS, tsase, thymidylate synthase; niaid, ssgcid, seattle structural center for infectious DISE brucellosis, orchitis, epididymitis, mastitis; 2.20A {Brucella melitensis}

Probab=96.56  E-value=0.00022  Score=73.07  Aligned_cols=86  Identities=13%  Similarity=0.159  Sum_probs=10.0

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCcccc----CCCceeEEeeecCC
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD----DHITFNLVLRLLGG   83 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss----~gsTL~LvlRL~GG   83 (466)
                      ...|+|.|+. +|....+.+. +++++..|+..++++.|+++..++|+|+|+.|.++.|..+    .+++|.+.+.+.||
T Consensus        19 ~~~I~LKV~~-~g~~v~FkIk-~~t~l~kLm~aY~~r~G~~~~~~rFlFdG~rI~~~~TP~~L~MEDgD~Idv~~~Q~g~   96 (360)
T 3ix6_A           19 ETHINLKVSD-GSSEIFFKIK-KTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIGG   96 (360)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CCeEEEEEec-CCcEEEEEEe-cCChHHHHHHHHHHHhCCCcceEEEEECCeECCCCCChHHcCCCccchhhhhhccCch
Confidence            4578899987 7888888887 7999999999999999999999999999999999888665    47899999999999


Q ss_pred             CcccCcchhhhh
Q 012310           84 KGGFGSLLRGAA   95 (466)
Q Consensus        84 KGGFGS~LRa~g   95 (466)
                      .-.|-.+|+-.-
T Consensus        97 ~~~Yl~l~~~Il  108 (360)
T 3ix6_A           97 MRTYLDLLQHVL  108 (360)
T ss_dssp             CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999998753

>2pjh_A Protein NPL4, nuclear protein localization protein 4 homolog; UFD1, NPL4, AAA, protein binding, transport protein; NMR {Mus musculus}

Probab=96.55  E-value=0.0018  Score=52.48  Aligned_cols=66  Identities=6%  Similarity=0.008  Sum_probs=48.3

Q ss_pred             cEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCee---c--CCCCcccc----CCCceeEE
Q 012310           10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQ---L--KDRTVISD----DHITFNLV   77 (466)
Q Consensus        10 ~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~---L--~DsstLss----~gsTL~Lv   77 (466)
                      .|.|-|++.+| ++.|.++ +++|+.+|+.+|.+.+++|.+.|.|.++..+   |  .++.+|.+    +|+.|+|.
T Consensus         4 ~m~lRvrs~~G-~~Ri~v~-~~~t~~~L~~~I~~~~~i~~~~~~l~~~~~p~~~l~~~~~~~l~~lgl~hGd~l~l~   78 (80)
T 2pjh_A            4 SIIIRVQSPDG-VKRITAT-KRETAATFLKKVAKEFGFQNNGFSVYINRNKTGEITASSSKSLHLLKIKHGDLLFLF   78 (80)
T ss_dssp             CCCCEEECSSE-EEECCCC-SSCCHHHHHHHHHHHTCCCTTTCCCCCSCCGGGGSSSCCCCTTTTTCCCTTCCEEC-
T ss_pred             cEEEEEECCCC-CEEEEcC-CcChHHHHHHHHHHHcCCCCCcceEEecCCCCCcccCCCCCCHHHcCCCCCCEEEEe
Confidence            58899999998 4567776 8899999999999999999988877765443   3  23444443    35666554

>2jxx_A Nfatc2-interacting protein; nuclear factor of activated T-cells, cytoplasmic 2- interacting protein, ubiquitin like homologue; NMR {Homo sapiens}

Probab=96.42  E-value=0.016  Score=48.86  Aligned_cols=69  Identities=16%  Similarity=0.178  Sum_probs=58.1

Q ss_pred             CCCcEEEEEEeCCCC-EEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCcccc----CCCceeE
Q 012310            7 SPKALQLFVKLLNGK-TTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD----DHITFNL   76 (466)
Q Consensus         7 s~~~MqIfVKtldGk-T~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss----~gsTL~L   76 (466)
                      .+..|+|.|+..+|. .+.+.+. +++++..|....+++.++++...+|+|.|..|.++.+..+    .+++|.+
T Consensus        22 ~~~~I~LkV~~~dg~~~v~fkIk-~~t~l~kLm~aY~~~~g~~~~~vrF~FDG~rI~~~~TP~dLdMEDgD~IDv   95 (97)
T 2jxx_A           22 TSQQLQLRVQGKEKHQTLEVSLS-RDSPLKTLMSHYEEAMGLSGRKLSFFFDGTKLSGRELPADLGMESGDLIEV   95 (97)
T ss_dssp             SCSEEEEEEEESSSSCEEEEEEE-TTSCHHHHHHHHHHHTTCSSSCCEEEETTEECCSCSCHHHHTCCTTEEEEE
T ss_pred             CCCeEEEEEEcCCCCEEEEEEEC-CCChHHHHHHHHHHHHCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEE
Confidence            356799999999995 7888887 7899999999999999999999999999999998877554    3455543

>3goe_A DNA repair protein RAD60; SUMO-like domain, sumoylation, SUMO, genome stability, DNA damage, DNA recombination, nucleus; HET: DNA; 0.97A {Schizosaccharomyces pombe} PDB: 3rcz_A*

Probab=96.37  E-value=0.031  Score=45.94  Aligned_cols=72  Identities=17%  Similarity=0.224  Sum_probs=60.4

Q ss_pred             CCCCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCC-CeEEEecCeecCCCCccccC----CCceeEE
Q 012310            5 ATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTH-LQRLIYSGLQLKDRTVISDD----HITFNLV   77 (466)
Q Consensus         5 ~~s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e-~QRLIfnGK~L~DsstLss~----gsTL~Lv   77 (466)
                      +|-..-|.+++++....-+-+.+. ++.+|..|....+.+.+||++ ..||.|.|..|.+..++.++    ++-|.++
T Consensus         4 ~~~~~~~~~~~~~~~~~dl~f~I~-~~t~v~kLi~ayc~~~~I~~~~~IrllFDGdRLdp~~tp~DlemeD~D~IDvm   80 (82)
T 3goe_A            4 HHHHKLITLLLRSSKSEDLRLSIP-VDFTVKDLIKRYCTEVKISFHERIRLEFEGEWLDPNDQVQSTELEDEDQVSVV   80 (82)
T ss_dssp             TCCCCEEEEEEEESSSCCEEEEEE-TTSBHHHHHHHHHHHHTCCCCTTCEEEETTEECCTTSBGGGSSCCTTCEEEEE
T ss_pred             cchhHHHHHhhhccCCCCeEEEec-CCCCHHHHHHHHHHHcCCCcCceEEEEEcCcccCccCChhhhCCcCCceeeee
Confidence            445677899999876666788887 799999999999999999999 89999999999999998876    3445444

>2al3_A TUG long isoform; TUG UBL1 insulin, endocytosis/exocytosis complex; NMR {Mus musculus} SCOP: d.15.1.2

Probab=95.96  E-value=0.014  Score=48.88  Aligned_cols=69  Identities=12%  Similarity=0.045  Sum_probs=56.7

Q ss_pred             CcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccc----cCCCceeEEe
Q 012310            9 KALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVIS----DDHITFNLVL   78 (466)
Q Consensus         9 ~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLs----s~gsTL~Lvl   78 (466)
                      .-|.|.|-..+|+..++.+. |+.++.+|.+..++++|+.+++..|.|+++.|+.+..+.    .+++.|.|+.
T Consensus         8 ~~m~v~Vl~~n~rr~~VKvt-p~t~L~~VL~eaC~K~gl~~~~~~Lkh~~k~lDLSlpfRlsgLpnnAkLELv~   80 (90)
T 2al3_A            8 GGSAVSVLAPNGRRHTVKVT-PSTVLLQVLEDTCRRQDFNPSEYDLKFQRTVLDLSLQWRFANLPNNAKLEMVP   80 (90)
T ss_dssp             --CCEEEECTTSCEEEECCC-TTSBHHHHHHHHHHHTTCCGGGCEEEETTEEESSSCBHHHHCCCSSCEEEEEC
T ss_pred             CccEEEEEcCCCcEEEEEEC-CCCCHHHHHHHHHHHhCCChhhCeEEeCCEeccccceeEecCCCCCCEEEEEE
Confidence            45789999999999999996 999999999999999999999999999999997664432    1466776654

>4da1_A Protein phosphatase 1K, mitochondrial; metal-ION-assisted catalysis, dehydrogenase phosphatase, hydrolase; 2.38A {Homo sapiens} PDB: 3qht_A 1l2n_A

Probab=95.48  E-value=0.0024  Score=65.05  Aligned_cols=77  Identities=12%  Similarity=0.169  Sum_probs=0.0

Q ss_pred             CcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCcccc----CCCceeEEeeecCCC
Q 012310            9 KALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD----DHITFNLVLRLLGGK   84 (466)
Q Consensus         9 ~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss----~gsTL~LvlRL~GGK   84 (466)
                      ..|+|.|+. +|....+.+. +++++..|+..++++.|+|..+++|+|+|++|.++.|..+    .+++|.+.+...||.
T Consensus        29 ~~i~lkv~~-~~~~~~~~i~-~~~~~~~l~~~y~~~~g~~~~~~~f~f~G~~i~~~~Tp~~l~med~d~i~~~~~q~gg~  106 (389)
T 4da1_A           29 THINLKVSD-GSSEIFFKIK-KTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQAPEDLDMEDNDIIEAHREQIGGE  106 (389)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CcEEEEEec-CCcEEEEEEC-CCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCCCHHHcCCCCCCEeeeeecccccc
Confidence            467888887 7788888886 7899999999999999999999999999999998877665    478999999999987


Q ss_pred             ccc
Q 012310           85 GGF   87 (466)
Q Consensus        85 GGF   87 (466)
                      ..|
T Consensus       107 n~~  109 (389)
T 4da1_A          107 NLY  109 (389)
T ss_dssp             ---
T ss_pred             ccc
Confidence            654

>2l76_A Nfatc2-interacting protein; ubiquitin-like domain, structural genomics, PSI-biology, Pro structure initiative; NMR {Homo sapiens}

Probab=94.95  E-value=0.13  Score=43.55  Aligned_cols=69  Identities=9%  Similarity=0.105  Sum_probs=57.4

Q ss_pred             CCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCcccc----CCCceeEE
Q 012310            7 SPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD----DHITFNLV   77 (466)
Q Consensus         7 s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss----~gsTL~Lv   77 (466)
                      ....|+|.|+. +|....+.+. .++....|....+++.|+++...|++|.|..|.++.|..+    .+++|.+.
T Consensus        18 ~~~~IniKV~~-~g~ev~FkIK-~tt~l~KL~~aYc~r~gv~~~sirFlfDG~rI~~~~TP~~L~meD~DiID~~   90 (95)
T 2l76_A           18 TPRLFPLKIRC-RADLVRLPLR-MSEPLQSVVDHMATHLGVSPSRILLLFGETELSPTATPRTLKLGVADIIDCV   90 (95)
T ss_dssp             CCCCEEEEEEC-SSSEEEEEEC-SSSCTHHHHHHHHHHHTSCGGGEEEEETTEECCTTSCHHHHTCCSSCEEEEE
T ss_pred             CCCeEEEEEEc-CCcEEEEEEe-cCChHHHHHHHHHhhcCCChhhEEEEECCcCCCCCCCHhHcCCCCCCEEEEE
Confidence            35569999995 7888888887 6888999999999999999999999999999999876443    35666544

>3qx1_A FAS-associated factor 1; UBX, protein binding, P97 binding; 1.60A {Homo sapiens} PDB: 3qwz_B* 3qc8_B 3qca_A 3qq8_B 3r3m_B 1h8c_A

Probab=94.31  E-value=0.26  Score=39.62  Aligned_cols=62  Identities=10%  Similarity=0.076  Sum_probs=49.0

Q ss_pred             CCCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEe--cCeecC--C-CCcccc
Q 012310            6 TSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIY--SGLQLK--D-RTVISD   69 (466)
Q Consensus         6 ~s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIf--nGK~L~--D-sstLss   69 (466)
                      |+.....|-|++++|..+.-.|. ++.||.+|.+.|.. .+.+...+.|+.  -.+.|.  | +.+|.+
T Consensus         3 ~~~~~~~i~iRlpdG~r~~~~F~-~~~tl~~v~~fv~~-~~~~~~~f~L~t~fPrk~l~~~d~~~TL~e   69 (84)
T 3qx1_A            3 HMEPVSKLRIRTPSGEFLERRFL-ASNKLQIVFDFVAS-KGFPWDEYKLLSTFPRRDVTQLDPNKSLLE   69 (84)
T ss_dssp             -CCCEEEEEEECTTSCEEEEEEE-TTSBHHHHHHHHHH-TTCCTTTEEEECSSSCCBGGGSCTTSBTTT
T ss_pred             CCCCeEEEEEECCCCCEEEEEeC-CCCCHHHHHHHHHH-cCCCCCCeEEEeCCCCCCCcCCCCCCCHHH
Confidence            35678899999999999888997 78999999999988 567778888884  467774  2 456654

>2kc2_A Talin-1, F1; FERM, adhesion, cell membrane, cell projection, cytoplasm, cytoskeleton, membrane, phosphoprotein, structural protein; NMR {Mus musculus}

Probab=93.56  E-value=0.088  Score=46.65  Aligned_cols=38  Identities=18%  Similarity=0.240  Sum_probs=35.3

Q ss_pred             EEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCC
Q 012310           12 QLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTH   50 (466)
Q Consensus        12 qIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e   50 (466)
                      .|.|++++|+..++.|+ .+.+|.+++..|+...||+..
T Consensus        13 ~LkV~llDg~~ktl~VD-~S~~V~~lv~~Ic~kigI~n~   50 (128)
T 2kc2_A           13 PLKIRMLDGTVKTIMVD-DSKTVTDMLMTICARIGITNH   50 (128)
T ss_dssp             EEEEECTTSCEEEEEEE-ECSSHHHHHHHHHHHHTCCCC
T ss_pred             cEEEEcCCCCEEEEEeC-CCcCHHHHHHHHHHHhCCCCc
Confidence            58899999999999998 899999999999999999865

>2l32_A Small archaeal modifier protein 2; protein BIN; NMR {Haloferax volcanii}

Probab=93.27  E-value=0.21  Score=39.78  Aligned_cols=66  Identities=9%  Similarity=0.195  Sum_probs=49.1

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccCCCceeEEeeecCC
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDHITFNLVLRLLGG   83 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~gsTL~LvlRL~GG   83 (466)
                      |+|.|+.+......+.++ +..|+.+|...    ++||+...-+..||+.+..+..+ . +++|.++.-.-||
T Consensus         1 M~v~Vkl~g~~~~~~ev~-~g~Tv~dLL~~----Lgl~~~~VvV~vNG~~v~~d~~l-~-GD~VeIv~~V~G~   66 (74)
T 2l32_A            1 MNVTVEVVGEETSEVAVD-DDGTYADLVRA----VDLSPHEVTVLVDGRPVPEDQSV-E-VDRVKVLRLIKGG   66 (74)
T ss_dssp             CEEEEECSSSSEEEEECS-TTCSHHHHHHT----TCCCSSCCCEECCCCCCCTTSSS-C-CCCEEECSSCSCC
T ss_pred             CEEEEEEeCccceeEEcC-CCCcHHHHHHH----cCCCcceEEEEECCEECCHHHCC-C-CCEEEEEEeeccc
Confidence            788898774345667886 67899998754    78999888777899999888765 3 8888665544444

>1wj4_A KIAA0794 protein; UBX domain, beta-grAsp fold, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: d.15.1.2

Probab=91.84  E-value=0.82  Score=39.78  Aligned_cols=60  Identities=13%  Similarity=0.207  Sum_probs=48.5

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEe--cCeecC--C-CCcccc
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIY--SGLQLK--D-RTVISD   69 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIf--nGK~L~--D-sstLss   69 (466)
                      .....|.||+++|..+.-.|. ++.||.+|.+.|... +.+...+.|+.  -.+.|.  + +.+|.+
T Consensus        41 ~~~t~IqIRlPdG~rl~~rF~-~~~tl~~V~~fV~~~-~~~~~~F~L~t~fPrk~l~~~d~~~TL~e  105 (124)
T 1wj4_A           41 GPKAQLMLRYPDGKREQITLP-EQAKLLALVKHVQSK-GYPNERFELLTNFPRRKLSHLDYDITLQE  105 (124)
T ss_dssp             SCEEEEEEECTTSCEEEEEEE-TTSCHHHHHHHHHHH-HCCTTTEEEECSSSCCEETSSCSSSCTTT
T ss_pred             CCcEEEEEECCCCCEEEEEeC-CCCCHHHHHHHHHhc-CCCCCCeEEecCCCCcCCccCCCCCCHHH
Confidence            457899999999999999998 799999999999876 77777788874  577773  3 456655

>2dzk_A UBX domain-containing protein 2; ubiquitin-like fold, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} PDB: 2kxj_A

Probab=91.78  E-value=0.91  Score=38.49  Aligned_cols=61  Identities=11%  Similarity=0.062  Sum_probs=49.8

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEe--cCeecCC---CCcccc
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIY--SGLQLKD---RTVISD   69 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIf--nGK~L~D---sstLss   69 (466)
                      .....|.||+++|..+.-.|. .+.||.+|.+.|....+.+...+.|+.  -.+.|..   +.+|.+
T Consensus        11 ~~~t~IqIRlpdG~rl~~rF~-~~~tl~~v~~fV~~~~~~~~~~f~L~t~fPrk~l~~~d~~~TL~e   76 (109)
T 2dzk_A           11 STIARIQFRLPDGSSFTNQFP-SDAPLEEARQFAAQTVGNTYGNFSLATMFPRREFTREDYKRRLLD   76 (109)
T ss_dssp             SCCEEEEEECSSSCEEEEEEC-TTSBHHHHHHHHHHHHTTSSCSCEEECSSSCCBCCTTTTTSBTGG
T ss_pred             CCcEEEEEECCCCCEEEEEeC-CCCCHHHHHHHHHhccCCCCCceEEEcCCCCcCCcccccCCCHHH
Confidence            456899999999999999997 799999999999988788777788874  5677762   356655

>3rpf_C Molybdopterin converting factor, subunit 1 (MOAD); MCSG, PSI-biology, structural genomics, midwest center for S genomics, transferase; 1.90A {Helicobacter pylori}

Probab=90.67  E-value=0.77  Score=35.85  Aligned_cols=71  Identities=10%  Similarity=0.110  Sum_probs=47.4

Q ss_pred             EEEEEEeCCCCE-EEEEecCCCCCHHHHHHHHHHhhCCCC--CCeEEEecCeecCCCCccccCCCceeEEeeecCC
Q 012310           11 LQLFVKLLNGKT-TTLNFTTCHVYGHEIKNRIYEATKIPT--HLQRLIYSGLQLKDRTVISDDHITFNLVLRLLGG   83 (466)
Q Consensus        11 MqIfVKtldGkT-~tL~V~sPs~TVsdLK~rI~e~~GIP~--e~QRLIfnGK~L~DsstLss~gsTL~LvlRL~GG   83 (466)
                      |.|.|+.|.... ..+.+.  ..||.+|++.+....++..  ....+..||+.+.+..+.-..++.+.+.++..||
T Consensus         1 M~v~V~~fa~l~~~~~e~~--~~tv~~ll~~L~~~~~l~~~l~~~~vavN~~~v~~~~~~l~~gDeV~i~PpvsGG   74 (74)
T 3rpf_C            1 MMVEVRFFGPIKEENFFIK--ANDLKELRAILQEKEGLKEWLGVCAIALNDHLIDNLNTPLKDGDVISLLPPVCGG   74 (74)
T ss_dssp             CEEEEEECTTCCCCCEEEE--CSSHHHHHHHHHTCTTTTTTTTTCEEEESSSEECCTTCCCCTTCEEEEECCBCCC
T ss_pred             CEEEEEEEeecceeEEeeC--CCcHHHHHHHHHHCcCHHHHhhccEEEECCEEcCCCCcCCCCCCEEEEECCCCCC
Confidence            567788775432 345553  5699999999986533322  3345667888865544444568899999999887

>1oey_A P67-PHOX, neutrophil cytosol factor 2; immune system, PB1 heterodimer/complex, NADPH oxidase, PB1 D heterodimerization; 2.0A {Homo sapiens} SCOP: d.15.2.2

Probab=89.47  E-value=0.86  Score=37.50  Aligned_cols=49  Identities=14%  Similarity=0.117  Sum_probs=42.2

Q ss_pred             CCCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEec
Q 012310            6 TSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYS   57 (466)
Q Consensus         6 ~s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfn   57 (466)
                      +|++.|.|.|..-  -++.+.++ +..+..+|.++|.+++++|++...|.|.
T Consensus         1 ~~~~~~~VKV~~~--~tvairvp-~~~~y~~L~~~l~~kL~l~~~~~~LsYk   49 (83)
T 1oey_A            1 GSHMAYTLKVHYK--YTVVMKTQ-PGLPYSQVRDMVSKKLELRLEHTKLSYR   49 (83)
T ss_dssp             CCSSCEEEEEESS--SEEEEEEC-TTCCHHHHHHHHHHHTTCCGGGCCEEEC
T ss_pred             CCCCcEEEEEEEE--EEEEEECC-CCCCHHHHHHHHHHHhCCCcceeEEEee
Confidence            3677788888853  68999998 7899999999999999999988888884

>1ryj_A Unknown; beta/alpha protein, structural genomics, protein structure initiative, OCSP, NESG, PSI; NMR {Methanothermococcusthermolithotrophicus} SCOP: d.15.3.2

Probab=89.14  E-value=3  Score=32.26  Aligned_cols=67  Identities=16%  Similarity=0.192  Sum_probs=48.2

Q ss_pred             cEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccCCCceeEEeeecCC
Q 012310           10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDHITFNLVLRLLGG   83 (466)
Q Consensus        10 ~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~gsTL~LvlRL~GG   83 (466)
                      .|+|+|.--.+ ...+.++ ...|+.+|...+    +++.....+..||..+..+..| ..++.|.+.....||
T Consensus         4 ~m~i~vNg~~~-~~~~~~~-~~~tv~~Ll~~l----~~~~~~v~vavN~~~v~~~~~L-~~gD~V~ii~~V~GG   70 (70)
T 1ryj_A            4 GMKFTVITDDG-KKILESG-APRRIKDVLGEL----EIPIETVVVKKNGQIVIDEEEI-FDGDIIEVIRVIYGG   70 (70)
T ss_dssp             CEEEEEEETTE-EEEEEES-SCCBHHHHHHHT----TCCTTTEEEEETTEECCTTSBC-CTTCEEEEEECTTCC
T ss_pred             eEEEEEeCccC-ceeEECC-CCCcHHHHHHHh----CCCCCCEEEEECCEECCCcccC-CCCCEEEEEeccccC
Confidence            58888874321 2456665 457999998875    5777777778899999877755 457888888877776

>1vjk_A Molybdopterin converting factor, subunit 1; structural genomics, PSI, protein structure INI southeast collaboratory for structural genomics; 1.51A {Pyrococcus furiosus} SCOP: d.15.3.1

Probab=87.03  E-value=4.2  Score=33.24  Aligned_cols=76  Identities=11%  Similarity=0.128  Sum_probs=48.5

Q ss_pred             CCCCcEEEEEEeCC------C-CEEEEEecCCCCCHHHHHHHHHHhhC-CC----------CCCeEEEecCeecCCCCcc
Q 012310            6 TSPKALQLFVKLLN------G-KTTTLNFTTCHVYGHEIKNRIYEATK-IP----------THLQRLIYSGLQLKDRTVI   67 (466)
Q Consensus         6 ~s~~~MqIfVKtld------G-kT~tL~V~sPs~TVsdLK~rI~e~~G-IP----------~e~QRLIfnGK~L~DsstL   67 (466)
                      |-.-.|+|.|+.|.      | ....+.++ ...||.+|...+..... +.          .....+..||+.+..+..|
T Consensus         5 ~~~~~~~v~V~~FA~lre~~g~~~~~~e~~-~~~Tv~~Ll~~L~~~~p~l~~~l~~~~g~~~~~v~v~VNg~~v~~~~~L   83 (98)
T 1vjk_A            5 HHHGSVKVKVKYFARFRQLAGVDEEEIELP-EGARVRDLIEEIKKRHEKFKEEVFGEGYDEDADVNIAVNGRYVSWDEEL   83 (98)
T ss_dssp             ----CEEEEEEECTHHHHHHSSSEEEEEEC-TTCBHHHHHHHHHHHCGGGGGSCBCSSSCTTSSBEEEETTBCCCTTCBC
T ss_pred             cccCcEEEEEEEhHHHHHHhCCCeEEEECC-CCCCHHHHHHHHHhHChhHHHHhhccccccCCcEEEEECCEECCCCCCC
Confidence            34567889998774      4 35677775 56799999999987631 10          1334566799888765555


Q ss_pred             ccCCCceeEEeeecCC
Q 012310           68 SDDHITFNLVLRLLGG   83 (466)
Q Consensus        68 ss~gsTL~LvlRL~GG   83 (466)
                       ..++.|.+.+...||
T Consensus        84 -~dGDeV~i~ppv~GG   98 (98)
T 1vjk_A           84 -KDGDVVGVFPPVSGG   98 (98)
T ss_dssp             -CTTCEEEEESCC---
T ss_pred             -CCCCEEEEECCCCCC
Confidence             457888888888776

>1tyg_B YJBS; alpha beta barrel, protein-protein complex, THis, BIOS protein; 3.15A {Bacillus subtilis} SCOP: d.15.3.2

Probab=84.86  E-value=1.4  Score=36.32  Aligned_cols=67  Identities=13%  Similarity=0.068  Sum_probs=43.0

Q ss_pred             CCCcEEEEEEeCCCCEEEEEecCCC-CCHHHHHHHHHHhhCCCCCCeEEEecCeecCCC---CccccCCCceeEEeeecC
Q 012310            7 SPKALQLFVKLLNGKTTTLNFTTCH-VYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDR---TVISDDHITFNLVLRLLG   82 (466)
Q Consensus         7 s~~~MqIfVKtldGkT~tL~V~sPs-~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~Ds---stLss~gsTL~LvlRL~G   82 (466)
                      +...|+|+|   +|+.+.  ++ .. .||.+|...+    +++.....+..||..+..+   .+....++.|.++....|
T Consensus        17 ~~~~M~I~v---NGe~~e--l~-~~~~Tv~dLL~~L----~~~~~~vaVavNg~iV~~~~~~~~~L~dGD~Vei~~~V~G   86 (87)
T 1tyg_B           17 IGGRHMLQL---NGKDVK--WK-KDTGTIQDLLASY----QLENKIVIVERNKEIIGKERYHEVELCDRDVIEIVHFVGG   86 (87)
T ss_dssp             -----CEEE---TTEEEC--CS-SSCCBHHHHHHHT----TCTTSCCEEEETTEEECGGGTTTSBCCSSSEEEEEEECCC
T ss_pred             CCcceEEEE---CCEEEE--CC-CCCCcHHHHHHHh----CCCCCCEEEEECCEECChhhcCCcCCCCCCEEEEEccccc
Confidence            345677765   476544  44 34 7999998865    5777777778899998653   233456888988887777


Q ss_pred             C
Q 012310           83 G   83 (466)
Q Consensus        83 G   83 (466)
                      |
T Consensus        87 G   87 (87)
T 1tyg_B           87 G   87 (87)
T ss_dssp             -
T ss_pred             C
Confidence            6

>2cr5_A Reproduction 8; UBX domain, D0H8S2298E protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.15.1.2

Probab=83.98  E-value=3.5  Score=34.74  Aligned_cols=59  Identities=14%  Similarity=0.150  Sum_probs=45.4

Q ss_pred             CcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEe--cCeecCC--CCcccc
Q 012310            9 KALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIY--SGLQLKD--RTVISD   69 (466)
Q Consensus         9 ~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIf--nGK~L~D--sstLss   69 (466)
                      ....|.||+++|..+.-+|. .+.||.+|.+.|... +.....+.|+.  -.+.|..  +.+|.+
T Consensus        22 ~~~~IqiRlpdG~r~~rrF~-~~~tl~~v~~fv~~~-~~~~~~f~L~t~fPrk~l~~d~~~TL~e   84 (109)
T 2cr5_A           22 EVVTVALRCPNGRVLRRRFF-KSWNSQVLLDWMMKV-GYHKSLYRLSTSFPRRALEVEGGSSLED   84 (109)
T ss_dssp             SEEEEEEECTTSCEEEEEEE-SSSBTHHHHHHHHHH-TCCTTTEEEECSSSCCBCCCCSSCBHHH
T ss_pred             CcEEEEEECCCCCEEEEEeC-CCCCHHHHHHHHHhc-CCCCCCeEEEeCCCCcCCCCCCCCCHHH
Confidence            47899999999999888997 789999999999865 45556677774  4667752  355554

>3po0_A Small archaeal modifier protein 1; ubiquitin-like protein, protein binding; 1.55A {Haloferax volcanii} PDB: 2l83_A

Probab=81.82  E-value=7.6  Score=30.81  Aligned_cols=61  Identities=10%  Similarity=0.071  Sum_probs=43.3

Q ss_pred             CEEEEEecCCCCCHHHHHHHHHHhhC-C-----CC-----CCeEEEecCeecCCCCccccCCCceeEEeeecCC
Q 012310           21 KTTTLNFTTCHVYGHEIKNRIYEATK-I-----PT-----HLQRLIYSGLQLKDRTVISDDHITFNLVLRLLGG   83 (466)
Q Consensus        21 kT~tL~V~sPs~TVsdLK~rI~e~~G-I-----P~-----e~QRLIfnGK~L~DsstLss~gsTL~LvlRL~GG   83 (466)
                      ....+.++ ...||.+|++.+..... +     ..     ....+..||+.+..+..| ..++.|.+.+++.||
T Consensus        18 ~~~~~~~~-~~~Tv~~ll~~L~~~~p~~~~~~l~~~g~l~~~~~v~VN~~~v~~~~~l-~~gDeV~i~Ppv~GG   89 (89)
T 3po0_A           18 RTVRVDVD-GDATVGDALDALVGAHPALESRVFGDDGELYDHINVLRNGEAAALGEAT-AAGDELALFPPVSGG   89 (89)
T ss_dssp             SEEEEECC-TTCBHHHHHHHHHHHCGGGHHHHBCTTSCBCTTSEEEETTEECCTTSBC-CTTCEEEEECCCSCC
T ss_pred             CeEEEECC-CCCcHHHHHHHHHHHCcHHHHHHhccCCcccccEEEEECCEECCCCccc-CCCCEEEEECCCCCC
Confidence            45677775 46799999999987642 1     00     124566799988776655 458899999998887

>3dwg_C 9.5 kDa culture filtrate antigen CFP10A; sulfur carrier protein complex, beta-grAsp fold, amino-acid biosynthesis; HET: PLP; 1.53A {Mycobacterium tuberculosis} PDB: 3dwm_A

Probab=80.58  E-value=4.2  Score=32.67  Aligned_cols=70  Identities=10%  Similarity=0.142  Sum_probs=44.9

Q ss_pred             EEEEEEeCC------CCEEEEEecCCCCCHHHHHHHHHHhhC-----C-C---C----CCeEEEecCeecCC----CCcc
Q 012310           11 LQLFVKLLN------GKTTTLNFTTCHVYGHEIKNRIYEATK-----I-P---T----HLQRLIYSGLQLKD----RTVI   67 (466)
Q Consensus        11 MqIfVKtld------GkT~tL~V~sPs~TVsdLK~rI~e~~G-----I-P---~----e~QRLIfnGK~L~D----sstL   67 (466)
                      |+|.|+.|.      |....+.+  ...||.+|+..+..+..     + .   .    ....+..||+.+..    +..|
T Consensus         1 M~v~V~~fa~lr~~~g~~~~~~~--~~~Tv~~ll~~L~~~~p~l~~~l~~~~~~g~~~~~~~v~VN~~~v~~~~~~~~~L   78 (93)
T 3dwg_C            1 MNVTVSIPTILRPHTGGQKSVSA--SGDTLGAVISDLEANYSGISERLMDPSSPGKLHRFVNIYVNDEDVRFSGGLATAI   78 (93)
T ss_dssp             -CEEEECCGGGGGGTTTCSEEEE--CCSBHHHHHHHHHHHSTTHHHHHBCSSSTTSBCTTEEEEETTEEGGGTTGGGCBC
T ss_pred             CEEEEEEeHHHHHHhCCCeEEec--CCCCHHHHHHHHHHHChhHHHHHhccccCCcccCCEEEEECCEEccCcCCCCcCC
Confidence            566776543      43334654  35799999999987642     0 0   0    12456669988764    3333


Q ss_pred             ccCCCceeEEeeecCC
Q 012310           68 SDDHITFNLVLRLLGG   83 (466)
Q Consensus        68 ss~gsTL~LvlRL~GG   83 (466)
                       ..++.|.+.+++.||
T Consensus        79 -~~gDeV~i~Ppv~GG   93 (93)
T 3dwg_C           79 -ADGDSVTILPAVAGG   93 (93)
T ss_dssp             -CTTCEEEEEECCTTC
T ss_pred             -CCCCEEEEECCCCCC
Confidence             457889999999887

---

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	466
d1ogwa_	76	d.15.1.1 (A:) Ubiquitin {Human (Homo sapiens) [Tax	1e-12
d2zeqa1	78	d.15.1.1 (A:1-78) Ubiquitin-like domain of parkin	1e-10
d1bt0a_	73	d.15.1.1 (A:) Rub1 {Mouse-ear cress (Arabidopsis t	6e-10
d1z2ma2	76	d.15.1.1 (A:79-154) Interferon-induced 15 kDa prot	1e-09
d1wx9a1	73	d.15.1.1 (A:8-80) Large proline-rich protein BAT3	1e-09
d1wh3a_	87	d.15.1.1 (A:) 2'-5'-oligoadenylate synthetase-like	1e-09
d1zkha1	86	d.15.1.1 (A:1-86) Splicing factor 3 subunit 1, C-t	6e-08
d1wx8a1	83	d.15.1.1 (A:8-90) 4931431F19Rik {Mouse (Mus muscul	1e-07
d1oqya4	77	d.15.1.1 (A:1-77) Ubiquitin-like domain of Rad23 h	2e-07
d2faza1	76	d.15.1.1 (A:1-76) Ubiquitin-like PHD and RING fing	2e-07
d1wgda_	93	d.15.1.1 (A:) Homocysteine-responsive endoplasmic	3e-07
d2c9wb1	103	d.15.1.1 (B:2-104) Elongin B {Human (Homo sapiens)	6e-07
d1uela_	95	d.15.1.1 (A:) Ubiquitin-like domain of Rad23 homol	1e-06
d1wy8a1	76	d.15.1.1 (A:8-83) Ubiquitin-like PHD and RING fing	2e-06
d1ttna1	80	d.15.1.1 (A:21-100) Dendritic cell-derived ubiquit	3e-06
d1x1ma1	94	d.15.1.1 (A:8-101) Ubiquitin-like protein 7 {Mouse	3e-06
d1we6a_	111	d.15.1.1 (A:) Splicing factor 3 subunit 1, C-termi	4e-06
d1wgha_	116	d.15.1.1 (A:) Ubiquitin-like protein 3, Ubl3 {Mous	5e-06
d1z2ma1	76	d.15.1.1 (A:3-78) Interferon-induced 15 kDa protei	8e-06
d1yqba1	84	d.15.1.1 (A:15-98) Ubiquilin-3 {Human (Homo sapien	2e-05
d2bwfa1	73	d.15.1.1 (A:2-74) DSK2 {Baker's yeast (Saccharomyc	1e-04
d1uh6a_	100	d.15.1.1 (A:) Ubiquitin-like protein 5, ubl5 {Mous	1e-04
d1v2ya_	105	d.15.1.1 (A:) Ubiquitin-like protein 3300001g02rik	2e-04
d1m94a_	73	d.15.1.1 (A:) Ubiquitin-like modifier protein hub1	4e-04
d1wiaa_	95	d.15.1.1 (A:) Ubiquitin-like protein bab25500 (201	4e-04
d1j8ca_	103	d.15.1.1 (A:) Ubiquitin-like N-terminal domain of	0.001
d1wjua_	100	d.15.1.1 (A:) NEDD8 ultimate buster-1, NUB1 {Human	0.001

>d1ogwa_ d.15.1.1 (A:) Ubiquitin {Human (Homo sapiens) [TaxId: 9606]} Length = 76

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 60.7 bits (147), Expect = 1e-12
 Identities = 33/77 (42%), Positives = 44/77 (57%), Gaps = 5/77 (6%)

Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          +Q+FVK L GKT TL           +K +I +   IP   QRLI++G QL+D   +SD 
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIE-NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59

Query: 71 HI----TFNLVLRLLGG 83
          +I    T +LVLRL GG
Sbjct: 60 NIQKESTLHLVLRLRGG 76

>d2zeqa1 d.15.1.1 (A:1-78) Ubiquitin-like domain of parkin {Mouse (Mus musculus) [TaxId: 10090]} Length = 78

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of parkin
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 55.3 bits (133), Expect = 1e-10
 Identities = 10/77 (12%), Positives = 30/77 (38%), Gaps = 5/77 (6%)

Query: 10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
           + +FV+  +     +   +       +K  + +   +P    R+I++G +L +   + +
Sbjct: 2  GMIVFVRFNSSYGFPVEVDSDTSILQ-LKEVVAKRQGVPADQLRVIFAGKELPNHLTVQN 60

Query: 70 DHI----TFNLVLRLLG 82
            +      ++V R   
Sbjct: 61 CDLEQQSIVHIVQRPRR 77

>d1bt0a_ d.15.1.1 (A:) Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 73

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Rub1
species: Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 53.3 bits (128), Expect = 6e-10
 Identities = 27/74 (36%), Positives = 35/74 (47%), Gaps = 7/74 (9%)

Query: 12 QLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
           + VK L GK   ++   T  +    IK R+ E   IP   QRLIY+G QL D     D 
Sbjct: 2  LIKVKTLTGKEIEIDIEPTDTID--RIKERVEEKEGIPPVQQRLIYAGKQLADDKTAKDY 59

Query: 71 HI----TFNLVLRL 80
          +I      +LVL L
Sbjct: 60 NIEGGSVLHLVLAL 73

>d1z2ma2 d.15.1.1 (A:79-154) Interferon-induced 15 kDa protein {Human (Homo sapiens) [TaxId: 9606]} Length = 76

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Interferon-induced 15 kDa protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.6 bits (126), Expect = 1e-09
 Identities = 14/76 (18%), Positives = 31/76 (40%), Gaps = 5/76 (6%)

Query: 9  KALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVIS 68
          + L + V+   G+++T            +K ++     +   L  L + G  L+D+  + 
Sbjct: 2  EPLSILVRNNKGRSSTYEVRLTQTVA-HLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLG 60

Query: 69 DDHI----TFNLVLRL 80
          +  +    T  + LRL
Sbjct: 61 EYGLKPLSTVFMNLRL 76

>d1wx9a1 d.15.1.1 (A:8-80) Large proline-rich protein BAT3 {Human (Homo sapiens) [TaxId: 9606]} Length = 73

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Large proline-rich protein BAT3
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.5 bits (126), Expect = 1e-09
 Identities = 22/72 (30%), Positives = 34/72 (47%), Gaps = 4/72 (5%)

Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
          L++ VK L+ +T T           E K  I  +  IP+  QRLIY G  L+D   + + 
Sbjct: 1  LEVLVKTLDSQTRTFIVGAQMNVK-EFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEY 59

Query: 71 HI---TFNLVLR 79
          ++     +LV R
Sbjct: 60 NVGGKVIHLVER 71

>d1wh3a_ d.15.1.1 (A:) 2'-5'-oligoadenylate synthetase-like protein, OASL {Human (Homo sapiens) [TaxId: 9606]} Length = 87

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 2'-5'-oligoadenylate synthetase-like protein, OASL
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.6 bits (126), Expect = 1e-09
 Identities = 17/84 (20%), Positives = 32/84 (38%), Gaps = 5/84 (5%)

Query: 5  ATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDR 64
          ++    +Q+FVK  +G +              +K +I +   +P   Q+L + G  L+D 
Sbjct: 2  SSGSSGIQVFVKNPDGGSYAYAINPNSFI-LGLKQQIEDQQGLPKKQQQLEFQGQVLQDW 60

Query: 65 TVISDDHI----TFNLVLRLLGGK 84
            +    I    T  L  +   G 
Sbjct: 61 LGLGIYGIQDSDTLILSKKKGSGP 84

>d1zkha1 d.15.1.1 (A:1-86) Splicing factor 3 subunit 1, C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 86

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Splicing factor 3 subunit 1, C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.9 bits (114), Expect = 6e-08
 Identities = 21/70 (30%), Positives = 34/70 (48%), Gaps = 7/70 (10%)

Query: 18 LNGKTTTLNF-TTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDHI---- 72
          LNG+        T  V    IK +I+EAT +P   Q+L Y G+ +KD   ++  ++    
Sbjct: 19 LNGQVLVFTLPLTDQV--SVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMANGA 76

Query: 73 TFNLVLRLLG 82
            +L L+  G
Sbjct: 77 VIHLALKERG 86

>d1wx8a1 d.15.1.1 (A:8-90) 4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]} Length = 83

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 4931431F19Rik
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 46.9 bits (111), Expect = 1e-07
 Identities = 16/83 (19%), Positives = 34/83 (40%), Gaps = 6/83 (7%)

Query: 1  MEDQATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQ 60
          +  +  S + +++ VK              +V     K +I +          LI++G  
Sbjct: 1  VSGREPSSRIIRVSVKTPQDCHEFFLAENSNV--RRFKKQISKYLHCNADRLVLIFTGKI 58

Query: 61 LKDRTVISDDHI----TFNLVLR 79
          L+D+ ++S   I    T ++V+R
Sbjct: 59 LRDQDILSQRGILDGSTVHVVVR 81

>d1oqya4 d.15.1.1 (A:1-77) Ubiquitin-like domain of Rad23 homolog A (Hhr23a) {Human (Homo sapiens) [TaxId: 9606]} Length = 77

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of Rad23 homolog A (Hhr23a)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.4 bits (110), Expect = 2e-07
 Identities = 17/75 (22%), Positives = 29/75 (38%), Gaps = 4/75 (5%)

Query: 10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYE---ATKIPTHLQRLIYSGLQLKDRTV 66
          A+ + +K L  +T  +           +K +I         P   Q+LIY+G  L D   
Sbjct: 2  AVTITLKTLQQQTFKIRMEPDETVKV-LKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVP 60

Query: 67 ISDDHITFNLVLRLL 81
          I D  I     + ++
Sbjct: 61 IRDYRIDEKNFVVVM 75

>d2faza1 d.15.1.1 (A:1-76) Ubiquitin-like PHD and RING finger domain-containing protein 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 76

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like PHD and RING finger domain-containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.0 bits (109), Expect = 2e-07
 Identities = 19/74 (25%), Positives = 37/74 (50%), Gaps = 5/74 (6%)

Query: 12 QLFVKLLNGKTT-TLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD 70
           + V+ ++G+ T T++  +      E++ +I E   +   LQRL Y G Q++D   + D 
Sbjct: 2  WIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFDY 61

Query: 71 HI----TFNLVLRL 80
           +    T  L++R 
Sbjct: 62 EVRLNDTIQLLVRQ 75

>d1wgda_ d.15.1.1 (A:) Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein, HERPUD1 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein, HERPUD1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.0 bits (109), Expect = 3e-07
 Identities = 20/90 (22%), Positives = 30/90 (33%), Gaps = 13/90 (14%)

Query: 5  ATSPKALQLFVKLLNGKTTTLNF---TTCHVYGHEIKNRIYE--ATKIPTHLQRLIYSGL 59
          ++    + L VK  N +   L         V    +K  +      +     QRLIYSG 
Sbjct: 2  SSGSSGVTLLVKSPNQRHRDLELSGDRGWSV--GHLKAHLSRVYPERPRPEDQRLIYSGK 59

Query: 60 QLKDRTVISD------DHITFNLVLRLLGG 83
           L D   + D           +LV  +  G
Sbjct: 60 LLLDHQCLRDLLPKQEKRHVLHLVCNVKSG 89

>d2c9wb1 d.15.1.1 (B:2-104) Elongin B {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Elongin B
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.6 bits (108), Expect = 6e-07
 Identities = 16/83 (19%), Positives = 23/83 (27%), Gaps = 11/83 (13%)

Query: 12 QLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDH 71
           +F+ +   KTT            E+K  +    K P   QRL      L D   + +  
Sbjct: 1  DVFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGKTLGECG 60

Query: 72 I-----------TFNLVLRLLGG 83
                      T  L  R    
Sbjct: 61 FTSQTARPQAPATVGLAFRADDT 83

>d1uela_ d.15.1.1 (A:) Ubiquitin-like domain of Rad23 homolog B (Hhr23B) {Human (Homo sapiens) [TaxId: 9606]} Length = 95

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of Rad23 homolog B (Hhr23B)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.6 bits (105), Expect = 1e-06
 Identities = 16/74 (21%), Positives = 31/74 (41%), Gaps = 4/74 (5%)

Query: 11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATK---IPTHLQRLIYSGLQLKDRTVI 67
          +Q+ +K L  +T  ++          +K +I         P   Q+LIY+G  L D T +
Sbjct: 1  MQVTLKTLQQQTFKIDIDPEETV-KALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTAL 59

Query: 68 SDDHITFNLVLRLL 81
           +  I     + ++
Sbjct: 60 KEYKIDEKNFVVVM 73

>d1wy8a1 d.15.1.1 (A:8-83) Ubiquitin-like PHD and RING finger domain-containing protein 2 {Human (Homo sapiens) [TaxId: 9606]} Length = 76

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like PHD and RING finger domain-containing protein 2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.4 bits (102), Expect = 2e-06
 Identities = 17/76 (22%), Positives = 32/76 (42%), Gaps = 11/76 (14%)

Query: 12 QLFVKLLNGKTTTLNFTTCHVYGH----EIKNRIYEATKIPTHLQRLIYSGLQLKDRTVI 67
           + V+ ++G  T    T   V       E++ R++    +    QRL Y G QL++   +
Sbjct: 2  WIQVRTIDGSKT---CTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTL 58

Query: 68 SDDHI----TFNLVLR 79
           D  +       L++R
Sbjct: 59 FDYDVGLNDIIQLLVR 74

>d1ttna1 d.15.1.1 (A:21-100) Dendritic cell-derived ubiquitin-like protein {Human (Homo sapiens) [TaxId: 9606]} Length = 80

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Dendritic cell-derived ubiquitin-like protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.0 bits (101), Expect = 3e-06
 Identities = 16/73 (21%), Positives = 29/73 (39%), Gaps = 5/73 (6%)

Query: 12 QLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDH 71
          QL ++L  GK   L   +       +K R++ A  +    QR  +SG  L D+    +  
Sbjct: 5  QLRLRLSTGKDLKLVVRSTDTVF-HMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELK 63

Query: 72 I----TFNLVLRL 80
          I       +++  
Sbjct: 64 IPKDYVVQVIVSQ 76

>d1x1ma1 d.15.1.1 (A:8-101) Ubiquitin-like protein 7 {Mouse (Mus musculus) [TaxId: 10090]} Length = 94

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 7
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 43.3 bits (102), Expect = 3e-06
 Identities = 16/82 (19%), Positives = 30/82 (36%), Gaps = 9/82 (10%)

Query: 5  ATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYE---ATKIPTHLQRLIYSGLQL 61
          A  P A +  ++L   +    +     +    +K  I      +     L  LIY G +L
Sbjct: 13 ADQPLAPKSILQLPETELGEYSLGGYSIS--FLKQLIAGKLQESVPDPELIDLIYCGRKL 70

Query: 62 KDRTVISDDHI----TFNLVLR 79
          KD   +    I    T +++ +
Sbjct: 71 KDDQTLDFYGIQPGSTVHVLRK 92

>d1we6a_ d.15.1.1 (A:) Splicing factor 3 subunit 1, C-terminal domain {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 111

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Splicing factor 3 subunit 1, C-terminal domain
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 43.4 bits (102), Expect = 4e-06
 Identities = 16/87 (18%), Positives = 32/87 (36%), Gaps = 5/87 (5%)

Query: 3   DQATSPKALQLFVKLL-NGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQL 61
            Q   P  +++      +G+   +   +       +K +I    +IP + Q+L      L
Sbjct: 22  AQHPGPATIRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFL 81

Query: 62  KDRTVISDDHI----TFNLVLRLLGGK 84
           KD   ++  ++       L LR   G 
Sbjct: 82  KDNMSLAHYNVGAGEILTLSLRERSGP 108

>d1wgha_ d.15.1.1 (A:) Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculus) [TaxId: 10090]} Length = 116

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 3, Ubl3
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 43.0 bits (101), Expect = 5e-06
 Identities = 18/92 (19%), Positives = 29/92 (31%), Gaps = 14/92 (15%)

Query: 1  MEDQATSPKALQLFVKLLNGKTTTLNF----TTCHV---YGHEIKNRIYEATKIPTHLQR 53
          M     +   + L + L++GKT    F    +   +             E      ++ R
Sbjct: 8  MSSHVPADM-INLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILR 66

Query: 54 LIYSGLQLKDRTVISDDHITFN------LVLR 79
          LIY G  L     +    + F       LV R
Sbjct: 67 LIYQGRFLHGNVTLGALKLPFGKTTVMHLVAR 98

>d1z2ma1 d.15.1.1 (A:3-78) Interferon-induced 15 kDa protein {Human (Homo sapiens) [TaxId: 9606]} Length = 76

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Interferon-induced 15 kDa protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.4 bits (97), Expect = 8e-06
 Identities = 20/75 (26%), Positives = 35/75 (46%), Gaps = 9/75 (12%)

Query: 12 QLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIY--SGLQLKDRTVIS 68
           L VK+L G    ++ + +  V   E+K +I +   +    QRL    SG+ L+DR  ++
Sbjct: 2  DLTVKMLAGNEFQVSLSSSMSVS--ELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLA 59

Query: 69 DDHI----TFNLVLR 79
             +    T  LV+ 
Sbjct: 60 SQGLGPGSTVLLVVD 74

>d1yqba1 d.15.1.1 (A:15-98) Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]} Length = 84

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquilin-3
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.1 bits (96), Expect = 2e-05
 Identities = 19/79 (24%), Positives = 34/79 (43%), Gaps = 6/79 (7%)

Query: 5  ATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDR 64
            SP  +++ VK    K       TC +   ++K  I +  K       LI++G  LKD 
Sbjct: 2  RGSPHLIKVTVKTPKDKEDFSVTDTCTI--QQLKEEISQRFKAHPDQLVLIFAGKILKDP 59

Query: 65 TVISDDHI----TFNLVLR 79
            ++   +    T +LV++
Sbjct: 60 DSLAQCGVRDGLTVHLVIK 78

>d2bwfa1 d.15.1.1 (A:2-74) DSK2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 73

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: DSK2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 38.2 bits (89), Expect = 1e-04
 Identities = 23/74 (31%), Positives = 31/74 (41%), Gaps = 6/74 (8%)

Query: 10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
          +L + +K    K          V   + K  I +A  IP   QRLIYSG  LKD   +  
Sbjct: 1  SLNIHIKSGQDKWEVNVAPESTV--LQFKEAINKANGIPVANQRLIYSGKILKDDQTVES 58

Query: 70 DHI----TFNLVLR 79
           HI    + +LV  
Sbjct: 59 YHIQDGHSVHLVKS 72

>d1uh6a_ d.15.1.1 (A:) Ubiquitin-like protein 5, ubl5 {Mouse (Mus musculus) [TaxId: 10090]} Length = 100

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 5, ubl5
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 38.8 bits (90), Expect = 1e-04
 Identities = 14/79 (17%), Positives = 24/79 (30%), Gaps = 1/79 (1%)

Query: 2  EDQATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQL 61
               +   +++      GK   +   T    G ++K  I   T    +   L       
Sbjct: 20 RGSEGAATMIEVVCNDRLGKKVRVKCNTDDTIG-DLKKLIAAQTGTRWNKIVLKKWYTIF 78

Query: 62 KDRTVISDDHITFNLVLRL 80
          KD   + D  I   + L L
Sbjct: 79 KDHVSLGDYEIHDGMNLEL 97

>d1v2ya_ d.15.1.1 (A:) Ubiquitin-like protein 3300001g02rik {Mouse (Mus musculus) [TaxId: 10090]} Length = 105

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 3300001g02rik
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 38.5 bits (89), Expect = 2e-04
 Identities = 11/101 (10%), Positives = 31/101 (30%), Gaps = 21/101 (20%)

Query: 5   ATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQR----------- 53
           ++    + + V  ++G+   +          ++K  I    ++    +            
Sbjct: 2   SSGSSGMTVRVCKMDGEVMPVVVVQNA-TVLDLKKAIQRYVQLKQEREGGVQHISWSYVW 60

Query: 54  ----LIYSGLQLKDRTV-ISDDHI----TFNLVLRLLGGKG 85
               L  +G +L +    + D  I      + + +L    G
Sbjct: 61  RTYHLTSAGEKLTEDRKKLRDYGIRNRDEVSFIKKLGQKSG 101

>d1m94a_ d.15.1.1 (A:) Ubiquitin-like modifier protein hub1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 73

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like modifier protein hub1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 37.0 bits (85), Expect = 4e-04
 Identities = 13/71 (18%), Positives = 22/71 (30%), Gaps = 3/71 (4%)

Query: 11 LQLFVKLLNGKTTTLNFT-TCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD 69
          +++ V    GK   +       V   + K  +        +   L   G  LKD   + D
Sbjct: 2  IEVVVNDRLGKKVRVKCLAEDSVG--DFKKVLSLQIGTQPNKIVLQKGGSVLKDHISLED 59

Query: 70 DHITFNLVLRL 80
            +     L L
Sbjct: 60 YEVHDQTNLEL 70

>d1wiaa_ d.15.1.1 (A:) Ubiquitin-like protein bab25500 (2010008E23Rik) {Mouse (Mus musculus) [TaxId: 10090]} Length = 95

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein bab25500 (2010008E23Rik)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 37.2 bits (86), Expect = 4e-04
 Identities = 14/78 (17%), Positives = 27/78 (34%), Gaps = 5/78 (6%)

Query: 5  ATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQL-KD 63
          ++    + + +K LN                 +K++ +          +LIY G  L   
Sbjct: 2  SSGSSGINVRLKFLNDTEELAVARPED-TVGTLKSKYFP---GQESQMKLIYQGRLLQDP 57

Query: 64 RTVISDDHITFNLVLRLL 81
             +S  +IT N V+   
Sbjct: 58 ARTLSSLNITNNCVIHCH 75

>d1j8ca_ d.15.1.1 (A:) Ubiquitin-like N-terminal domain of PLIC-2 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like N-terminal domain of PLIC-2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.1 bits (83), Expect = 0.001
 Identities = 20/82 (24%), Positives = 32/82 (39%), Gaps = 6/82 (7%)

Query: 2   EDQATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQL 61
                 PK +++ VK    K          V   + K  I +  K  T    LI++G  L
Sbjct: 24  AAAPAEPKIIKVTVKTPKEKEEFAVPENSSV--QQFKEAISKRFKSQTDQLVLIFAGKIL 81

Query: 62  KDRTVISDDHI----TFNLVLR 79
           KD+  +    I    T +LV++
Sbjct: 82  KDQDTLIQHGIHDGLTVHLVIK 103

>d1wjua_ d.15.1.1 (A:) NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens) [TaxId: 9606]} Length = 100

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: NEDD8 ultimate buster-1, NUB1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.7 bits (82), Expect = 0.001
 Identities = 14/85 (16%), Positives = 38/85 (44%), Gaps = 3/85 (3%)

Query: 4  QATSPKALQLFV--KLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQL 61
          + T    +++F+  +L   +   L     H+ G E++++I E   +  +  +++ +  QL
Sbjct: 11 RTTGIATIEVFLPPRLKKDRKNLLETRL-HITGRELRSKIAETFGLQENYIKIVINKKQL 69

Query: 62 KDRTVISDDHITFNLVLRLLGGKGG 86
          +    + +  +  N+   +L  K  
Sbjct: 70 QLGKTLEEQGVAHNVKAMVLELKQS 94

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	466
d1ogwa_	76	Ubiquitin {Human (Homo sapiens) [TaxId: 9606]}	99.64
d1wh3a_	87	2'-5'-oligoadenylate synthetase-like protein, OASL	99.61
d2zeqa1	78	Ubiquitin-like domain of parkin {Mouse (Mus muscul	99.6
d1bt0a_	73	Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxI	99.56
d1z2ma2	76	Interferon-induced 15 kDa protein {Human (Homo sap	99.56
d2faza1	76	Ubiquitin-like PHD and RING finger domain-containi	99.51
d1wx9a1	73	Large proline-rich protein BAT3 {Human (Homo sapie	99.49
d1ttna1	80	Dendritic cell-derived ubiquitin-like protein {Hum	99.45
d1wy8a1	76	Ubiquitin-like PHD and RING finger domain-containi	99.43
d1we6a_	111	Splicing factor 3 subunit 1, C-terminal domain {Th	99.39
d1uela_	95	Ubiquitin-like domain of Rad23 homolog B (Hhr23B)	99.37
d1yqba1	84	Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	99.33
d1wx8a1	83	4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]	99.32
d1m94a_	73	Ubiquitin-like modifier protein hub1 {Baker's yeas	99.31
d1z2ma1	76	Interferon-induced 15 kDa protein {Human (Homo sap	99.31
d1oqya4	77	Ubiquitin-like domain of Rad23 homolog A (Hhr23a)	99.29
d1j8ca_	103	Ubiquitin-like N-terminal domain of PLIC-2 {Human	99.29
d1zkha1	86	Splicing factor 3 subunit 1, C-terminal domain {Hu	99.28
d2bwfa1	73	DSK2 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.27
d1uh6a_	100	Ubiquitin-like protein 5, ubl5 {Mouse (Mus musculu	99.26
d1wgha_	116	Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculu	99.25
d1se9a_	101	Hypothetical protein At3g01050 {Thale cress (Arabi	99.24
d1wiaa_	95	Ubiquitin-like protein bab25500 (2010008E23Rik) {M	99.16
d1v2ya_	105	Ubiquitin-like protein 3300001g02rik {Mouse (Mus m	99.13
d1wgda_	93	Homocysteine-responsive endoplasmic reticulum-resi	99.13
d1v5oa_	102	1700011n24rik protein {Mouse (Mus musculus) [TaxId	99.09
d1wgga_	96	Ubiquitin carboxyl-terminal hydrolase 14 {Mouse (M	99.05
d2c9wb1	103	Elongin B {Human (Homo sapiens) [TaxId: 9606]}	99.0
d1v86a_	95	hypothetical D7wsu128e protein {Mouse (Mus musculu	98.99
d1wjua_	100	NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens	98.93
d1euvb_	79	SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomy	98.91
d1v5ta_	90	8430435i17rik protein {Mouse (Mus musculus) [TaxId	98.84
d1wxva1	81	Bag-family molecular chaperone regulator-1 {Human	98.72
d1v6ea_	95	Ubiquitin-like domain of tubulin folding cofactor	98.71
d2uyzb1	77	SUMO-1 (smt3 homologue) {Human (Homo sapiens) [Tax	98.55
d1wjna_	97	Tubulin-folding protein TbcE {Mouse (Mus musculus)	98.29
d1x1ma1	94	Ubiquitin-like protein 7 {Mouse (Mus musculus) [Ta	98.13
d1t0ya_	90	Ubiquitin-like domain of tubulin folding cofactor	98.01
d1wm3a_	72	SUMO-2 {Human (Homo sapiens) [TaxId: 9606]}	96.97
d2al3a1	76	Tether containing UBX domain for GLUT4 (Tug) {Mous	95.17
d1wf9a1	94	NPL4-like protein 1 {Thale cress (Arabidopsis thal	94.74
d1wgra_	100	Growth factor receptor-bound protein 7, GRB-7 {Hum	91.56
d1h8ca_	82	Fas-associated factor 1, Faf1 {Human (Homo sapiens	91.33
d1i42a_	89	p47 {Rat (Rattus norvegicus) [TaxId: 10116]}	90.63
d1wj4a_	124	Hypothetical protein KIAA0794 {Human (Homo sapiens	88.44
d1xo3a_	101	C9orf74 homolog {Mouse (Mus musculus) [TaxId: 1009	82.12
d2cr5a1	96	UBX domain-containing protein 6 (Reproduction 8) {	81.11
d1vjka_	88	Molybdopterin synthase subunit MoaD {Pyrococcus fu	81.11
d1ef1a3	84	Moesin {Human (Homo sapiens) [TaxId: 9606]}	80.27

>d1ogwa_ d.15.1.1 (A:) Ubiquitin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=2.3e-16  Score=125.22  Aligned_cols=72  Identities=44%  Similarity=0.627  Sum_probs=69.3

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCC
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGG   83 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GG   83 (466)
                      |||||++++|+++++.+. +++||.+||.+|+...+||++.|+|+|+|++|.|+.+|.+|    +++|+|++|++||
T Consensus         1 MqI~Vk~l~G~~~~l~v~-~~~tV~~lK~~I~~~~gi~~~~qrL~~~Gk~L~d~~tL~~y~i~~~s~I~L~~rlrgG   76 (76)
T d1ogwa_           1 MQIFVKTLTGKTITLEVE-PSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG   76 (76)
T ss_dssp             CEEEEEETTSCEEEEECC-TTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEECTTCC
T ss_pred             CEEEEEcCCCCEEEEEEC-CCCcHHHHHHhhhhhcCCChHHEEeEECCeEcCCCCCHHHcCCCCCCEEEEEEecCCC
Confidence            899999999999999997 89999999999999999999999999999999999999986    6799999999998

>d1wh3a_ d.15.1.1 (A:) 2'-5'-oligoadenylate synthetase-like protein, OASL {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 2'-5'-oligoadenylate synthetase-like protein, OASL
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.61  E-value=6.7e-16  Score=125.67  Aligned_cols=78  Identities=21%  Similarity=0.254  Sum_probs=73.1

Q ss_pred             CCCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeec
Q 012310            6 TSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLL   81 (466)
Q Consensus         6 ~s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~   81 (466)
                      +.+..|+|||++++|++++|.|. ++.||.+||++|+.++|||+++|+|+|+|++|.|+.+|.+|    +++|+|++|++
T Consensus         3 ~~s~~mqI~Vk~~~g~~~~l~v~-~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~~tL~~y~I~~~stl~l~~r~~   81 (87)
T d1wh3a_           3 SGSSGIQVFVKNPDGGSYAYAIN-PNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIYGIQDSDTLILSKKKG   81 (87)
T ss_dssp             CCSSSEEEEEEETTTEEEEEEEC-SSSBHHHHHHHHHHHTCCCTTTEEEEETTEECCSSSBHHHHTCCTTEEEEEEECSC
T ss_pred             CCCCcEEEEEECCCCCEEEEEEC-CcCcHHHHHHHHHHHHCcChHHeEEEeeceEcCCCCcHHHcCCCCCCEEEEEecCC
Confidence            36789999999999999999997 89999999999999999999999999999999999999886    67999999999


Q ss_pred             CCC
Q 012310           82 GGK   84 (466)
Q Consensus        82 GGK   84 (466)
                      ||.
T Consensus        82 ~gp   84 (87)
T d1wh3a_          82 SGP   84 (87)
T ss_dssp             CCS
T ss_pred             CCC
Confidence            875

>d2zeqa1 d.15.1.1 (A:1-78) Ubiquitin-like domain of parkin {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of parkin
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.60  E-value=1.1e-15  Score=122.31  Aligned_cols=73  Identities=14%  Similarity=0.250  Sum_probs=69.2

Q ss_pred             CcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecC
Q 012310            9 KALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLG   82 (466)
Q Consensus         9 ~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~G   82 (466)
                      +-|+|||++++|++++|.|. +++||.+||++|+++.|||+++|+|+|+|+.|.|+.+|.+|    +++|||++|++|
T Consensus         1 ~~M~I~Vk~~~g~t~~l~v~-~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lv~R~rg   77 (78)
T d2zeqa1           1 MGMIVFVRFNSSYGFPVEVD-SDTSILQLKEVVAKRQGVPADQLRVIFAGKELPNHLTVQNCDLEQQSIVHIVQRPRR   77 (78)
T ss_dssp             CCEEEEEESSSSSCEEEEEC-TTCBHHHHHHHHHHHHTCCGGGEEEEETTEEECTTCBGGGSSCCTTCEEEEEESSCC
T ss_pred             CceEEEEEcCCCCEEEEEEc-ccccHHHHHHHHHHHHCcChhHeEEEEeeeEcCCCCCHHHcCCCCCCEEEEEeccCC
Confidence            35999999999999999998 89999999999999999999999999999999999999987    679999999987

>d1bt0a_ d.15.1.1 (A:) Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Rub1
species: Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.56  E-value=3.1e-15  Score=117.65  Aligned_cols=69  Identities=36%  Similarity=0.447  Sum_probs=66.1

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeee
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRL   80 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL   80 (466)
                      |+|+||+++|+++++.|. |++||.+||++|++..|+|+++|+|+|+|++|.|+.+|.+|    +++|||++||
T Consensus         1 M~I~Vk~~~G~~~~l~V~-~~~tV~~lK~~i~~~~gi~~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lvlrL   73 (73)
T d1bt0a_           1 MLIKVKTLTGKEIEIDIE-PTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLADDKTAKDYNIEGGSVLHLVLAL   73 (73)
T ss_dssp             CEEEEECTTSCEEEEECC-TTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECC
T ss_pred             CEEEEEeCCCCEEEEEEC-CCCcHHHHHHHHHHHhCCChHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEeeC
Confidence            899999999999999997 89999999999999999999999999999999999999986    6799999997

>d1z2ma2 d.15.1.1 (A:79-154) Interferon-induced 15 kDa protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Interferon-induced 15 kDa protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.56  E-value=5.4e-15  Score=117.02  Aligned_cols=71  Identities=20%  Similarity=0.288  Sum_probs=67.5

Q ss_pred             CcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeee
Q 012310            9 KALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRL   80 (466)
Q Consensus         9 ~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL   80 (466)
                      ..|||||++++|+++++.|. ++.||.+||.+|++..|||+++|+|+|+|+.|.|+.+|++|    +++|+|++||
T Consensus         2 ~~~qi~Vk~~~G~~~~l~v~-~~~tV~~lK~~I~~~~gi~~~~qrL~~~gk~L~d~~tL~~y~I~~~sti~l~lRL   76 (76)
T d1z2ma2           2 EPLSILVRNNKGRSSTYEVR-LTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRL   76 (76)
T ss_dssp             CCEEEEEECTTSCEEEEEEC-TTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEECC
T ss_pred             CCEEEEEEcCCCCEEEEEEC-CCCcHHHHHHHHHHHhcCChhHeEEEECCeECCCCCcHHHcCCCCCCEEEEEEeC
Confidence            47999999999999999998 89999999999999999999999999999999999999987    6799999986

>d2faza1 d.15.1.1 (A:1-76) Ubiquitin-like PHD and RING finger domain-containing protein 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like PHD and RING finger domain-containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.51  E-value=2.8e-14  Score=113.73  Aligned_cols=70  Identities=27%  Similarity=0.409  Sum_probs=64.3

Q ss_pred             EEEEEEeCCCC-EEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeee
Q 012310           11 LQLFVKLLNGK-TTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRL   80 (466)
Q Consensus        11 MqIfVKtldGk-T~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL   80 (466)
                      |+|||++++|+ ++++....+++||.+||.+|+++.|||++.|+|+|+|+.|.|+.+|.+|    +++|||++|+
T Consensus         1 M~I~Vktl~Gk~t~~l~~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~y~I~~~sti~lv~r~   75 (76)
T d2faza1           1 MWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFDYEVRLNDTIQLLVRQ   75 (76)
T ss_dssp             EEEEEEETTSSCEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTTTTTCCTTCEEEEEECC
T ss_pred             CEEEEEeCCCCcEEEEecCCCCCCHHHHHHHHHHHHCcChHHeEEEEeeEeccCCCcHHHcCCCCCCEEEEEEEc
Confidence            89999999996 8988633489999999999999999999999999999999999999987    5799999986

>d1wx9a1 d.15.1.1 (A:8-80) Large proline-rich protein BAT3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Large proline-rich protein BAT3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.49  E-value=9.7e-15  Score=115.18  Aligned_cols=70  Identities=31%  Similarity=0.433  Sum_probs=65.5

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC---CCceeEEeeec
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD---HITFNLVLRLL   81 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~---gsTL~LvlRL~   81 (466)
                      |+|+|++++|++++|.|. ++.||.+||++|++..|||++.|||+|+|++|.|+.+|.+|   +++|||++|.+
T Consensus         1 m~I~Vk~~~g~~~~l~V~-~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~~tL~dy~i~~~ti~lv~r~P   73 (73)
T d1wx9a1           1 LEVLVKTLDSQTRTFIVG-AQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYNVGGKVIHLVERAP   73 (73)
T ss_dssp             EEEEEECTTSCEEEEEEC-TTSBHHHHHHHHHHHHCCCTTTCCCEETTEECCSSSBHHHHTCTTEEEBCCCSSC
T ss_pred             CEEEEEcCCCCEEEEEEC-CCChHHHHHHHHHHHhCCChHHEEEEECCeEccCCCCHHHhCCCCCEEEEEecCC
Confidence            899999999999999997 89999999999999999999999999999999999999886   56999988754

>d1ttna1 d.15.1.1 (A:21-100) Dendritic cell-derived ubiquitin-like protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Dendritic cell-derived ubiquitin-like protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.45  E-value=6.4e-14  Score=112.12  Aligned_cols=72  Identities=21%  Similarity=0.238  Sum_probs=67.9

Q ss_pred             cEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecC
Q 012310           10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLG   82 (466)
Q Consensus        10 ~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~G   82 (466)
                      .||||||+++|++++|.|. +++||.+||.+|+..+|||++.|+|+|+|++|.|+.+|.+|    +++|+|+++.+.
T Consensus         3 e~qi~Vk~~~G~~~~l~V~-~~~tV~~lK~~I~~~~~ip~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lvi~~p~   78 (80)
T d1ttna1           3 ECQLRLRLSTGKDLKLVVR-STDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELKIPKDYVVQVIVSQPV   78 (80)
T ss_dssp             SEEEEEEETTTEEEEEEEC-TTSHHHHHHHHHHHTTCCCSTTCEEEETTEECCTTSHHHHCCCSSSCEEEEECCCSS
T ss_pred             eEEEEEEcCCCCEEEEEEC-CcCcHHHHHHHHHHHhCCCcccEEEEECceEcCCCCcHHHcCCCCCCEEEEEecCCC
Confidence            7999999999999999998 89999999999999999999999999999999999999986    679999998764

>d1wy8a1 d.15.1.1 (A:8-83) Ubiquitin-like PHD and RING finger domain-containing protein 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like PHD and RING finger domain-containing protein 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.43  E-value=1.7e-13  Score=109.12  Aligned_cols=69  Identities=25%  Similarity=0.416  Sum_probs=63.5

Q ss_pred             EEEEEEeCCC-CEEEE-EecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeee
Q 012310           11 LQLFVKLLNG-KTTTL-NFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRL   80 (466)
Q Consensus        11 MqIfVKtldG-kT~tL-~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL   80 (466)
                      |+|+|++++| +++++ .+. |+.||.+||.+|+...|||+++|+|+|+|+.|.|+.+|++|    +++|+|++|.
T Consensus         1 M~I~Vk~l~G~~t~~~~~v~-~~~TV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~~tL~~y~I~~~s~i~lv~rp   75 (76)
T d1wy8a1           1 MWIQVRTIDGSKTCTIEDVS-RKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFDYDVGLNDIIQLLVRP   75 (76)
T ss_dssp             EEEEEEETTCSCEEEEEEEC-TTCBHHHHHHHHHHHSCCCTTTEEEEETTEECCSSSBHHHHTCCTTCEEEEEECC
T ss_pred             CEEEEEeCCCCceEEEeccC-CCChHHHHHHHHHHHHCCCchhcEEEEEeeEecCCCCHHHcCCCCCCEEEEEEcc
Confidence            8999999999 58887 586 89999999999999999999999999999999999999886    6799999873

>d1we6a_ d.15.1.1 (A:) Splicing factor 3 subunit 1, C-terminal domain {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Splicing factor 3 subunit 1, C-terminal domain
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.39  E-value=1.8e-13  Score=116.74  Aligned_cols=78  Identities=19%  Similarity=0.213  Sum_probs=70.7

Q ss_pred             CCCCcEEEEEEeC-CCCEEEEEecCC-CCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEee
Q 012310            6 TSPKALQLFVKLL-NGKTTTLNFTTC-HVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLR   79 (466)
Q Consensus         6 ~s~~~MqIfVKtl-dGkT~tL~V~sP-s~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlR   79 (466)
                      +.+.+++|+|++. +|++++|.|. | ++||.+||.+|++.+|||+++|+|+|+|+.|.|+.+|.+|    +++|+|++|
T Consensus        25 ~g~~ti~V~v~~~~~G~~i~l~v~-~~sdtV~~lK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~ynI~~gsti~L~lr  103 (111)
T d1we6a_          25 PGPATIRVSKPNENDGQFMEITVQ-SLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMSLAHYNVGAGEILTLSLR  103 (111)
T ss_dssp             CSCEEEEECCTTCSSSCCEEEEES-CSSSBHHHHHHHHHHHTTCCTTTSEEECSSSBCCTTSBTTTTTCSSSCEEEEECS
T ss_pred             CCCEEEEEEcccCCCCeEEEEEec-CCccHHHHHHHHHHHHHCCCccceEEEEeeEEccccCCHHHcCCCCCCEEEEEee
Confidence            4567788888765 6999999997 6 8999999999999999999999999999999999999987    679999999


Q ss_pred             ecCCC
Q 012310           80 LLGGK   84 (466)
Q Consensus        80 L~GGK   84 (466)
                      ++||.
T Consensus       104 ~rGG~  108 (111)
T d1we6a_         104 ERSGP  108 (111)
T ss_dssp             SCCSS
T ss_pred             CCCCC
Confidence            99997

>d1uela_ d.15.1.1 (A:) Ubiquitin-like domain of Rad23 homolog B (Hhr23B) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of Rad23 homolog B (Hhr23B)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.37  E-value=9.3e-13  Score=108.18  Aligned_cols=71  Identities=21%  Similarity=0.270  Sum_probs=65.2

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhC---CCCCCeEEEecCeecCCCCccccC----CCceeEEeeecC
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATK---IPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLG   82 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~G---IP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~G   82 (466)
                      |+|+|++++|++++|.|. +++||.+||++|++..+   ||++.|||+|+|+.|.|+.+|.+|    +++|+|+++...
T Consensus         1 M~I~vk~~~g~~~~l~v~-~~~TV~~lK~~i~~~~~~~~i~~~~qrLi~~Gk~L~d~~tL~~y~I~~~s~i~lv~~~~~   78 (95)
T d1uela_           1 MQVTLKTLQQQTFKIDID-PEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEYKIDEKNFVVVMVTKPK   78 (95)
T ss_dssp             CEEEEEETTCCEEEEECC-TTSBHHHHHHHHHHHHCTTTCCTTTEEEEETTEECCTTSBGGGGTCCSSSEEEEEESSCC
T ss_pred             CEEEEEeCCCCEEEEEEC-CCccHHHHHHHHHhhhcccCCCccceEEEECCeEccCCCcHHHcCCCCCCEEEEEECCCC
Confidence            899999999999999997 89999999999998875   899999999999999999999987    568999987653

>d1yqba1 d.15.1.1 (A:15-98) Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquilin-3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.33  E-value=1.1e-12  Score=105.84  Aligned_cols=74  Identities=23%  Similarity=0.281  Sum_probs=67.2

Q ss_pred             CCCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeec
Q 012310            6 TSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLL   81 (466)
Q Consensus         6 ~s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~   81 (466)
                      .++.+|+|+|+++++ .++|.|. ++.||.+||.+|++.+|||++.|+|+|+|+.|.|+.+|++|    +++|+|++|..
T Consensus         3 ~~~~~i~I~Vkt~~~-~~~~~V~-~~~tV~~lK~~i~~~~gi~~~~qrL~~~Gk~L~D~~tL~~y~i~~gsti~lv~r~~   80 (84)
T d1yqba1           3 GSPHLIKVTVKTPKD-KEDFSVT-DTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIKRQ   80 (84)
T ss_dssp             CCTTEEEEEEECSSC-EEEEEEE-TTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBHHHHTCCTTCEEEEEECCC
T ss_pred             CCCCEEEEEEEcCCC-cEEEEEC-CCCcHHHHHHHHHHHHCcCchhEEEEEeeeeccccCcHHHcCCCCCCEEEEEECCC
Confidence            468899999999755 5899998 89999999999999999999999999999999999999886    67999998854

>d1wx8a1 d.15.1.1 (A:8-90) 4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 4931431F19Rik
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.32  E-value=1.1e-12  Score=105.68  Aligned_cols=77  Identities=18%  Similarity=0.263  Sum_probs=68.5

Q ss_pred             CCCCCCCCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeE
Q 012310            1 MEDQATSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNL   76 (466)
Q Consensus         1 M~~~~~s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~L   76 (466)
                      |+...+.+..|+|+|+++++ .+.+.|. ++.||.+||.+|++.+++|++.|+|+|+|+.|.|+.+|++|    +++|+|
T Consensus         1 ~~g~~~~~~~i~v~Vk~~~~-~~~i~v~-~~~tV~~lK~~I~~~~~v~~~~qrL~f~Gk~L~d~~tL~~~gI~~gs~I~l   78 (83)
T d1wx8a1           1 VSGREPSSRIIRVSVKTPQD-CHEFFLA-ENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDILSQRGILDGSTVHV   78 (83)
T ss_dssp             CCCSCCCSCEEEEEEECSSS-EEEEEEE-TTCCHHHHHHHHHHHTCSCTTTBCCEETTEECCTTSCHHHHTCCTTEEEEC
T ss_pred             CCCCCCCCCeEEEEEEcCCC-cEEEEEC-CCChHHHHHHHHHHHhCCChhHEEEEEEhhccccCCcHHHcCCCCCCEEEE
Confidence            55566778899999999755 4689998 89999999999999999999999999999999999999885    679999


Q ss_pred             Eee
Q 012310           77 VLR   79 (466)
Q Consensus        77 vlR   79 (466)
                      ++|
T Consensus        79 v~r   81 (83)
T d1wx8a1          79 VVR   81 (83)
T ss_dssp             CBC
T ss_pred             EEe
Confidence            886

>d1m94a_ d.15.1.1 (A:) Ubiquitin-like modifier protein hub1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like modifier protein hub1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.31  E-value=1.6e-12  Score=102.39  Aligned_cols=67  Identities=16%  Similarity=0.126  Sum_probs=62.8

Q ss_pred             cEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEE
Q 012310           10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLV   77 (466)
Q Consensus        10 ~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~Lv   77 (466)
                      +|+|+|++..|+++.+.|. |++||.+||.+|+..+|+|++.|+|+|+|+.|.|+.+|.+|    +++|+|.
T Consensus         1 mi~i~vk~~~Gk~~~v~V~-~~~tV~~lK~~I~~~~~i~~~~q~Li~~Gk~L~d~~tL~~y~I~~gstl~L~   71 (73)
T d1m94a_           1 MIEVVVNDRLGKKVRVKCL-AEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKDHISLEDYEVHDQTNLELY   71 (73)
T ss_dssp             CEEEEEEETTTEEEEEEEC-TTSBHHHHHHHHHHHHCCTTTSEEEESSSCEECTTSBHHHHTCCTTEEEEEE
T ss_pred             CeEEEEECCCCCEEEEEEC-CcCcHHHHHHHHHHhhcccccEEEEEEEeEEecccCcHHHcCCCCCCEEEEE
Confidence            5899999999999999998 99999999999999999999999999999999999999886    5688875

>d1z2ma1 d.15.1.1 (A:3-78) Interferon-induced 15 kDa protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Interferon-induced 15 kDa protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.31  E-value=2.3e-12  Score=102.16  Aligned_cols=68  Identities=28%  Similarity=0.391  Sum_probs=63.6

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEe--cCeecCCCCccccC----CCceeEEee
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIY--SGLQLKDRTVISDD----HITFNLVLR   79 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIf--nGK~L~DsstLss~----gsTL~LvlR   79 (466)
                      +||.|++++|+++.+.|. +++||.+||.+|+...|||++.|+|+|  .|+.|.|+.+|++|    +++|+|+++
T Consensus         1 ~~l~Vk~l~G~~~~v~V~-~~~tV~~lK~~I~~~~gip~~~QrLi~~~~Gk~L~D~~tL~~y~i~~g~~i~lv~~   74 (76)
T d1z2ma1           1 WDLTVKMLAGNEFQVSLS-SSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVVD   74 (76)
T ss_dssp             CEEEEEESSSCEEEEECC-SSCCHHHHHHHHHHHHCCCGGGEEEEEETTCCBCCSSSCSGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEeCCCCEEEEEEC-CCCcHHHHHHHHHHHhccCCccEEEEEcCCCeeccCCCcHHHcCCCCCCEEEEEEE
Confidence            489999999999999997 899999999999999999999999999  69999999999986    679999986

>d1oqya4 d.15.1.1 (A:1-77) Ubiquitin-like domain of Rad23 homolog A (Hhr23a) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of Rad23 homolog A (Hhr23a)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.29  E-value=2.3e-12  Score=102.07  Aligned_cols=69  Identities=23%  Similarity=0.277  Sum_probs=62.8

Q ss_pred             CcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhC---CCCCCeEEEecCeecCCCCccccC----CCceeEEe
Q 012310            9 KALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATK---IPTHLQRLIYSGLQLKDRTVISDD----HITFNLVL   78 (466)
Q Consensus         9 ~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~G---IP~e~QRLIfnGK~L~DsstLss~----gsTL~Lvl   78 (466)
                      ..|+|+|++++|++++|.|. |++||.+||++|+...|   +|++.|+|+|+|+.|.|+.+|.+|    ++++.|++
T Consensus         1 s~~~i~vk~l~g~~~~l~v~-~~~TV~~lK~~i~~~~g~~~i~~~~qrLi~~Gk~L~D~~tL~~y~I~~~s~i~~~v   76 (77)
T d1oqya4           1 SAVTITLKTLQQQTFKIRME-PDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMV   76 (77)
T ss_dssp             CCCCEEEEETTTEEEEECCC-TTCBHHHHHHHHHHHTCSSSCCSTEEEEESSSSEECSSSBTTTTCCCTTSCEEEEE
T ss_pred             CcEEEEEECCCCCEEEEEEC-CCCcHHHHHHHHHHhcCCCCCChHHEEeEECCcCccCCCcHHHcCCCCCCEEEEEE
Confidence            36999999999999999997 99999999999999887   999999999999999999999987    45777664

>d1j8ca_ d.15.1.1 (A:) Ubiquitin-like N-terminal domain of PLIC-2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like N-terminal domain of PLIC-2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.29  E-value=5.5e-12  Score=105.26  Aligned_cols=71  Identities=24%  Similarity=0.322  Sum_probs=64.5

Q ss_pred             CCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEee
Q 012310            7 SPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLR   79 (466)
Q Consensus         7 s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlR   79 (466)
                      .+..|+|+|+++++ .+.|.|. ++.||.+||.+|+..+|||++.|+|+|+|+.|.|+.+|.+|    +++|+|++|
T Consensus        29 ~~~~i~V~Vk~~~~-~~~i~V~-~~~tV~~LK~~I~~~~gi~~~~qrLi~~Gk~L~D~~tL~~~~I~~g~~I~lvlr  103 (103)
T d1j8ca_          29 EPKIIKVTVKTPKE-KEEFAVP-ENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQHGIHDGLTVHLVIK  103 (103)
T ss_dssp             CCCCEEEEEECSSC-EEEEEEC-TTCCHHHHHHHHHHHHCSCSSSEEEEETTEEESTTSCGGGTTCSSSEEEEEEEC
T ss_pred             CCCeEEEEEECCCc-cEEEEEC-CCChHHHHHHHHHHHHCcCHHHeeeeeeeecccCCCcHHHcCCCCCCEEEEEEC
Confidence            45689999999765 5799997 89999999999999999999999999999999999999986    579999986

>d1zkha1 d.15.1.1 (A:1-86) Splicing factor 3 subunit 1, C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Splicing factor 3 subunit 1, C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.28  E-value=4.4e-12  Score=103.06  Aligned_cols=64  Identities=30%  Similarity=0.389  Sum_probs=60.7

Q ss_pred             CCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecC
Q 012310           18 LNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLG   82 (466)
Q Consensus        18 ldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~G   82 (466)
                      ++|++++|.|. +++||.+||.+|++++++|+++|+|+|+|+.|.|+.+|++|    +++|+|++|++|
T Consensus        19 L~G~~~~l~v~-~~~tV~~lK~~I~~~~~ip~~~q~Li~~Gk~L~D~~tL~dY~I~~gsti~l~~r~RG   86 (86)
T d1zkha1          19 LNGQVLVFTLP-LTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMANGAVIHLALKERG   86 (86)
T ss_dssp             CSSCEEEEEEC-TTSBHHHHHHHHHHHTCCCTTTEEEEETTEEECTTSBHHHHTCCTTEEEEEEESCCC
T ss_pred             cCCeEEEEEEC-CCChHHHHHHHHHhhhcCChHHEEEEeCCcCcCCCCCHHHcCCCCCCEEEEEEecCC
Confidence            78999999997 89999999999999999999999999999999999999986    579999999987

>d2bwfa1 d.15.1.1 (A:2-74) DSK2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: DSK2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.27  E-value=6.8e-12  Score=98.44  Aligned_cols=68  Identities=29%  Similarity=0.317  Sum_probs=62.0

Q ss_pred             cEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEee
Q 012310           10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLR   79 (466)
Q Consensus        10 ~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlR   79 (466)
                      +|+|+|++. +.++.+.|. |+.||.+||++|+..+|||+++|+|+|+|+.|.|+.+|.+|    +++|||+.|
T Consensus         1 si~I~Vk~~-~~~~~i~v~-~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~I~~g~~i~lV~~   72 (73)
T d2bwfa1           1 SLNIHIKSG-QDKWEVNVA-PESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLVKS   72 (73)
T ss_dssp             EEEEEEEET-TEEEEEEEC-TTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEEeC-CeEEEEEEC-CCChHHHHHHHHHHHHCcChHHeEEEECCeEccCCCcHHHCCCCCCCEEEEEee
Confidence            589999985 557899998 89999999999999999999999999999999999999886    679999875

>d1uh6a_ d.15.1.1 (A:) Ubiquitin-like protein 5, ubl5 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 5, ubl5
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.26  E-value=4.4e-12  Score=106.15  Aligned_cols=70  Identities=14%  Similarity=0.053  Sum_probs=64.7

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEe
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVL   78 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~Lvl   78 (466)
                      ..+|+|+|++..|+++.|.|. |++||.+||.+|+.++++|++.|+|+|+|++|.|+.+|.+|    +++|+|..
T Consensus        26 ~~~i~V~V~~~~Gk~~~v~V~-p~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~dygI~~GstI~L~~   99 (100)
T d1uh6a_          26 ATMIEVVCNDRLGKKVRVKCN-TDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHVSLGDYEIHDGMNLELYY   99 (100)
T ss_dssp             CCEEEEEEECSSSSCEEEEEE-TTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCSSCBHHHHTCCTTEEEEEEC
T ss_pred             CceEEEEEECCCCCEEEEEEC-CcChHHHHHHHHHHHHCCCcceEEEEEEeecccCcCCHHHcCCCCCCEEEEEE
Confidence            356899999999999999998 99999999999999999999999999999999999999986    56888865

>d1wgha_ d.15.1.1 (A:) Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 3, Ubl3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.25  E-value=7.5e-12  Score=107.36  Aligned_cols=72  Identities=24%  Similarity=0.345  Sum_probs=64.2

Q ss_pred             CCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHH--------HHhhCCCCCCeEEEecCeecCCCCccccCC----C--
Q 012310            7 SPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRI--------YEATKIPTHLQRLIYSGLQLKDRTVISDDH----I--   72 (466)
Q Consensus         7 s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI--------~e~~GIP~e~QRLIfnGK~L~DsstLss~g----s--   72 (466)
                      +...|+|+|++++|+++.+.|. |++||.+||.+|        ++..++|+++|||+|+|+.|.|+.+|.+|+    +  
T Consensus        13 ~~~~i~i~v~~l~Gk~~~~~v~-p~~TV~~lK~~I~~~~p~~~~e~~~~~~~~qRLiy~Gk~L~D~~tL~~~~i~~g~~~   91 (116)
T d1wgha_          13 PADMINLRLILVSGKTKEFLFS-PNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTT   91 (116)
T ss_dssp             CSSSEEEEEECSSSCEEEEEEC-TTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSSCBTTTTTCCSSCEE
T ss_pred             CCCeEEEEEEEcCCCEEEEEEC-CcchHHHHHHHHHhhcccccccccCCChHHeEEEECCEEecCCCCHHHcCCCCCCEE
Confidence            3568999999999999999997 999999999999        467899999999999999999999999873    4  


Q ss_pred             ceeEEee
Q 012310           73 TFNLVLR   79 (466)
Q Consensus        73 TL~LvlR   79 (466)
                      +|||++|
T Consensus        92 ~lhlv~r   98 (116)
T d1wgha_          92 VMHLVAR   98 (116)
T ss_dssp             EEEEEEC
T ss_pred             EEEEEeC
Confidence            4777776

>d1se9a_ d.15.1.1 (A:) Hypothetical protein At3g01050 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Hypothetical protein At3g01050
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.24  E-value=1.5e-11  Score=103.28  Aligned_cols=75  Identities=16%  Similarity=0.234  Sum_probs=65.7

Q ss_pred             CCCcEEEEEEeCCCCEE-EEEecCCCCCHHHHHHHHHHh-----hCCC--CCCeEEEecCeecCCCCccccC----CC--
Q 012310            7 SPKALQLFVKLLNGKTT-TLNFTTCHVYGHEIKNRIYEA-----TKIP--THLQRLIYSGLQLKDRTVISDD----HI--   72 (466)
Q Consensus         7 s~~~MqIfVKtldGkT~-tL~V~sPs~TVsdLK~rI~e~-----~GIP--~e~QRLIfnGK~L~DsstLss~----gs--   72 (466)
                      ....|+|.||+++|+.+ .+.|. |++||.+||++|+..     .|||  +++|||||+||+|.|+.+|.+|    +.  
T Consensus         4 ~~~~i~I~~r~~~G~~i~~~~v~-~s~TV~~lK~~I~~~~~~~k~~iP~~~~~qRLIf~Gk~L~D~~tL~dy~i~~g~~~   82 (101)
T d1se9a_           4 VHNQLEIKFRLTDGSDIGPKAFP-DATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKTVKDYRSPVSNLA   82 (101)
T ss_dssp             SCCCEEEEEEETTSCEEEEEEEC-TTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTSBGGGGSCCTTSCT
T ss_pred             ccceEEEEEEeCCCCeecceecC-ccCHHHHHHHHHHHhccccccCCCCCcccEEEEECCeEecCCCCHHHcCCCCCCcC
Confidence            45689999999999976 69997 899999999999875     7898  7799999999999999999986    32  


Q ss_pred             ----ceeEEeeecC
Q 012310           73 ----TFNLVLRLLG   82 (466)
Q Consensus        73 ----TL~LvlRL~G   82 (466)
                          |+||++|-+.
T Consensus        83 ~~~~tmHlVvrpp~   96 (101)
T d1se9a_          83 GAVTTMHVIIQAPV   96 (101)
T ss_dssp             TCCEEEEEEECCCS
T ss_pred             CCceEEEEEeCCCC
Confidence                8999998653

>d1wiaa_ d.15.1.1 (A:) Ubiquitin-like protein bab25500 (2010008E23Rik) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein bab25500 (2010008E23Rik)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.16  E-value=4.2e-11  Score=99.16  Aligned_cols=75  Identities=15%  Similarity=0.142  Sum_probs=65.6

Q ss_pred             CCCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecC-CCCccccC----CCceeEEeee
Q 012310            6 TSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLK-DRTVISDD----HITFNLVLRL   80 (466)
Q Consensus         6 ~s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~-DsstLss~----gsTL~LvlRL   80 (466)
                      +....|+|+||+++|+.++|.+. ++.||.+||.+|+   .+|+++|+|+|+|+.|. |..+|.+|    +++|||+++.
T Consensus         3 ~~~s~m~i~vK~l~~~~~~v~v~-~~~TV~~lK~~i~---~~~~~~qrLi~~Gk~L~dd~~tL~~y~i~~g~~v~l~~~~   78 (95)
T d1wiaa_           3 SGSSGINVRLKFLNDTEELAVAR-PEDTVGTLKSKYF---PGQESQMKLIYQGRLLQDPARTLSSLNITNNCVIHCHRSP   78 (95)
T ss_dssp             CCCCSEEEEEEETTTEEEEEEEC-SSSBHHHHHHHHS---SSTTTTCEEEETTEECCCSSCBTTTTTCCTTEEEEEECCC
T ss_pred             CCCCcEEEEEEcCCCCEEEEEEC-CcCcHHHHHHHHh---cCCcceeEEEECCEEcccCCCCHHHcCCCCCCEEEEEEcC
Confidence            35789999999999999999997 8999999999986   57889999999999997 55789886    5799999987


Q ss_pred             cCCC
Q 012310           81 LGGK   84 (466)
Q Consensus        81 ~GGK   84 (466)
                      +++-
T Consensus        79 ~~~~   82 (95)
T d1wiaa_          79 PGAA   82 (95)
T ss_dssp             CCCC
T ss_pred             CCCC
Confidence            7654

>d1v2ya_ d.15.1.1 (A:) Ubiquitin-like protein 3300001g02rik {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 3300001g02rik
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.13  E-value=1e-11  Score=104.38  Aligned_cols=74  Identities=12%  Similarity=0.170  Sum_probs=67.2

Q ss_pred             CCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeE---------------EEecCeecCCC-CccccC
Q 012310            7 SPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQR---------------LIYSGLQLKDR-TVISDD   70 (466)
Q Consensus         7 s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QR---------------LIfnGK~L~Ds-stLss~   70 (466)
                      .+..|+|+|++++|++++|.|. ++.||.+||.+|+..++||+++||               |+|+|+.|.|+ .+|.+|
T Consensus         4 gss~M~v~Vk~~~G~~~~v~V~-~~~TV~~LK~~I~~~~~ip~~~Qr~~~~~~~~~~~~~~~Li~~G~~L~d~~~tL~~~   82 (105)
T d1v2ya_           4 GSSGMTVRVCKMDGEVMPVVVV-QNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKKLRDY   82 (105)
T ss_dssp             CCCSEEEEEECSSSCEEEEEEC-TTCBHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHTTEEEESSSCEECCSSSBHHHH
T ss_pred             CCCcEEEEEEeCCCCEEEEEEC-CCChHHHHHHHHHHHHCcCHHHhcccccccccccccceEEEECCEECcccCCCHHHc
Confidence            4678999999999999999997 899999999999999999999987               99999999776 578875


Q ss_pred             ----CCceeEEeeec
Q 012310           71 ----HITFNLVLRLL   81 (466)
Q Consensus        71 ----gsTL~LvlRL~   81 (466)
                          +++|+|+.|++
T Consensus        83 gI~~g~~l~lv~r~~   97 (105)
T d1v2ya_          83 GIRNRDEVSFIKKLG   97 (105)
T ss_dssp             TCCSSEEEEEEECSC
T ss_pred             CCCCCCEEEEEEecC
Confidence                67999999874

>d1wgda_ d.15.1.1 (A:) Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein, HERPUD1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein, HERPUD1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.13  E-value=4.5e-11  Score=98.30  Aligned_cols=76  Identities=25%  Similarity=0.238  Sum_probs=65.5

Q ss_pred             CCCcEEEEEEeCCCCE--EEEEecCCCCCHHHHHHHHHHhhC--CCCCCeEEEecCeecCCCCccccC----C--CceeE
Q 012310            7 SPKALQLFVKLLNGKT--TTLNFTTCHVYGHEIKNRIYEATK--IPTHLQRLIYSGLQLKDRTVISDD----H--ITFNL   76 (466)
Q Consensus         7 s~~~MqIfVKtldGkT--~tL~V~sPs~TVsdLK~rI~e~~G--IP~e~QRLIfnGK~L~DsstLss~----g--sTL~L   76 (466)
                      .++.|+|+|++++++.  +++.++ +++||.+||.+|++..+  +|+++|||+|+|++|.|+.+|.+|    +  .+|||
T Consensus         4 gs~~i~l~Ik~~~~~~~~~~~~v~-~~~TV~~LK~~I~~~~~~~~~~~~qrLIy~Gk~L~D~~~L~d~~~~~~~~~viHL   82 (93)
T d1wgda_           4 GSSGVTLLVKSPNQRHRDLELSGD-RGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCLRDLLPKQEKRHVLHL   82 (93)
T ss_dssp             CSCCCEEEEECSSSSCCCEEEECC-TTSCHHHHHHHHHHHSTTCCCTTTCEEEETTEECCSSSCHHHHSCSSSCSEEEEE
T ss_pred             CCCcEEEEEECCCCCceeEEEEcC-CCCcHHHHHHHHHHHcCCCCChHHEEEEECCeEccCCCCHHHhCcccCCCCEEEE
Confidence            4678999999998864  788887 79999999999999865  999999999999999999998875    2  38999


Q ss_pred             EeeecCC
Q 012310           77 VLRLLGG   83 (466)
Q Consensus        77 vlRL~GG   83 (466)
                      +++...+
T Consensus        83 V~~~~~~   89 (93)
T d1wgda_          83 VCNVKSG   89 (93)
T ss_dssp             ECCCCCC
T ss_pred             EecCCCC
Confidence            9887543

>d1v5oa_ d.15.1.1 (A:) 1700011n24rik protein {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 1700011n24rik protein
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.09  E-value=6.8e-11  Score=98.90  Aligned_cols=76  Identities=13%  Similarity=0.095  Sum_probs=65.6

Q ss_pred             CCCcEEEEE----EeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecC-CCCccccC----CCceeEE
Q 012310            7 SPKALQLFV----KLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLK-DRTVISDD----HITFNLV   77 (466)
Q Consensus         7 s~~~MqIfV----KtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~-DsstLss~----gsTL~Lv   77 (466)
                      .++-|.|+|    +.++|.+++|.|+ ++.||.+||.+|+.+.+||+++|+|+|+|+.|. |..+|.+|    +++|+|+
T Consensus         4 ~~~~m~itV~~~~~~~~~~t~~l~V~-~~~tV~~LK~~Ie~~~gip~~~Q~Li~~Gk~L~dd~~tL~~~gI~~g~~i~l~   82 (102)
T d1v5oa_           4 GSSGMLITVYCVRRDLTEVTFSLQVN-PDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVVLL   82 (102)
T ss_dssp             CSCCEEEEEEECCCCCCCCEEEEEEC-TTCBHHHHHHHHHHHTCCCGGGBCEEETTEEECCSSSBHHHHTCCTTEEEEEC
T ss_pred             CcCCEEEEEEecccCCCCCEEEEEEC-CcccHHHHHHHHHHHhCCCcceEEEEeCCeEeecccCCHHHcCCCCCCEEEEE
Confidence            456788888    6778999999997 899999999999999999999999999999996 55788876    5689888


Q ss_pred             eeecCC
Q 012310           78 LRLLGG   83 (466)
Q Consensus        78 lRL~GG   83 (466)
                      .|..++
T Consensus        83 ~r~~~~   88 (102)
T d1v5oa_          83 QKDNVG   88 (102)
T ss_dssp             BCCCCC
T ss_pred             ECCCCC
Confidence            876544

>d1wgga_ d.15.1.1 (A:) Ubiquitin carboxyl-terminal hydrolase 14 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin carboxyl-terminal hydrolase 14
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.05  E-value=1.6e-10  Score=95.28  Aligned_cols=70  Identities=16%  Similarity=0.166  Sum_probs=62.5

Q ss_pred             CCCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEE
Q 012310            6 TSPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLV   77 (466)
Q Consensus         6 ~s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~Lv   77 (466)
                      +....|+|.||+.+++.+.|.|. ++.||.+||++|++.++||++.|+|+|+|+.|.|+ +|.+|    +++|+|+
T Consensus         3 s~s~~~~I~VK~~~~~~~~v~v~-~~~tV~~lK~~i~~~~gvp~~~QkLi~~Gk~L~d~-tL~~~gi~~g~~i~lv   76 (96)
T d1wgga_           3 SGSSGYSVTVKWGKEKFEGVELN-TDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDD-DWGNIKMKNGMTVLMM   76 (96)
T ss_dssp             SCCCEEEEEEEETTEEEEEEEEE-SSSCHHHHHHHHHHHTCCCTTTSCCEETTEECCSS-CCCSCCCCSSCEEECC
T ss_pred             CCCCceEEEEEeCCCCEEEEEEC-CCCcHHHHHHHhhhhcCccceeeEEeecCcccCCC-cHHHCCCCCCCEEEEE
Confidence            35789999999999988899998 89999999999999999999999999999999986 58776    5677775

>d2c9wb1 d.15.1.1 (B:2-104) Elongin B {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Elongin B
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.00  E-value=2e-10  Score=96.57  Aligned_cols=71  Identities=21%  Similarity=0.167  Sum_probs=61.5

Q ss_pred             EEEEEeCCCC-EEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccCC-----------CceeEEee
Q 012310           12 QLFVKLLNGK-TTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDDH-----------ITFNLVLR   79 (466)
Q Consensus        12 qIfVKtldGk-T~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~g-----------sTL~LvlR   79 (466)
                      ||||+...++ ++.|.|. ++.||.+||.+|+++.|||+++|+|+|+|++|.|+.+|++|+           ++++|.++
T Consensus         1 qifv~i~~~k~Ti~l~v~-~~~TV~~lK~~I~~~~gip~~~QrLi~~Gk~L~D~~TL~dYgI~~~~~~~~~~~~~~l~~~   79 (103)
T d2c9wb1           1 DVFLMIRRHKTTIFTDAK-ESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATVGLAFR   79 (103)
T ss_dssp             CEEEEEEEBTEEEEEEEC-TTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBHHHHTCCTTTSBTTBCEEEEEEEE
T ss_pred             CEEEEEeCCCEEEEEEeC-CCCcHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCcccccccCCcEEEEEEe
Confidence            5788777665 6789998 899999999999999999999999999999999999998864           27888888


Q ss_pred             ecCC
Q 012310           80 LLGG   83 (466)
Q Consensus        80 L~GG   83 (466)
                      ..|+
T Consensus        80 ~~~~   83 (103)
T d2c9wb1          80 ADDT   83 (103)
T ss_dssp             ETTE
T ss_pred             cCCC
Confidence            6654

>d1v86a_ d.15.1.1 (A:) hypothetical D7wsu128e protein {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: hypothetical D7wsu128e protein
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.99  E-value=2.3e-10  Score=94.14  Aligned_cols=74  Identities=19%  Similarity=0.355  Sum_probs=64.4

Q ss_pred             CCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecC
Q 012310            7 SPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLG   82 (466)
Q Consensus         7 s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~G   82 (466)
                      ....|+|.|+ ++++++.|.|+ ++.||.+||++|++.++||+++|+|+|+|+ |.|+.+|.+|    +++|+|+.+..+
T Consensus        14 ~~~~i~v~V~-~~~k~~~i~v~-~~~TV~~LK~~I~~~tgvp~~~q~Li~~g~-l~D~~tL~~~~I~~gs~i~lvgs~~~   90 (95)
T d1v86a_          14 GKELVDLKII-WNKTKHDVKVP-LDSTGSELKQKIHSITGLPPAMQKVMYKGL-VPEDKTLREIKVTSGAKIMVVGSTIS   90 (95)
T ss_dssp             CCCCEEEEEE-ETTEEEEEEEC-TTSBHHHHHHHHHHHHCSCSTTCCCBSSSB-CCSSSBHHHHCCCTTEEEEECCSSCC
T ss_pred             CccEEEEEEE-ECCEEEEEEEC-CCCcHHHHHHHHHHHhCCChhHEEEEeccc-ccCCCcHHHCCCCCCCEEEEEecCCC
Confidence            3468999998 58999999998 899999999999999999999999999997 8888888886    568888766554


Q ss_pred             C
Q 012310           83 G   83 (466)
Q Consensus        83 G   83 (466)
                      |
T Consensus        91 g   91 (95)
T d1v86a_          91 G   91 (95)
T ss_dssp             C
T ss_pred             C
Confidence            4

>d1wjua_ d.15.1.1 (A:) NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: NEDD8 ultimate buster-1, NUB1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.93  E-value=5e-10  Score=93.21  Aligned_cols=70  Identities=14%  Similarity=0.330  Sum_probs=61.6

Q ss_pred             CCcEEEEE--EeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEe
Q 012310            8 PKALQLFV--KLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVL   78 (466)
Q Consensus         8 ~~~MqIfV--KtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~Lvl   78 (466)
                      ..+|+|||  +...|++++|.|. ++.||.+||.+|++.+++|+++|+|+|+|+.|.|+.+|.+|    +++|+++.
T Consensus        15 ~ati~V~~~~~~~~g~~~~lev~-~~~TV~~LK~~I~~~~gi~~~~qkLi~~Gk~L~d~~tL~~~gI~~~s~i~vi~   90 (100)
T d1wjua_          15 IATIEVFLPPRLKKDRKNLLETR-LHITGRELRSKIAETFGLQENYIKIVINKKQLQLGKTLEEQGVAHNVKAMVLE   90 (100)
T ss_dssp             EEEEEEECCTTTCCSSSEEEEEE-SSSBHHHHHHHHHHHTTCCSTTCEEEETTEECCTTSBHHHHTCCSSEEEEEEC
T ss_pred             eEEEEEEEeeccCCCeEEEEEEC-CCcHHHHHHHHHHHHHCCCCeeEEEEEcccCcCCCcCHHHcCCCCCCEEEEEE
Confidence            34789998  5578999999998 89999999999999999999999999999999999999886    45675543

>d1euvb_ d.15.1.1 (B:) SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomyces cerevisiae), smt3 [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: SUMO-1 (smt3 homologue)
species: Baker's yeast (Saccharomyces cerevisiae), smt3 [TaxId: 4932]

Probab=98.91  E-value=2.2e-09  Score=84.99  Aligned_cols=74  Identities=11%  Similarity=0.124  Sum_probs=67.2

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCccccC----CCceeEEeeecCC
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISDD----HITFNLVLRLLGG   83 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss~----gsTL~LvlRL~GG   83 (466)
                      ...|+|.|+. +|....+.+. +++++..|+..++++.++|++.++|+|+|+.|.+..++.++    +++|++++|+.||
T Consensus         2 ~~~I~ikv~~-~~~~~~f~v~-~~~~~~~l~~~~~~~~~i~~~~~~l~f~G~~l~~~~T~~~~~i~dgd~I~v~~~q~GG   79 (79)
T d1euvb_           2 ETHINLKVSD-GSSEIFFKIK-KTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIGG   79 (79)
T ss_dssp             CSEEEEEEES-SSCEEEEEEE-TTSCTHHHHHHHHHHTTCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEECCBCC
T ss_pred             CcEEEEEECC-CCeEEEEEEC-CCCcHHHHHHHHHHHhCCChHhEEEEECCEEeCCCCCHHHCCCCCCCEEEEEEeccCC
Confidence            3468899986 7888889998 89999999999999999999999999999999999998885    6799999999998

>d1v5ta_ d.15.1.1 (A:) 8430435i17rik protein {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 8430435i17rik protein
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.84  E-value=1.3e-09  Score=88.48  Aligned_cols=72  Identities=13%  Similarity=0.176  Sum_probs=61.5

Q ss_pred             CCCCcEEEEEEeCCCCEEEE-EecCCCCCHHHHHHHHHHhhCCCCCCeEEE---ecCeecCCCCccccC----CCceeEE
Q 012310            6 TSPKALQLFVKLLNGKTTTL-NFTTCHVYGHEIKNRIYEATKIPTHLQRLI---YSGLQLKDRTVISDD----HITFNLV   77 (466)
Q Consensus         6 ~s~~~MqIfVKtldGkT~tL-~V~sPs~TVsdLK~rI~e~~GIP~e~QRLI---fnGK~L~DsstLss~----gsTL~Lv   77 (466)
                      +.+..|+|+|+. .|..+.+ .++ ++.||.+||++|++.++||+++|+|+   |.|+.|.|+.+|.+|    +++|+|+
T Consensus         3 s~s~~~~i~Vk~-~~~~~~i~~v~-~~~tV~~LK~~i~~~t~vp~~~QkLi~~~~~Gk~L~D~~tL~~~~i~~g~~i~lv   80 (90)
T d1v5ta_           3 SGSSGLPIIVKW-GGQEYSVTTLS-EDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKLGALKLKPNTKIMMM   80 (90)
T ss_dssp             CCCCSCCEEEEE-TTEEEEECSCC-SSSBHHHHHHHHHHHTCCCTTTCEEESCEETTEECCTTSBHHHHTCCTTEEEEEE
T ss_pred             CCCCcEEEEEEE-CCeEEEEEEeC-CCCcHHHHHHHHHHHHcCCHHHhhhhhhccCCcCCCCcCcHHHcCCCCCCEEEEE
Confidence            357789999997 5666666 576 89999999999999999999999999   689999999998875    5688887


Q ss_pred             ee
Q 012310           78 LR   79 (466)
Q Consensus        78 lR   79 (466)
                      .+
T Consensus        81 ~s   82 (90)
T d1v5ta_          81 GT   82 (90)
T ss_dssp             CC
T ss_pred             ee
Confidence            54

>d1wxva1 d.15.1.1 (A:7-87) Bag-family molecular chaperone regulator-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Bag-family molecular chaperone regulator-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.72  E-value=1.2e-08  Score=81.28  Aligned_cols=68  Identities=22%  Similarity=0.300  Sum_probs=57.6

Q ss_pred             EEEEEEeCCCCEEEEEecC----CCCCHHHHHHHHHHhhCCCCCCeEEEecCeecC-CCCccccC----CCceeEEee
Q 012310           11 LQLFVKLLNGKTTTLNFTT----CHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLK-DRTVISDD----HITFNLVLR   79 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~s----Ps~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~-DsstLss~----gsTL~LvlR   79 (466)
                      |+|.|+. .+..+.+.|..    ++.||.+||++|+..+|||+++|+|+|+|+.|. |+.+|.+|    +++|+|+.|
T Consensus         2 i~i~V~~-~~~~~~i~v~~~~~~~~~Tv~~LK~~I~~~tgvp~~~QkL~~~G~~L~~d~~tL~~~gi~~g~~i~lv~~   78 (81)
T d1wxva1           2 LTVTVTH-SNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETPLSALGIQDGCRVMLIGK   78 (81)
T ss_dssp             EEEEEEC-SSSEEEEEECCCSSSSSCBHHHHHHHHHHHTCCCTTTCEEEETTEEECCSSSBHHHHTCCSSEEEEEESC
T ss_pred             EEEEEEE-CCeeEEEEEecCCCCCccHHHHHHHHHHHHHCcCHHHEEeeecCeEeCcCCCChHHCCCCCCCEEEEEEe
Confidence            7888864 67889999852    477999999999999999999999999999996 56788875    568888765

>d1v6ea_ d.15.1.1 (A:) Ubiquitin-like domain of tubulin folding cofactor B {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of tubulin folding cofactor B
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.71  E-value=1.7e-08  Score=83.02  Aligned_cols=76  Identities=11%  Similarity=0.117  Sum_probs=64.8

Q ss_pred             CCCcEEEEEEeC-CCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCe-------ecCCCCccccC----CCce
Q 012310            7 SPKALQLFVKLL-NGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGL-------QLKDRTVISDD----HITF   74 (466)
Q Consensus         7 s~~~MqIfVKtl-dGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK-------~L~DsstLss~----gsTL   74 (466)
                      -++.|+|||++. ++.....+|+ ++.||.+||++|+..+|||+.+|+|+|.|+       .+.|+.+|..|    +.+|
T Consensus         4 gss~v~v~I~s~~~~~~~E~r~~-~~~TV~~LK~kle~~tGip~~~qrL~~~~~~~~~~~~l~~d~~~L~~y~i~dg~~i   82 (95)
T d1v6ea_           4 GSSGVMVFISSSLNSFRSEKRYS-RSLTIAEFKCKLELVVGSPASCMELELYGADDKFYSKLDQEDALLGSYPVDDGCRI   82 (95)
T ss_dssp             CCCCEEEEEEETTSSSCEEEEEC-TTSBHHHHHHHHHHHTCSCTTTCBCEEECSSSCEEEECCCSSSBTTSSSCCTTCEE
T ss_pred             CCCcEEEEEEECCCCcEEEEEeC-CCCCHHHHHHHHHHHhCcCchhEEEEEeCCCCceeecccCCcCCHHHCCCCCCCEE
Confidence            467899999984 6677889997 899999999999999999999999999776       46778888887    5699


Q ss_pred             eEEeeecCC
Q 012310           75 NLVLRLLGG   83 (466)
Q Consensus        75 ~LvlRL~GG   83 (466)
                      ||+.+.+.+
T Consensus        83 hlvd~~p~~   91 (95)
T d1v6ea_          83 HVIDHSGSG   91 (95)
T ss_dssp             EEBCCSCCS
T ss_pred             EEEeCCCCC
Confidence            999876544

>d2uyzb1 d.15.1.1 (B:20-96) SUMO-1 (smt3 homologue) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: SUMO-1 (smt3 homologue)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.55  E-value=9.1e-08  Score=75.21  Aligned_cols=72  Identities=11%  Similarity=0.200  Sum_probs=66.5

Q ss_pred             cEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCcccc----CCCceeEEeeecC
Q 012310           10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD----DHITFNLVLRLLG   82 (466)
Q Consensus        10 ~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss----~gsTL~LvlRL~G   82 (466)
                      .|+|.|++.+|+.+.+.+. +++++..|+..++++.++|+..++|+|+|+.|.++.++.+    .+++|+++++..|
T Consensus         2 ~I~ikv~~~dg~~v~f~v~-~~t~l~kl~~~y~~~~~~~~~~~~f~fdG~~l~~~~T~~~l~~edgD~Idv~~~q~G   77 (77)
T d2uyzb1           2 YIKLKVIGQDSSEIHFKVK-MTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQTG   77 (77)
T ss_dssp             EEEEEEECTTCCEEEEEEE-TTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCHHHHTCCTTEEEEEEECCCC
T ss_pred             EEEEEEECCCCCEEEEEEC-CCChHHHHHHHHHHHhCCChhHEEEEECCEECCCCCCHHHcCCCCCCEEEEEEecCC
Confidence            5899999999999999998 8999999999999999999999999999999999988776    3779999998876

>d1wjna_ d.15.1.1 (A:) Tubulin-folding protein TbcE {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Tubulin-folding protein TbcE
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.29  E-value=9.8e-07  Score=72.23  Aligned_cols=71  Identities=15%  Similarity=0.097  Sum_probs=57.6

Q ss_pred             CCCCcEEEEEEe---CCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCee-------cC-CCCccccC----
Q 012310            6 TSPKALQLFVKL---LNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQ-------LK-DRTVISDD----   70 (466)
Q Consensus         6 ~s~~~MqIfVKt---ldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~-------L~-DsstLss~----   70 (466)
                      .+.+.|+|.|+.   ++++++++.|+ ++.||.+||.+|+..+|||+..|+|+|.|+.       |. |+.+|..|    
T Consensus         5 ss~~~iti~i~~~~~~~~~~~~~kv~-~~~TV~~LK~~i~~~~gip~~~qrL~y~~~~~~~~~~~l~~d~~tL~~YgI~d   83 (97)
T d1wjna_           5 SSGQLLTLKIKCSNQPERQILEKQLP-DSMTVQKVKGLLSRLLKVPVSELLLSYESSKMPGREIELENDLQPLQFYSVEN   83 (97)
T ss_dssp             SSSCEEEEEEEESSCSSSCCEEEEEE-TTSBHHHHHHHHHTTTTCCTTTCEEEEECTTSCSCEEECCCSSSBSGGGTCCT
T ss_pred             cCCCeEEEEEEeCCCCCCceEEEEcC-CCCCHHHHHHHHHHHHCcChHHeEEEecCCCCCcccceecCCCcCHhhccCCC
Confidence            345678888885   45778999998 8999999999999999999999999998763       33 56788887    


Q ss_pred             CCceeEE
Q 012310           71 HITFNLV   77 (466)
Q Consensus        71 gsTL~Lv   77 (466)
                      +++|+|.
T Consensus        84 g~~I~V~   90 (97)
T d1wjna_          84 GDCLLVR   90 (97)
T ss_dssp             TCEEEEE
T ss_pred             CCEEEEE
Confidence            4566653

>d1x1ma1 d.15.1.1 (A:8-101) Ubiquitin-like protein 7 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 7
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.13  E-value=6.1e-07  Score=73.83  Aligned_cols=49  Identities=24%  Similarity=0.260  Sum_probs=43.0

Q ss_pred             CCCHHHHHHHHHHhh--CCC-CCCeEEEecCeecCCCCccccC----CCceeEEee
Q 012310           31 HVYGHEIKNRIYEAT--KIP-THLQRLIYSGLQLKDRTVISDD----HITFNLVLR   79 (466)
Q Consensus        31 s~TVsdLK~rI~e~~--GIP-~e~QRLIfnGK~L~DsstLss~----gsTL~LvlR   79 (466)
                      +.||.+||++|....  .+| +++|+|||+|++|.|+.+|.+|    ++||||+.|
T Consensus        37 ~~tV~~lK~~i~~~~~~~~P~p~~~rLIy~Gk~L~D~~tL~~y~I~~gstihLV~r   92 (94)
T d1x1ma1          37 GYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLKDDQTLDFYGIQPGSTVHVLRK   92 (94)
T ss_dssp             CCBHHHHHHHHHHHCTTTCCCSSSEEEEETTEECCTTCBHHHHTCCTTCEEEEEES
T ss_pred             ccCHHHHHHHHHHHcccCCCChhheEEEECCeEECCCccHHHcCCCCCCEEEEEEe
Confidence            679999999998875  455 5899999999999999999886    679999987

>d1t0ya_ d.15.1.1 (A:) Ubiquitin-like domain of tubulin folding cofactor B {Nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of tubulin folding cofactor B
species: Nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=98.01  E-value=1.2e-05  Score=64.83  Aligned_cols=69  Identities=7%  Similarity=-0.017  Sum_probs=54.9

Q ss_pred             cEEEEEEeC-CCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCe-------ecCCCCccccC----CCceeEE
Q 012310           10 ALQLFVKLL-NGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGL-------QLKDRTVISDD----HITFNLV   77 (466)
Q Consensus        10 ~MqIfVKtl-dGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK-------~L~DsstLss~----gsTL~Lv   77 (466)
                      .++|.|.+- .+...-.+|+ ++.||.+||.+|+..+|||+..|+|+|.|+       ...++.+|..|    +.+|||+
T Consensus         4 ~~~l~it~~~t~~~~E~r~~-~~~TV~~LK~kle~~~Gip~~~q~L~~~~~~~~~~~~l~dd~~~L~~ygi~dG~~Ihvv   82 (90)
T d1t0ya_           4 VYDLEITTNATDFPMEKKYP-AGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDGYRIHAV   82 (90)
T ss_dssp             EEEEEEEESSCCSCEEEEEE-TTSBHHHHHHHHHHHHCCCTTTEEEEEECSSSSEEEECCCCSSBTTTTTCCSSEEEEEE
T ss_pred             EEEEEEEECCCccEEEEecC-CCCCHHHHHHHHHHHHCCChhheEEEEeCCCCCcccccccCCCCHHHCCCCCCCEEEEE
Confidence            578888863 4455788887 799999999999999999999999999775       34567888886    4578775


Q ss_pred             ee
Q 012310           78 LR   79 (466)
Q Consensus        78 lR   79 (466)
                      =+
T Consensus        83 d~   84 (90)
T d1t0ya_          83 DV   84 (90)
T ss_dssp             EC
T ss_pred             eC
Confidence            43

>d1wm3a_ d.15.1.1 (A:) SUMO-2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: SUMO-2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.97  E-value=0.0018  Score=49.51  Aligned_cols=58  Identities=12%  Similarity=0.194  Sum_probs=53.2

Q ss_pred             EEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCcccc
Q 012310           11 LQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD   69 (466)
Q Consensus        11 MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss   69 (466)
                      |.|.|+.-+|+.+.+.+. +++++..|....++..++++...+|+|+|..|.+..+..+
T Consensus         2 I~lkv~~~~g~~v~f~vk-~~t~l~kl~~~y~~~~~~~~~~~~f~fdG~~i~~~~Tp~~   59 (72)
T d1wm3a_           2 INLKVAGQDGSVVQFKIK-RHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQ   59 (72)
T ss_dssp             EEEEEECTTSCEEEEEEC-TTSCTHHHHHHHHHHHTCCTTTCEEEETTEECCTTCCTTT
T ss_pred             EEEEEECCCCCEEEEEEc-CCChHHHHHHHHHHHhCCCccceEEEECCEEcCCCCCHHH
Confidence            678899889999999997 8999999999999999999999999999999988877655

>d2al3a1 d.15.1.2 (A:10-85) Tether containing UBX domain for GLUT4 (Tug) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: Tether containing UBX domain for GLUT4 (Tug)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.17  E-value=0.026  Score=44.04  Aligned_cols=64  Identities=13%  Similarity=0.056  Sum_probs=53.4

Q ss_pred             EEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEecCeecCCCCcccc----CCCceeEE
Q 012310           13 LFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYSGLQLKDRTVISD----DHITFNLV   77 (466)
Q Consensus        13 IfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfnGK~L~DsstLss----~gsTL~Lv   77 (466)
                      |.|=+++|+..+|.+. |+.++.++.+..++++|+.++...|.|+++.|+.+..+.-    .++.|.|+
T Consensus         3 V~Vl~~~~rR~~VKvt-P~t~l~~VL~eaC~k~~~~~~~~~Lkh~~k~ldLsl~~R~sgLpnnakLELv   70 (76)
T d2al3a1           3 VSVLAPNGRRHTVKVT-PSTVLLQVLEDTCRRQDFNPSEYDLKFQRTVLDLSLQWRFANLPNNAKLEMV   70 (76)
T ss_dssp             EEEECTTSCEEEECCC-TTSBHHHHHHHHHHHTTCCGGGCEEEETTEEESSSCBHHHHCCCSSCEEEEE
T ss_pred             EEEECCCCcEEEEEeC-CCcCHHHHHHHHHHHhCCChhHceeeeCCEEcCccceeeecCCCCCCEEEEE
Confidence            5677889999999997 9999999999999999999999999999999987654321    35566554

>d1wf9a1 d.15.1.1 (A:8-101) NPL4-like protein 1 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: NPL4-like protein 1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=94.74  E-value=0.016  Score=46.84  Aligned_cols=44  Identities=25%  Similarity=0.304  Sum_probs=36.5

Q ss_pred             EEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEec
Q 012310           13 LFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYS   57 (466)
Q Consensus        13 IfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfn   57 (466)
                      |-|++-+|.. -|.++++.+|+.+||..|++.++||.+.|.|..+
T Consensus         3 iRiRsrdG~e-Rv~v~~~~~Tl~~LK~~Ie~~L~VPv~~Q~LSl~   46 (94)
T d1wf9a1           3 LRVRSRDGLE-RVSVDGPHITVSQLKTLIQDQLQIPIHNQTLSTN   46 (94)
T ss_dssp             EEEECSSCEE-EEEECCTTSBHHHHHHHHHHHSCCCTTTCCCBSS
T ss_pred             EEEEecCCce-EEEecCCCCcHHHHHHHHHHHhCCCcccceeecC
Confidence            5688888864 3445556889999999999999999999999764

>d1wgra_ d.15.1.5 (A:) Growth factor receptor-bound protein 7, GRB-7 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ras-binding domain, RBD
domain: Growth factor receptor-bound protein 7, GRB-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.56  E-value=0.36  Score=38.33  Aligned_cols=72  Identities=10%  Similarity=0.057  Sum_probs=50.6

Q ss_pred             CCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEe-----cC--eecCCCCcccc------CCCc
Q 012310            7 SPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIY-----SG--LQLKDRTVISD------DHIT   73 (466)
Q Consensus         7 s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIf-----nG--K~L~DsstLss------~gsT   73 (466)
                      +....-|.|-+.+|.+.+|.|+ +++|+.+|...+.++.+++....+.+|     .|  |.|.+...+.+      ....
T Consensus         6 ~~~~~vvkv~~~dg~~k~l~V~-~~tTa~eV~~~l~~K~~~~~~~~f~L~E~~~~~~leR~L~d~E~vl~v~~~W~~~~~   84 (100)
T d1wgra_           6 SGRPHVVKVYSEDGACRSVEVA-AGATARHVCEMLVQRAHALSDETWGLVECHPHLALERGLEDHESVVEVQAAWPVGGD   84 (100)
T ss_dssp             CCSCEEEEEEETTSCEEEEEEC-TTCCHHHHHHHHHCSSSCCCCCCCCEEEEETTTTEEEEECSSSCHHHHHTTSCSSSC
T ss_pred             CCCceEEEEEecCCCEEEEEEC-CCCcHHHHHHHHHHHhCCCCCCCeEEEEecCCCcceeecCchHhHHHHHHcCCCCCC
Confidence            3445666666789999999997 899999999999999998765443332     23  67777543221      2346


Q ss_pred             eeEEee
Q 012310           74 FNLVLR   79 (466)
Q Consensus        74 L~LvlR   79 (466)
                      .++++|
T Consensus        85 ~r~v~r   90 (100)
T d1wgra_          85 SRFVFR   90 (100)
T ss_dssp             CEEEEC
T ss_pred             CEEEEe
Confidence            667776

>d1h8ca_ d.15.1.2 (A:) Fas-associated factor 1, Faf1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: Fas-associated factor 1, Faf1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.33  E-value=0.49  Score=35.95  Aligned_cols=60  Identities=8%  Similarity=0.064  Sum_probs=46.5

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEe--cCeecCC---CCcccc
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIY--SGLQLKD---RTVISD   69 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIf--nGK~L~D---sstLss   69 (466)
                      .....|-|++++|..+...|. +++||.+|.+.|... +.+...+.|+.  -.+.+..   +.+|.+
T Consensus         3 e~~~~i~iRlPdG~~~~~~F~-~~~tl~~v~~~v~~~-~~~~~~~~l~~~~Pr~~l~~~d~~~TL~e   67 (82)
T d1h8ca_           3 EPVSKLRIRTPSGEFLERRFL-ASNKLQIVFDFVASK-GFPWDEYKLLSTFPRRDVTQLDPNKSLLE   67 (82)
T ss_dssp             CCCEEEEEECTTSCEEEEEEC-TTSBHHHHHHHHHHH-TCCSSSEEEEETTTTEETTTCCTTSBHHH
T ss_pred             CCcEEEEEECCCCCEEEEEEC-CCCcHHHHHHHHHhc-CCCCCceEEEecCcccccccccccCCHHH
Confidence            345789999999999999997 899999999999874 67777777774  5666742   345544

>d1i42a_ d.15.1.2 (A:) p47 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: p47
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=90.63  E-value=0.48  Score=36.75  Aligned_cols=62  Identities=15%  Similarity=0.212  Sum_probs=48.3

Q ss_pred             CCCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhh-CCCCCCeEEEec--CeecCC-CCcccc
Q 012310            7 SPKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEAT-KIPTHLQRLIYS--GLQLKD-RTVISD   69 (466)
Q Consensus         7 s~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~-GIP~e~QRLIfn--GK~L~D-sstLss   69 (466)
                      +.....|-|++++|..+...|. ++.+|.+|.+.|.... +.+...+.|+.+  -+.|.| +.+|.+
T Consensus        11 ~~p~t~I~iRlPdG~~~~~~F~-~~~tl~dv~~~v~~~~~~~~~~~f~L~t~~Prr~l~d~~~TL~e   76 (89)
T d1i42a_          11 AEPTTNIQIRLADGGRLVQKFN-HSHRISDIRLFIVDARPAMAATSFVLMTTFPNKELADENQTLKE   76 (89)
T ss_dssp             TSCCEEEEEEETTTCCEEEEEC-SSSCGGGHHHHHHHHCTTTSSCCEEEEETTTTEECCCCSSCSGG
T ss_pred             CCCcEEEEEEcCCCCEEEEEEC-CchhHHHHHHHHHHhCccCCCCCEEEecCCCCcccCCCcCcHHH
Confidence            3456789999999999999997 7999999999998753 566667888864  567754 455554

>d1wj4a_ d.15.1.2 (A:) Hypothetical protein KIAA0794 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: Hypothetical protein KIAA0794
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.44  E-value=0.97  Score=37.02  Aligned_cols=60  Identities=13%  Similarity=0.207  Sum_probs=45.2

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEe--cCeecC--C-CCcccc
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIY--SGLQLK--D-RTVISD   69 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIf--nGK~L~--D-sstLss   69 (466)
                      .....|.||+++|+.+...|. .+.||.+|.+.|... +.+...+.|+.  --+.|.  | +.+|.+
T Consensus        41 ~p~~~l~iRlPdG~r~~r~F~-~~~tl~~l~~~v~~~-~~~~~~~~L~~~fPr~~l~~~d~~~TL~e  105 (124)
T d1wj4a_          41 GPKAQLMLRYPDGKREQITLP-EQAKLLALVKHVQSK-GYPNERFELLTNFPRRKLSHLDYDITLQE  105 (124)
T ss_dssp             SCEEEEEEECTTSCEEEEEEE-TTSCHHHHHHHHHHH-HCCTTTEEEECSSSCCEETSSCSSSCTTT
T ss_pred             CCceEEEEECCCCCEEEEEeC-CCCcHHHHHHHHHhc-ccCCcceEEeecccccccccccccCcHHH
Confidence            346789999999999999998 799999999999875 45556677764  455663  2 355655

>d1xo3a_ d.15.3.3 (A:) C9orf74 homolog {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: C9orf74 homolog
domain: C9orf74 homolog
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=82.12  E-value=2.6  Score=33.00  Aligned_cols=77  Identities=13%  Similarity=0.025  Sum_probs=48.9

Q ss_pred             CCCcEEEEEEeCCC--------CEEEEEecCC--CCCHHHHHHHHHHhhCCCCCC-----------eEEEecCeecCC--
Q 012310            7 SPKALQLFVKLLNG--------KTTTLNFTTC--HVYGHEIKNRIYEATKIPTHL-----------QRLIYSGLQLKD--   63 (466)
Q Consensus         7 s~~~MqIfVKtldG--------kT~tL~V~sP--s~TVsdLK~rI~e~~GIP~e~-----------QRLIfnGK~L~D--   63 (466)
                      |..+|.|.|+.+.|        +.+.+.++.+  -.||.+|...+.++.+-....           ..+..||+.+..  
T Consensus         1 ~~~~m~V~V~F~g~L~~lf~~~r~~~v~l~~~~~~~TV~dll~~L~~~~p~~~~~l~~~~~~lr~~v~v~vN~~di~~l~   80 (101)
T d1xo3a_           1 SAAPLCVKVEFGGGAELLFDGVKKHQVALPGQEEPWDIRNLLVWIKKNLLKERPELFIQGDSVRPGILVLINDADWELLG   80 (101)
T ss_dssp             CCSSCEEEEEECSSGGGGGTTCCCEEEECCSSSCCCCHHHHHHHHHHHHCCSCGGGSCCTTSCCSSEEEEETTEEHHHHT
T ss_pred             CCCCeEEEEEEechHHHHhCCcceEEEEcCCCCCCcCHHHHHHHHHHhCCcchhhhhccCcCeeeeEEEEEcCcceeccC
Confidence            35688899997543        2345555422  469999999999876532211           133457765422  


Q ss_pred             -CCccccCCCceeEEeeecCC
Q 012310           64 -RTVISDDHITFNLVLRLLGG   83 (466)
Q Consensus        64 -sstLss~gsTL~LvlRL~GG   83 (466)
                       ..+.-..++.|.+.+.+.||
T Consensus        81 gl~t~l~dgDeV~~~p~v~GG  101 (101)
T d1xo3a_          81 ELDYQLQDQDSILFISTLHGG  101 (101)
T ss_dssp             TTSCCCCTTCEEEEEETTCCC
T ss_pred             CCccCcCCCCEEEEeCCCCCC
Confidence             23333568899999999887

>d2cr5a1 d.15.1.2 (A:8-103) UBX domain-containing protein 6 (Reproduction 8) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: UBX domain-containing protein 6 (Reproduction 8)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=81.11  E-value=1.9  Score=33.22  Aligned_cols=60  Identities=15%  Similarity=0.155  Sum_probs=44.5

Q ss_pred             CCcEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCCCeEEEec--CeecCC--CCcccc
Q 012310            8 PKALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTHLQRLIYS--GLQLKD--RTVISD   69 (466)
Q Consensus         8 ~~~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e~QRLIfn--GK~L~D--sstLss   69 (466)
                      +..+.|-||+++|+.+...|. +++||.+|.+.|.... .....++|+.+  .+.+..  +.+|.+
T Consensus        14 ~~~~~i~iRlPdG~r~~r~F~-~~dtl~~l~~fv~~~~-~~~~~f~l~~~~Pr~~~~~d~~~TL~e   77 (96)
T d2cr5a1          14 EEVVTVALRCPNGRVLRRRFF-KSWNSQVLLDWMMKVG-YHKSLYRLSTSFPRRALEVEGGSSLED   77 (96)
T ss_dssp             SSEEEEEEECTTSCEEEEEEE-SSSBTHHHHHHHHHHT-CCTTTEEEECSSSCCBCCCCSSCBHHH
T ss_pred             CCeEEEEEECCCCCEEEEEEC-CcccHHHHHHHHHHhc-cCcccceeecCCCceecCccCCCcHHH
Confidence            456899999999999999998 7999999999997653 45566777753  344432  344544

>d1vjka_ d.15.3.1 (A:) Molybdopterin synthase subunit MoaD {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: MoaD
domain: Molybdopterin synthase subunit MoaD
species: Pyrococcus furiosus [TaxId: 2261]

Probab=81.11  E-value=5.5  Score=29.67  Aligned_cols=68  Identities=9%  Similarity=0.067  Sum_probs=47.4

Q ss_pred             cEEEEEEeCC------CC-EEEEEecCCCCCHHHHHHHHHHhhCC-----------CCCCeEEEecCeecCCCCccccCC
Q 012310           10 ALQLFVKLLN------GK-TTTLNFTTCHVYGHEIKNRIYEATKI-----------PTHLQRLIYSGLQLKDRTVISDDH   71 (466)
Q Consensus        10 ~MqIfVKtld------Gk-T~tL~V~sPs~TVsdLK~rI~e~~GI-----------P~e~QRLIfnGK~L~DsstLss~g   71 (466)
                      +|.|.|+.|.      |+ ...+.++ ...||.+|++.+..+.+-           .....++..||+....+..| ..+
T Consensus         1 smkI~v~~Fa~lre~~G~~~~~~~~~-~~~Tv~~l~~~L~~~~~~~~~~l~~~~~~~~~~i~iavN~~~~~~d~~L-~~g   78 (88)
T d1vjka_           1 SVKVKVKYFARFRQLAGVDEEEIELP-EGARVRDLIEEIKKRHEKFKEEVFGEGYDEDADVNIAVNGRYVSWDEEL-KDG   78 (88)
T ss_dssp             CEEEEEEECTHHHHHHSSSEEEEEEC-TTCBHHHHHHHHHHHCGGGGGSCBCSSSCTTSSBEEEETTBCCCTTCBC-CTT
T ss_pred             CeEEEEEEhHHHHHHhCCCeEEEECC-CCCCHHHHHHHHHHHChHHHHHhhhccccccccEEEEEcceEcCCCcCc-CCC
Confidence            5899999874      43 6788887 577999999999876431           11234566788888777666 346


Q ss_pred             CceeEEee
Q 012310           72 ITFNLVLR   79 (466)
Q Consensus        72 sTL~LvlR   79 (466)
                      +.|.+.++
T Consensus        79 Devai~PP   86 (88)
T d1vjka_          79 DVVGVFPP   86 (88)
T ss_dssp             CEEEEESC
T ss_pred             CEEEEeCC
Confidence            67766654

>d1ef1a3 d.15.1.4 (A:4-87) Moesin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: First domain of FERM
domain: Moesin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.27  E-value=2  Score=33.03  Aligned_cols=57  Identities=12%  Similarity=0.229  Sum_probs=43.6

Q ss_pred             cEEEEEEeCCCCEEEEEecCCCCCHHHHHHHHHHhhCCCCC-CeEEEe---cC--eecCCCCccc
Q 012310           10 ALQLFVKLLNGKTTTLNFTTCHVYGHEIKNRIYEATKIPTH-LQRLIY---SG--LQLKDRTVIS   68 (466)
Q Consensus        10 ~MqIfVKtldGkT~tL~V~sPs~TVsdLK~rI~e~~GIP~e-~QRLIf---nG--K~L~DsstLs   68 (466)
                      +|+|.|.++|+ +..+.+. +.++..+|.++|++..+|... .+-|.|   .|  ..|+.+..|.
T Consensus         1 t~~v~V~~LD~-~~~~~v~-~~a~G~~l~~~Vc~~l~L~E~dYFGL~y~d~~~~~~WLd~~k~l~   63 (84)
T d1ef1a3           1 TISVRVTTMDA-ELEFAIQ-PNTTGKQLFDQVVKTIGLREVWFFGLQYQDTKGFSTWLKLNKKVT   63 (84)
T ss_dssp             CEEEEEEETTE-EEEEEEC-TTCBHHHHHHHHHHHHTCCCGGGEEEEEEBTTSCEEECCSSSBGG
T ss_pred             CEEEEEEEcCC-EEEEEEc-CCChHHHHHHHHHHHcCCcccccceEEEECCCCCeEeccCCCchh
Confidence            58999999998 4788897 789999999999999998754 455665   23  2355555544