Citrus Sinensis ID: 032224

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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-----
Protein Sequence
MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKECPNAECGAGTFMASHFDRHYCEFVP
Secondary Structure (PSIPRED)
cEEEEEcccccEEEEEEEccccHHHHHHHHHcccccccccEEEEEccEEccccccHHHcccccccEEEEEEEEccccccccccccccccHHHHHHHHHHHHHHcEEEEcccccEEEEccccccccccccEEEEEccccEEEEccc
Secondary Structure Prediction (SSPRO)
cEEEEEEccccEEEEEcccccEHHHHHHHHHHHHcccHHHEEEEEccEEcccccEcHHHccccccEEEEEEccccccccccEEEcccccccccEEEEEEEEEEEEEEEcccccEcccccccccccccccEEEHccccccEcEccc
Coil and Loop (DISEMBL)
MQIFVKTltgktitlevessdtiDNVKAKiqdkegippdqQRLIFAGkqledgrtladyniqkesTLHLVLRLRGgakkrkkktytkpkkikhkkkKVKLAVLQFykvddsgkVQRLrkecpnaecgagtfmashfdrhycefvp
Flexible Loop (DISEMBL)
mqifvktltgktitlevessdtidnVKAKIqdkegippdqqRLIFAGKQLEDGRTLAdyniqkestlhlvlrlrggakkrkkktytkpkkikhkkkkvklavlqfykvddsgkvqRLRKECPNAECGAGTFMASHFDRHYCEFVP
Low Complexity Region (SEG)
MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAkkrkkktytkpkkikhkkkkvkLAVLQFYKVDDSGKVQRLRKECPNAECGAGTFMASHFDRHYCEFVP
Disordered region (IsUnstruct)
***FVKTLTGKTITLE**************************LIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG********************KKVKLAVLQFYKVDDSGKVQRLRKECPNAECGAGTFMASHFDRHYCEF**
Disordered Region (DISOPRED)
MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKECPNAECGAGTFMASHFDRHYCEFVP
Disordered Region (DISEMBL)
MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG**********************VKLAVLQFYKVDDSGKVQRLRKECPNAECGAGTFMASHFDRHYCEFVP
Disordered Region (DISPRO)
MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKECPNAECGAGTFMASHFDRHYCEFVP
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKECPNAECGAGTFMASHFDRHYCEFVP
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	145	2.2.26 [Sep-21-2011]
P62981	156	Ubiquitin-40S ribosomal p	N/A	no	0.972	0.903	0.985	7e-77
P62980	156	Ubiquitin-40S ribosomal p	N/A	no	0.972	0.903	0.985	7e-77
P59271	156	Ubiquitin-40S ribosomal p	yes	no	0.972	0.903	0.943	1e-63
P47905	155	Ubiquitin-40S ribosomal p	N/A	no	0.972	0.909	0.978	3e-63
P59232	157	Ubiquitin-40S ribosomal p	no	no	0.972	0.898	0.978	8e-63
P59233	157	Ubiquitin-40S ribosomal p	no	no	0.972	0.898	0.971	1e-62
Q9ARZ9	155	Ubiquitin-40S ribosomal p	yes	no	0.972	0.909	0.957	2e-61
P0CG87	155	Ubiquitin-40S ribosomal p	N/A	no	0.972	0.909	0.957	2e-61
P0CG86	155	Ubiquitin-40S ribosomal p	N/A	no	0.972	0.909	0.950	5e-61
P79781	156	Ubiquitin-40S ribosomal p	yes	no	0.972	0.903	0.879	9e-61

>sp|P62981|RS27A_SOLTU Ubiquitin-40S ribosomal protein S27a OS=Solanum tuberosum GN=UBI3 PE=2 SV=2

 Score =  285 bits (729), Expect = 7e-77,   Method: Compositional matrix adjust.
 Identities = 139/141 (98%), Positives = 141/141 (100%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN
Sbjct: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60

Query: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE 120
           IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDD+GKVQRLRKE
Sbjct: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDTGKVQRLRKE 120

Query: 121 CPNAECGAGTFMASHFDRHYC 141
           CPNAECGAGTFMA+HFDRHYC
Sbjct: 121 CPNAECGAGTFMANHFDRHYC 141

Ribosomal protein S27a is a component of the 40S subunit of the ribosome.
Solanum tuberosum (taxid: 4113)

>sp|P62980|RS27A_SOLLC Ubiquitin-40S ribosomal protein S27a OS=Solanum lycopersicum GN=UBI3 PE=3 SV=2

 Score =  285 bits (729), Expect = 7e-77,   Method: Compositional matrix adjust.
 Identities = 139/141 (98%), Positives = 141/141 (100%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN
Sbjct: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60

Query: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE 120
           IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDD+GKVQRLRKE
Sbjct: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDTGKVQRLRKE 120

Query: 121 CPNAECGAGTFMASHFDRHYC 141
           CPNAECGAGTFMA+HFDRHYC
Sbjct: 121 CPNAECGAGTFMANHFDRHYC 141

Ribosomal protein S27a is a component of the 40S subunit of the ribosome.

Solanum lycopersicum (taxid: 4081)

>sp|P59271|R27AA_ARATH Ubiquitin-40S ribosomal protein S27a-1 OS=Arabidopsis thaliana GN=RPS27AA PE=1 SV=2

 Score =  241 bits (614), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 133/141 (94%), Positives = 135/141 (95%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN
Sbjct: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60

Query: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE 120
           IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKH  KKVKLAVLQFYKVD SGKVQRL+KE
Sbjct: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHTHKKVKLAVLQFYKVDGSGKVQRLKKE 120

Query: 121 CPNAECGAGTFMASHFDRHYC 141
           CP+  CG GTFMASHFDRHYC
Sbjct: 121 CPSVSCGPGTFMASHFDRHYC 141

Ribosomal protein RSP27a-1 is a component of the 40S subunit of the ribosome.

Arabidopsis thaliana (taxid: 3702)

>sp|P47905|RS27A_LUPAL Ubiquitin-40S ribosomal protein S27a OS=Lupinus albus PE=3 SV=2

 Score =  240 bits (612), Expect = 3e-63,   Method: Compositional matrix adjust.
 Identities = 138/141 (97%), Positives = 139/141 (98%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN
Sbjct: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60

Query: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE 120
           IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHK KKVKLAVLQFYKVDDSGKVQRLRKE
Sbjct: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKHKKVKLAVLQFYKVDDSGKVQRLRKE 120

Query: 121 CPNAECGAGTFMASHFDRHYC 141
           CPN ECGAGTFMA+HFDRHYC
Sbjct: 121 CPNTECGAGTFMANHFDRHYC 141

Ribosomal protein S27a is a component of the 40S subunit of the ribosome.

Lupinus albus (taxid: 3870)

>sp|P59232|R27AB_ARATH Ubiquitin-40S ribosomal protein S27a-2 OS=Arabidopsis thaliana GN=RPS27AB PE=1 SV=2

 Score =  238 bits (607), Expect = 8e-63,   Method: Compositional matrix adjust.
 Identities = 138/141 (97%), Positives = 138/141 (97%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN
Sbjct: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60

Query: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE 120
           IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHK KKVKLAVLQFYKVD SGKVQRLRKE
Sbjct: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKHKKVKLAVLQFYKVDGSGKVQRLRKE 120

Query: 121 CPNAECGAGTFMASHFDRHYC 141
           CPNA CGAGTFMASHFDRHYC
Sbjct: 121 CPNATCGAGTFMASHFDRHYC 141

Ribosomal protein RSP27a-2 is a component of the 40S subunit of the ribosome.

Arabidopsis thaliana (taxid: 3702)

>sp|P59233|R27AC_ARATH Ubiquitin-40S ribosomal protein S27a-3 OS=Arabidopsis thaliana GN=RPS27AC PE=1 SV=2

 Score =  238 bits (606), Expect = 1e-62,   Method: Compositional matrix adjust.
 Identities = 137/141 (97%), Positives = 138/141 (97%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN
Sbjct: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60

Query: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE 120
           IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHK KKVKLAVLQFYK+D SGKVQRLRKE
Sbjct: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKHKKVKLAVLQFYKIDGSGKVQRLRKE 120

Query: 121 CPNAECGAGTFMASHFDRHYC 141
           CPNA CGAGTFMASHFDRHYC
Sbjct: 121 CPNATCGAGTFMASHFDRHYC 141

Ribosomal protein RSP27a-3 is a component of the 40S subunit of the ribosome.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ARZ9|R27AA_ORYSJ Ubiquitin-40S ribosomal protein S27a-1 OS=Oryza sativa subsp. japonica GN=RPS27AA PE=2 SV=1

 Score =  233 bits (595), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 136/142 (95%), Positives = 138/142 (97%), Gaps = 1/142 (0%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN
Sbjct: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60

Query: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDD-SGKVQRLRK 119
           IQKESTLHLVLRLRGGAKKRKKKTYTKPKK KHK KKVKLAVLQFYKVDD +GKV RLRK
Sbjct: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKQKHKHKKVKLAVLQFYKVDDATGKVTRLRK 120

Query: 120 ECPNAECGAGTFMASHFDRHYC 141
           ECPNAECGAGTFMA+HFDRHYC
Sbjct: 121 ECPNAECGAGTFMANHFDRHYC 142

Ribosomal protein RSP27a-1 is a component of the 40S subunit of the ribosome.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|P0CG87|RS272_HORVU Ubiquitin-40S ribosomal protein S27a OS=Hordeum vulgare GN=MUB2 PE=3 SV=1

 Score =  233 bits (595), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 136/142 (95%), Positives = 138/142 (97%), Gaps = 1/142 (0%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN
Sbjct: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60

Query: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDS-GKVQRLRK 119
           IQKESTLHLVLRLRGGAKKRKKKTYTKPKK KHK KKVKLAVLQFYKVDDS GKV RLRK
Sbjct: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKQKHKHKKVKLAVLQFYKVDDSTGKVTRLRK 120

Query: 120 ECPNAECGAGTFMASHFDRHYC 141
           ECPNA+CGAGTFMA+HFDRHYC
Sbjct: 121 ECPNADCGAGTFMANHFDRHYC 142

Ribosomal protein S27a is a component of the 40S subunit of the ribosome.

Hordeum vulgare (taxid: 4513)

>sp|P0CG86|RS271_HORVU Ubiquitin-40S ribosomal protein S27a OS=Hordeum vulgare GN=MUB1 PE=3 SV=1

 Score =  232 bits (592), Expect = 5e-61,   Method: Compositional matrix adjust.
 Identities = 135/142 (95%), Positives = 138/142 (97%), Gaps = 1/142 (0%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN
Sbjct: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60

Query: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDD-SGKVQRLRK 119
           IQKESTLHLVLRLRGGAKKRKKKTYTKPKK KHK KKVKLAVLQFYKVDD +GKV RLRK
Sbjct: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKQKHKHKKVKLAVLQFYKVDDATGKVTRLRK 120

Query: 120 ECPNAECGAGTFMASHFDRHYC 141
           ECPNA+CGAGTFMA+HFDRHYC
Sbjct: 121 ECPNADCGAGTFMANHFDRHYC 142

Ribosomal protein S27a is a component of the 40S subunit of the ribosome.

Hordeum vulgare (taxid: 4513)

>sp|P79781|RS27A_CHICK Ubiquitin-40S ribosomal protein S27a OS=Gallus gallus GN=RPS27A PE=2 SV=3

 Score =  231 bits (590), Expect = 9e-61,   Method: Compositional matrix adjust.
 Identities = 124/141 (87%), Positives = 135/141 (95%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1   MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE 120
           IQKESTLHLVLRLRGGAKKRKKK+YT PKK KHK+KKVKLAVL++YKVD++GK+ RLR+E
Sbjct: 61  IQKESTLHLVLRLRGGAKKRKKKSYTTPKKNKHKRKKVKLAVLKYYKVDENGKISRLRRE 120

Query: 121 CPNAECGAGTFMASHFDRHYC 141
           CP+ ECGAG FMASHFDRHYC
Sbjct: 121 CPSEECGAGVFMASHFDRHYC 141

Ribosomal protein S27a is a component of the 40S subunit of the ribosome.

Gallus gallus (taxid: 9031)

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	145
255568846	156	ubiquitin, putative [Ricinus communis] g	0.972	0.903	0.992	1e-75
225437695	156	PREDICTED: ubiquitin-40S ribosomal prote	0.972	0.903	0.992	2e-75
386870487	156	ubiquitin extension protein 5 [Sesamum i	0.972	0.903	0.992	2e-75
224130892	156	predicted protein [Populus trichocarpa]	0.972	0.903	0.992	2e-75
224053300	156	predicted protein [Populus trichocarpa]	0.972	0.903	0.992	2e-75
126038342	156	ubiquitin extension protein [Hevea brasi	0.972	0.903	0.985	4e-75
117607067	179	ubiquitin extension protein [Capsicum an	0.972	0.787	0.985	4e-75
71913239	156	ubiquitin extension protein [Nicotiana t	0.972	0.903	0.985	4e-75
225462644	156	PREDICTED: ubiquitin-40S ribosomal prote	0.972	0.903	0.985	4e-75
302393759	156	RecName: Full=Ubiquitin-40S ribosomal pr	0.972	0.903	0.985	5e-75

>gi|255568846|ref|XP_002525394.1| ubiquitin, putative [Ricinus communis] gi|2894306|emb|CAA11268.1| ubiquitin extension protein [Nicotiana tabacum] gi|59800131|gb|AAX07419.1| ubiquitin/s27a 40S ribosomal protein [Nicotiana benthamiana] gi|223535357|gb|EEF37032.1| ubiquitin, putative [Ricinus communis]

 Score =  286 bits (733), Expect = 1e-75,   Method: Compositional matrix adjust.
 Identities = 140/141 (99%), Positives = 141/141 (100%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN
Sbjct: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60

Query: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE 120
           IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE
Sbjct: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE 120

Query: 121 CPNAECGAGTFMASHFDRHYC 141
           CPNAECGAGTFMA+HFDRHYC
Sbjct: 121 CPNAECGAGTFMANHFDRHYC 141

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225437695|ref|XP_002279878.1| PREDICTED: ubiquitin-40S ribosomal protein S27a isoform 1 [Vitis vinifera] gi|359480213|ref|XP_003632417.1| PREDICTED: ubiquitin-40S ribosomal protein S27a isoform 2 [Vitis vinifera] gi|147767872|emb|CAN71283.1| hypothetical protein VITISV_027093 [Vitis vinifera] gi|147834215|emb|CAN70884.1| hypothetical protein VITISV_029192 [Vitis vinifera]

 Score =  286 bits (733), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 140/141 (99%), Positives = 141/141 (100%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN
Sbjct: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60

Query: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE 120
           IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE
Sbjct: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE 120

Query: 121 CPNAECGAGTFMASHFDRHYC 141
           CPNAECGAGTFMA+HFDRHYC
Sbjct: 121 CPNAECGAGTFMANHFDRHYC 141

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|386870487|gb|AFJ42574.1| ubiquitin extension protein 5 [Sesamum indicum]

 Score =  286 bits (732), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 140/141 (99%), Positives = 141/141 (100%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN
Sbjct: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60

Query: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE 120
           IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE
Sbjct: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE 120

Query: 121 CPNAECGAGTFMASHFDRHYC 141
           CPNAECGAGTFMA+HFDRHYC
Sbjct: 121 CPNAECGAGTFMANHFDRHYC 141

Source: Sesamum indicum

Species: Sesamum indicum

Genus: Sesamum

Family: Pedaliaceae

Order: Lamiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224130892|ref|XP_002320950.1| predicted protein [Populus trichocarpa] gi|118481566|gb|ABK92725.1| unknown [Populus trichocarpa] gi|222861723|gb|EEE99265.1| predicted protein [Populus trichocarpa]

 Score =  286 bits (732), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 140/141 (99%), Positives = 141/141 (100%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN
Sbjct: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60

Query: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE 120
           IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE
Sbjct: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE 120

Query: 121 CPNAECGAGTFMASHFDRHYC 141
           CPNAECGAGTFMA+HFDRHYC
Sbjct: 121 CPNAECGAGTFMANHFDRHYC 141

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224053300|ref|XP_002297752.1| predicted protein [Populus trichocarpa] gi|224064701|ref|XP_002301539.1| predicted protein [Populus trichocarpa] gi|224114615|ref|XP_002332324.1| predicted protein [Populus trichocarpa] gi|224136388|ref|XP_002322317.1| predicted protein [Populus trichocarpa] gi|255548313|ref|XP_002515213.1| ubiquitin, putative [Ricinus communis] gi|1771780|emb|CAA71132.1| ubiquitin extension protein [Solanum tuberosum] gi|76573361|gb|ABA46785.1| ubiquitin extension protein-like protein [Solanum tuberosum] gi|118481233|gb|ABK92566.1| unknown [Populus trichocarpa] gi|118484030|gb|ABK93901.1| unknown [Populus trichocarpa] gi|118484734|gb|ABK94236.1| unknown [Populus trichocarpa] gi|118484740|gb|ABK94239.1| unknown [Populus trichocarpa] gi|118484834|gb|ABK94284.1| unknown [Populus trichocarpa] gi|196166892|gb|ACG70965.1| ubiquitin extensive-like protein [Ziziphus jujuba] gi|222832571|gb|EEE71048.1| predicted protein [Populus trichocarpa] gi|222843265|gb|EEE80812.1| predicted protein [Populus trichocarpa] gi|222845010|gb|EEE82557.1| predicted protein [Populus trichocarpa] gi|222869313|gb|EEF06444.1| predicted protein [Populus trichocarpa] gi|223545693|gb|EEF47197.1| ubiquitin, putative [Ricinus communis]

 Score =  286 bits (731), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 140/141 (99%), Positives = 141/141 (100%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN
Sbjct: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60

Query: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE 120
           IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE
Sbjct: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE 120

Query: 121 CPNAECGAGTFMASHFDRHYC 141
           CPNAECGAGTFMA+HFDRHYC
Sbjct: 121 CPNAECGAGTFMANHFDRHYC 141

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|126038342|gb|ABN72579.1| ubiquitin extension protein [Hevea brasiliensis]

 Score =  285 bits (730), Expect = 4e-75,   Method: Compositional matrix adjust.
 Identities = 139/141 (98%), Positives = 141/141 (100%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN
Sbjct: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60

Query: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE 120
           IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLA+LQFYKVDDSGKVQRLRKE
Sbjct: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAILQFYKVDDSGKVQRLRKE 120

Query: 121 CPNAECGAGTFMASHFDRHYC 141
           CPNAECGAGTFMA+HFDRHYC
Sbjct: 121 CPNAECGAGTFMANHFDRHYC 141

Source: Hevea brasiliensis

Species: Hevea brasiliensis

Genus: Hevea

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|117607067|gb|ABK42077.1| ubiquitin extension protein [Capsicum annuum]

 Score =  285 bits (730), Expect = 4e-75,   Method: Compositional matrix adjust.
 Identities = 139/141 (98%), Positives = 140/141 (99%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN
Sbjct: 24  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 83

Query: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE 120
           IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHK KKVKLAVLQFYKVDDSGKVQRLRKE
Sbjct: 84  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKHKKVKLAVLQFYKVDDSGKVQRLRKE 143

Query: 121 CPNAECGAGTFMASHFDRHYC 141
           CPNAECGAGTFMA+HFDRHYC
Sbjct: 144 CPNAECGAGTFMANHFDRHYC 164

Source: Capsicum annuum

Species: Capsicum annuum

Genus: Capsicum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|71913239|gb|AAZ53360.1| ubiquitin extension protein [Nicotiana tabacum]

 Score =  285 bits (729), Expect = 4e-75,   Method: Compositional matrix adjust.
 Identities = 139/141 (98%), Positives = 141/141 (100%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN
Sbjct: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60

Query: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE 120
           IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE
Sbjct: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE 120

Query: 121 CPNAECGAGTFMASHFDRHYC 141
           CPNAECGAG+FMA+HFDRHYC
Sbjct: 121 CPNAECGAGSFMANHFDRHYC 141

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225462644|ref|XP_002266750.1| PREDICTED: ubiquitin-40S ribosomal protein S27a isoform 1 [Vitis vinifera] gi|359491770|ref|XP_003634320.1| PREDICTED: ubiquitin-40S ribosomal protein S27a isoform 2 [Vitis vinifera] gi|147836392|emb|CAN75420.1| hypothetical protein VITISV_037877 [Vitis vinifera]

 Score =  285 bits (729), Expect = 4e-75,   Method: Compositional matrix adjust.
 Identities = 139/141 (98%), Positives = 141/141 (100%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN
Sbjct: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60

Query: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE 120
           IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE
Sbjct: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE 120

Query: 121 CPNAECGAGTFMASHFDRHYC 141
           CPN+ECGAGTFMA+HFDRHYC
Sbjct: 121 CPNSECGAGTFMANHFDRHYC 141

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302393759|sp|P62980.2|RS27A_SOLLC RecName: Full=Ubiquitin-40S ribosomal protein S27a; Contains: RecName: Full=Ubiquitin; Contains: RecName: Full=40S ribosomal protein S27a; Flags: Precursor gi|302393760|sp|P62981.2|RS27A_SOLTU RecName: Full=Ubiquitin-40S ribosomal protein S27a; Contains: RecName: Full=Ubiquitin; Contains: RecName: Full=40S ribosomal protein S27a; Flags: Precursor gi|19397|emb|CAA41207.1| ubiquitin [Solanum lycopersicum] gi|21601|emb|CAA77735.1| ubiquitin monomer/ribosomal protein [Solanum tuberosum] gi|349055|gb|AAA19247.1| ubiquitin/ribosomal fusion protein [Solanum tuberosum]

 Score =  285 bits (729), Expect = 5e-75,   Method: Compositional matrix adjust.
 Identities = 139/141 (98%), Positives = 141/141 (100%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN
Sbjct: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60

Query: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE 120
           IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDD+GKVQRLRKE
Sbjct: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDTGKVQRLRKE 120

Query: 121 CPNAECGAGTFMASHFDRHYC 141
           CPNAECGAGTFMA+HFDRHYC
Sbjct: 121 CPNAECGAGTFMANHFDRHYC 141

Source: Solanum lycopersicum

Species: Solanum lycopersicum

Genus: Solanum

Family: Solanaceae

Order: Solanales

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	145
TAIR|locus:2041459	157	UBQ6 "ubiquitin 6" [Arabidopsi	0.972	0.898	0.829	2e-56
TAIR|locus:2098003	157	UBQ5 "ubiquitin 5" [Arabidopsi	0.972	0.898	0.822	2.5e-56
TAIR|locus:2028005	156	AT1G23410 [Arabidopsis thalian	0.972	0.903	0.801	7.8e-55
UNIPROTKB|P79781	156	RPS27A "Ubiquitin-40S ribosoma	0.972	0.903	0.751	1.3e-52
UNIPROTKB|P62992	156	RPS27A "Ubiquitin-40S ribosoma	0.972	0.903	0.751	1.7e-52
UNIPROTKB|F1PEZ4	156	RPS27A "Uncharacterized protei	0.972	0.903	0.751	1.7e-52
UNIPROTKB|P62979	156	RPS27A "Ubiquitin-40S ribosoma	0.972	0.903	0.751	1.7e-52
UNIPROTKB|F2Z5U0	156	RPS27A "Uncharacterized protei	0.972	0.903	0.751	1.7e-52
ZFIN|ZDB-GENE-030131-10018	172	rps27a "ribosomal protein S27a	0.972	0.819	0.751	3.5e-52
MGI|MGI:1925544	156	Rps27a "ribosomal protein S27A	0.972	0.903	0.744	4.4e-52

TAIR|locus:2041459 UBQ6 "ubiquitin 6" [Arabidopsis thaliana (taxid:3702)]

 Score = 581 (209.6 bits), Expect = 2.0e-56, P = 2.0e-56
 Identities = 117/141 (82%), Positives = 117/141 (82%)

Query:     1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
             MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN
Sbjct:     1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60

Query:    61 IQKESTLHLVLRLRGGAXXXXXXXXXXXXXXXXXXXXXXLAVLQFYKVDDSGKVQRLRKE 120
             IQKESTLHLVLRLRGGA                      LAVLQFYKVD SGKVQRLRKE
Sbjct:    61 IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKHKKVKLAVLQFYKVDGSGKVQRLRKE 120

Query:   121 CPNAECGAGTFMASHFDRHYC 141
             CPNA CGAGTFMASHFDRHYC
Sbjct:   121 CPNATCGAGTFMASHFDRHYC 141

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

GO:0005622 "intracellular" evidence=IEA;TAS

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0022627 "cytosolic small ribosomal subunit" evidence=IDA

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

GO:0042787 "protein ubiquitination involved in ubiquitin-dependent protein catabolic process" evidence=ISS

GO:0005794 "Golgi apparatus" evidence=IDA

TAIR|locus:2098003 UBQ5 "ubiquitin 5" [Arabidopsis thaliana (taxid:3702)]

 Score = 580 (209.2 bits), Expect = 2.5e-56, P = 2.5e-56
 Identities = 116/141 (82%), Positives = 117/141 (82%)

Query:     1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
             MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN
Sbjct:     1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60

Query:    61 IQKESTLHLVLRLRGGAXXXXXXXXXXXXXXXXXXXXXXLAVLQFYKVDDSGKVQRLRKE 120
             IQKESTLHLVLRLRGGA                      LAVLQFYK+D SGKVQRLRKE
Sbjct:    61 IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKHKKVKLAVLQFYKIDGSGKVQRLRKE 120

Query:   121 CPNAECGAGTFMASHFDRHYC 141
             CPNA CGAGTFMASHFDRHYC
Sbjct:   121 CPNATCGAGTFMASHFDRHYC 141

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

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0042787 "protein ubiquitination involved in ubiquitin-dependent protein catabolic process" evidence=ISS

GO:0022627 "cytosolic small ribosomal subunit" evidence=IDA

GO:0005794 "Golgi apparatus" evidence=IDA

TAIR|locus:2028005 AT1G23410 [Arabidopsis thaliana (taxid:3702)]

 Score = 566 (204.3 bits), Expect = 7.8e-55, P = 7.8e-55
 Identities = 113/141 (80%), Positives = 115/141 (81%)

Query:     1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
             MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN
Sbjct:     1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60

Query:    61 IQKESTLHLVLRLRGGAXXXXXXXXXXXXXXXXXXXXXXLAVLQFYKVDDSGKVQRLRKE 120
             IQKESTLHLVLRLRGGA                      LAVLQFYKVD SGKVQRL+KE
Sbjct:    61 IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHTHKKVKLAVLQFYKVDGSGKVQRLKKE 120

Query:   121 CPNAECGAGTFMASHFDRHYC 141
             CP+  CG GTFMASHFDRHYC
Sbjct:   121 CPSVSCGPGTFMASHFDRHYC 141

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

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0042787 "protein ubiquitination involved in ubiquitin-dependent protein catabolic process" evidence=ISS

GO:0005886 "plasma membrane" evidence=IDA

GO:0022627 "cytosolic small ribosomal subunit" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

GO:0005794 "Golgi apparatus" evidence=IDA

GO:0006342 "chromatin silencing" evidence=RCA

GO:0009165 "nucleotide biosynthetic process" evidence=RCA

GO:0051567 "histone H3-K9 methylation" evidence=RCA

GO:0052541 "plant-type cell wall cellulose metabolic process" evidence=RCA

GO:0052546 "cell wall pectin metabolic process" evidence=RCA

UNIPROTKB|P79781 RPS27A "Ubiquitin-40S ribosomal protein S27a" [Gallus gallus (taxid:9031)]

 Score = 545 (196.9 bits), Expect = 1.3e-52, P = 1.3e-52
 Identities = 106/141 (75%), Positives = 115/141 (81%)

Query:     1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
             MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct:     1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query:    61 IQKESTLHLVLRLRGGAXXXXXXXXXXXXXXXXXXXXXXLAVLQFYKVDDSGKVQRLRKE 120
             IQKESTLHLVLRLRGGA                      LAVL++YKVD++GK+ RLR+E
Sbjct:    61 IQKESTLHLVLRLRGGAKKRKKKSYTTPKKNKHKRKKVKLAVLKYYKVDENGKISRLRRE 120

Query:   121 CPNAECGAGTFMASHFDRHYC 141
             CP+ ECGAG FMASHFDRHYC
Sbjct:   121 CPSEECGAGVFMASHFDRHYC 141

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

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0002218 "activation of innate immune response" evidence=TAS

GO:0002224 "toll-like receptor signaling pathway" evidence=TAS

GO:0002755 "MyD88-dependent toll-like receptor signaling pathway" evidence=TAS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0006281 "DNA repair" evidence=TAS

GO:0007250 "activation of NF-kappaB-inducing kinase activity" evidence=TAS

GO:0019985 "translesion synthesis" evidence=TAS

GO:0034134 "toll-like receptor 2 signaling pathway" evidence=TAS

GO:0034138 "toll-like receptor 3 signaling pathway" evidence=TAS

GO:0034142 "toll-like receptor 4 signaling pathway" evidence=TAS

GO:0034146 "toll-like receptor 5 signaling pathway" evidence=TAS

GO:0034154 "toll-like receptor 7 signaling pathway" evidence=TAS

GO:0035419 "activation of MAPK activity involved in innate immune response" evidence=TAS

GO:0035681 "toll-like receptor 15 signaling pathway" evidence=TAS

GO:0035682 "toll-like receptor 21 signaling pathway" evidence=TAS

UNIPROTKB|P62992 RPS27A "Ubiquitin-40S ribosomal protein S27a" [Bos taurus (taxid:9913)]

 Score = 544 (196.6 bits), Expect = 1.7e-52, P = 1.7e-52
 Identities = 106/141 (75%), Positives = 115/141 (81%)

Query:     1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
             MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct:     1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query:    61 IQKESTLHLVLRLRGGAXXXXXXXXXXXXXXXXXXXXXXLAVLQFYKVDDSGKVQRLRKE 120
             IQKESTLHLVLRLRGGA                      LAVL++YKVD++GK+ RLR+E
Sbjct:    61 IQKESTLHLVLRLRGGAKKRKKKSYTTPKKNKHKRKKVKLAVLKYYKVDENGKISRLRRE 120

Query:   121 CPNAECGAGTFMASHFDRHYC 141
             CP+ ECGAG FMASHFDRHYC
Sbjct:   121 CPSDECGAGVFMASHFDRHYC 141

GO:0005634 "nucleus" evidence=IEA

GO:0022627 "cytosolic small ribosomal subunit" evidence=IEA

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

GO:0046872 "metal ion binding" evidence=IEA

GO:0006412 "translation" evidence=IEA

UNIPROTKB|F1PEZ4 RPS27A "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 544 (196.6 bits), Expect = 1.7e-52, P = 1.7e-52
 Identities = 106/141 (75%), Positives = 115/141 (81%)

Query:     1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
             MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct:     1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query:    61 IQKESTLHLVLRLRGGAXXXXXXXXXXXXXXXXXXXXXXLAVLQFYKVDDSGKVQRLRKE 120
             IQKESTLHLVLRLRGGA                      LAVL++YKVD++GK+ RLR+E
Sbjct:    61 IQKESTLHLVLRLRGGAKKRKKKSYTTPKKNKHKRKKVKLAVLKYYKVDENGKISRLRRE 120

Query:   121 CPNAECGAGTFMASHFDRHYC 141
             CP+ ECGAG FMASHFDRHYC
Sbjct:   121 CPSDECGAGVFMASHFDRHYC 141

GO:0022627 "cytosolic small ribosomal subunit" evidence=IEA

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

GO:0006412 "translation" evidence=IEA

UNIPROTKB|P62979 RPS27A "Ubiquitin-40S ribosomal protein S27a" [Homo sapiens (taxid:9606)]

 Score = 544 (196.6 bits), Expect = 1.7e-52, P = 1.7e-52
 Identities = 106/141 (75%), Positives = 115/141 (81%)

Query:     1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
             MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct:     1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query:    61 IQKESTLHLVLRLRGGAXXXXXXXXXXXXXXXXXXXXXXLAVLQFYKVDDSGKVQRLRKE 120
             IQKESTLHLVLRLRGGA                      LAVL++YKVD++GK+ RLR+E
Sbjct:    61 IQKESTLHLVLRLRGGAKKRKKKSYTTPKKNKHKRKKVKLAVLKYYKVDENGKISRLRRE 120

Query:   121 CPNAECGAGTFMASHFDRHYC 141
             CP+ ECGAG FMASHFDRHYC
Sbjct:   121 CPSDECGAGVFMASHFDRHYC 141

GO:0046872 "metal ion binding" evidence=IEA

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

GO:0022627 "cytosolic small ribosomal subunit" evidence=IDA

GO:0015935 "small ribosomal subunit" evidence=IDA

GO:0006412 "translation" evidence=IC;TAS

GO:0000075 "cell cycle checkpoint" evidence=TAS

GO:0000080 "G1 phase of mitotic cell cycle" evidence=TAS

GO:0000082 "G1/S transition of mitotic cell cycle" evidence=TAS

GO:0000084 "S phase of mitotic cell cycle" evidence=TAS

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=TAS

GO:0000184 "nuclear-transcribed mRNA catabolic process, nonsense-mediated decay" evidence=TAS

GO:0000187 "activation of MAPK activity" evidence=TAS

GO:0000209 "protein polyubiquitination" evidence=TAS

GO:0000216 "M/G1 transition of mitotic cell cycle" evidence=TAS

GO:0000278 "mitotic cell cycle" evidence=TAS

GO:0002224 "toll-like receptor signaling pathway" evidence=TAS

GO:0002474 "antigen processing and presentation of peptide antigen via MHC class I" evidence=TAS

GO:0002479 "antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent" evidence=TAS

GO:0002755 "MyD88-dependent toll-like receptor signaling pathway" evidence=TAS

GO:0002756 "MyD88-independent toll-like receptor signaling pathway" evidence=TAS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

GO:0005886 "plasma membrane" evidence=TAS

GO:0006281 "DNA repair" evidence=TAS

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

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=TAS

GO:0006413 "translational initiation" evidence=TAS

GO:0006414 "translational elongation" evidence=TAS

GO:0006415 "translational termination" evidence=TAS

GO:0006614 "SRP-dependent cotranslational protein targeting to membrane" evidence=TAS

GO:0006915 "apoptotic process" evidence=TAS

GO:0006977 "DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest" evidence=TAS

GO:0007173 "epidermal growth factor receptor signaling pathway" evidence=TAS

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

GO:0007219 "Notch signaling pathway" evidence=TAS

GO:0007220 "Notch receptor processing" evidence=TAS

GO:0007249 "I-kappaB kinase/NF-kappaB cascade" evidence=TAS

GO:0007254 "JNK cascade" evidence=TAS

GO:0008063 "Toll signaling pathway" evidence=TAS

GO:0008543 "fibroblast growth factor receptor signaling pathway" evidence=TAS

GO:0010008 "endosome membrane" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0016032 "viral reproduction" evidence=TAS

GO:0016044 "cellular membrane organization" evidence=TAS

GO:0016070 "RNA metabolic process" evidence=TAS

GO:0016071 "mRNA metabolic process" evidence=TAS

GO:0016197 "endosomal transport" evidence=TAS

GO:0019058 "viral infectious cycle" evidence=TAS

GO:0019083 "viral transcription" evidence=TAS

GO:0019221 "cytokine-mediated signaling pathway" evidence=TAS

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

GO:0030666 "endocytic vesicle membrane" evidence=TAS

GO:0031145 "anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process" evidence=TAS

GO:0032480 "negative regulation of type I interferon production" evidence=TAS

GO:0033554 "cellular response to stress" evidence=TAS

GO:0034130 "toll-like receptor 1 signaling pathway" evidence=TAS

GO:0034134 "toll-like receptor 2 signaling pathway" evidence=TAS

GO:0034138 "toll-like receptor 3 signaling pathway" evidence=TAS

GO:0034142 "toll-like receptor 4 signaling pathway" evidence=TAS

GO:0035666 "TRIF-dependent toll-like receptor signaling pathway" evidence=TAS

GO:0035872 "nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway" evidence=TAS

GO:0042059 "negative regulation of epidermal growth factor receptor signaling pathway" evidence=TAS

GO:0042590 "antigen processing and presentation of exogenous peptide antigen via MHC class I" evidence=TAS

GO:0042981 "regulation of apoptotic process" evidence=TAS

GO:0043123 "positive regulation of I-kappaB kinase/NF-kappaB cascade" evidence=TAS

GO:0044267 "cellular protein metabolic process" evidence=TAS

GO:0045087 "innate immune response" evidence=TAS

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=TAS

GO:0046788 "egress of virus within host cell" evidence=TAS

GO:0048011 "neurotrophin TRK receptor signaling pathway" evidence=TAS

GO:0050852 "T cell receptor signaling pathway" evidence=TAS

GO:0051092 "positive regulation of NF-kappaB transcription factor activity" evidence=TAS

GO:0051403 "stress-activated MAPK cascade" evidence=TAS

GO:0051436 "negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle" evidence=TAS

GO:0051437 "positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle" evidence=TAS

GO:0051439 "regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle" evidence=TAS

GO:0061418 "regulation of transcription from RNA polymerase II promoter in response to hypoxia" evidence=TAS

GO:0070423 "nucleotide-binding oligomerization domain containing signaling pathway" evidence=TAS

GO:0071456 "cellular response to hypoxia" evidence=TAS

UNIPROTKB|F2Z5U0 RPS27A "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 544 (196.6 bits), Expect = 1.7e-52, P = 1.7e-52
 Identities = 106/141 (75%), Positives = 115/141 (81%)

Query:     1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
             MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct:     1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query:    61 IQKESTLHLVLRLRGGAXXXXXXXXXXXXXXXXXXXXXXLAVLQFYKVDDSGKVQRLRKE 120
             IQKESTLHLVLRLRGGA                      LAVL++YKVD++GK+ RLR+E
Sbjct:    61 IQKESTLHLVLRLRGGAKKRKKKSYTTPKKNKHKRKKVKLAVLKYYKVDENGKISRLRRE 120

Query:   121 CPNAECGAGTFMASHFDRHYC 141
             CP+ ECGAG FMASHFDRHYC
Sbjct:   121 CPSDECGAGVFMASHFDRHYC 141

GO:0022627 "cytosolic small ribosomal subunit" evidence=IEA

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

GO:0006412 "translation" evidence=IEA

ZFIN|ZDB-GENE-030131-10018 rps27a "ribosomal protein S27a" [Danio rerio (taxid:7955)]

 Score = 541 (195.5 bits), Expect = 3.5e-52, P = 3.5e-52
 Identities = 106/141 (75%), Positives = 114/141 (80%)

Query:     1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
             MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct:    17 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 76

Query:    61 IQKESTLHLVLRLRGGAXXXXXXXXXXXXXXXXXXXXXXLAVLQFYKVDDSGKVQRLRKE 120
             IQKESTLHLVLRLRGGA                      LAVL++YKVD++GK+ RLR+E
Sbjct:    77 IQKESTLHLVLRLRGGAKKRKKKSYTTPKKNKHKRKKVKLAVLKYYKVDENGKIHRLRRE 136

Query:   121 CPNAECGAGTFMASHFDRHYC 141
             CP  ECGAG FMASHFDRHYC
Sbjct:   137 CPADECGAGVFMASHFDRHYC 157

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

GO:0006412 "translation" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

MGI|MGI:1925544 Rps27a "ribosomal protein S27A" [Mus musculus (taxid:10090)]

 Score = 540 (195.1 bits), Expect = 4.4e-52, P = 4.4e-52
 Identities = 105/141 (74%), Positives = 114/141 (80%)

Query:     1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
             MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct:     1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query:    61 IQKESTLHLVLRLRGGAXXXXXXXXXXXXXXXXXXXXXXLAVLQFYKVDDSGKVQRLRKE 120
             IQKESTLHLVLRLRGGA                      LAVL++YKVD++GK+ RLR+E
Sbjct:    61 IQKESTLHLVLRLRGGAKKRKKKSYTTPKKNKHKRKKVKLAVLKYYKVDENGKISRLRRE 120

Query:   121 CPNAECGAGTFMASHFDRHYC 141
             CP+ ECGAG FM SHFDRHYC
Sbjct:   121 CPSDECGAGVFMGSHFDRHYC 141

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

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0015935 "small ribosomal subunit" evidence=ISO

GO:0022627 "cytosolic small ribosomal subunit" evidence=ISO

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P0CH34	RL40A_ORYSJ	No assigned EC number	1.0	0.5241	0.5891	no	no
P0CG83	UBIQP_HORVU	No assigned EC number	0.9743	0.5379	0.4561	N/A	no
P0CG84	UBI4P_NICSY	No assigned EC number	0.9743	0.5379	0.2068	N/A	no
P0CG85	UBI1P_NICSY	No assigned EC number	0.9743	0.5379	0.1706	N/A	no
P0CG86	RS271_HORVU	No assigned EC number	0.9507	0.9724	0.9096	N/A	no
P0CG87	RS272_HORVU	No assigned EC number	0.9577	0.9724	0.9096	N/A	no
P68202	RS27A_PLUXY	No assigned EC number	0.8581	0.9724	0.9096	N/A	no
P68203	RS27A_SPOFR	No assigned EC number	0.8581	0.9724	0.9038	N/A	no
P62978	RS27A_CAVPO	No assigned EC number	0.8794	0.9724	0.9038	yes	no
P62979	RS27A_HUMAN	No assigned EC number	0.8794	0.9724	0.9038	yes	no
P69322	UBIQP_PEA	No assigned EC number	0.9743	0.5379	0.2047	N/A	no
P14799	RS27A_NEUCR	No assigned EC number	0.8510	0.9724	0.9155	N/A	no
P05759	RS27A_YEAST	No assigned EC number	0.8510	0.9724	0.9276	yes	no
P14797	RS27A_DICDI	No assigned EC number	0.7676	0.9724	0.9155	yes	no
P62992	RS27A_BOVIN	No assigned EC number	0.8794	0.9724	0.9038	yes	no
P69315	UBIQP_LINUS	No assigned EC number	0.9743	0.5379	0.2557	N/A	no
P0CH05	UBI2P_PETCR	No assigned EC number	0.9743	0.5379	0.1703	N/A	no
P0CH04	UBI1P_PETCR	No assigned EC number	0.9743	0.5379	0.1703	N/A	no
P0C8R3	RS27B_SCHPO	No assigned EC number	0.8652	0.9586	0.9266	yes	no
P51431	R27AB_ORYSJ	No assigned EC number	0.9507	0.9724	0.9096	yes	no
P68200	RS27A_ICTPU	No assigned EC number	0.8794	0.9724	0.9038	N/A	no
P0C073	RUB1_DESAN	No assigned EC number	0.9870	0.5310	0.5032	N/A	no
P29504	RS27A_MANSE	No assigned EC number	0.8581	0.9724	0.9096	N/A	no
P47905	RS27A_LUPAL	No assigned EC number	0.9787	0.9724	0.9096	N/A	no
P31753	RS27A_ASPOF	No assigned EC number	0.9619	0.7241	0.8898	N/A	no
P69309	UBIQP_AVEFA	No assigned EC number	0.9743	0.5379	0.2557	N/A	no
P27923	RS27A_MAIZE	No assigned EC number	0.9507	0.9724	0.9096	N/A	no
P0CH35	RL40B_ORYSJ	No assigned EC number	1.0	0.5241	0.5891	no	no
P79781	RS27A_CHICK	No assigned EC number	0.8794	0.9724	0.9038	yes	no
P69061	RS27A_KLULA	No assigned EC number	0.8581	0.9586	0.9266	yes	no
Q9ARZ9	R27AA_ORYSJ	No assigned EC number	0.9577	0.9724	0.9096	yes	no
P59272	RS27A_DAUCA	No assigned EC number	0.9503	0.9724	0.9860	N/A	no
P59271	R27AA_ARATH	No assigned EC number	0.9432	0.9724	0.9038	yes	no
P15357	RS27A_DROME	No assigned EC number	0.8581	0.9724	0.9038	yes	no
P62983	RS27A_MOUSE	No assigned EC number	0.8723	0.9724	0.9038	yes	no
P62982	RS27A_RAT	No assigned EC number	0.8723	0.9724	0.9038	yes	no
P62981	RS27A_SOLTU	No assigned EC number	0.9858	0.9724	0.9038	N/A	no
P62980	RS27A_SOLLC	No assigned EC number	0.9858	0.9724	0.9038	N/A	no
P51423	RL40_BRARA	No assigned EC number	1.0	0.5241	0.5937	N/A	no
P59233	R27AC_ARATH	No assigned EC number	0.9716	0.9724	0.8980	no	no
P59232	R27AB_ARATH	No assigned EC number	0.9787	0.9724	0.8980	no	no
P0C016	RS27A_SCHPO	No assigned EC number	0.8652	0.9586	0.9266	yes	no

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	145
cd01803	76	cd01803, Ubiquitin, Ubiquitin	2e-50
smart00213	72	smart00213, UBQ, Ubiquitin homologues	2e-31
pfam00240	69	pfam00240, ubiquitin, Ubiquitin family	3e-31
cd01806	76	cd01806, Nedd8, Nebb8-like ubiquitin protein	2e-29
cd01769	69	cd01769, UBL, Ubiquitin-like domain of UBL	7e-27
PTZ00044	76	PTZ00044, PTZ00044, ubiquitin; Provisional	3e-24
pfam01599	47	pfam01599, Ribosomal_S27, Ribosomal protein S27a	5e-21
cd01802	103	cd01802, AN1_N, ubiquitin-like domain of AN1	7e-20
pfam11976	72	pfam11976, Rad60-SLD, Ubiquitin-2 like Rad60 SUMO-	1e-19
cd01793	74	cd01793, Fubi, Fubi ubiquitin-like protein	1e-15
cd01805	77	cd01805, RAD23_N, Ubiquitin-like domain of RAD23	2e-15
cd01809	72	cd01809, Scythe_N, Ubiquitin-like domain of Scythe	3e-15
cd01798	70	cd01798, parkin_N, amino-terminal ubiquitin-like o	3e-14
cd00196	69	cd00196, UBQ, Ubiquitin-like proteins	3e-14
cd01800	76	cd01800, SF3a120_C, Ubiquitin-like domain of Mamma	5e-13
cd01807	74	cd01807, GDX_N, ubiquitin-like domain of GDX	9e-13
cd01797	78	cd01797, NIRF_N, amino-terminal ubiquitin-like dom	3e-12
TIGR00601	378	TIGR00601, rad23, UV excision repair protein Rad23	5e-11
cd01810	74	cd01810, ISG15_repeat2, ISG15 ubiquitin-like prote	1e-10
COG1998	51	COG1998, RPS31, Ribosomal protein S27AE [Translati	2e-10
COG5272	57	COG5272, UBI4, Ubiquitin [Posttranslational modifi	8e-10
cd01794	70	cd01794, DC_UbP_C, dendritic cell derived ubiquiti	4e-07
cd01796	71	cd01796, DDI1_N, DNA damage inducible protein 1 ub	5e-07
cd01812	71	cd01812, BAG1_N, Ubiquitin-like domain of BAG1	3e-06
pfam13881	111	pfam13881, Rad60-SLD_2, Ubiquitin-2 like Rad60 SUM	4e-06
cd01808	71	cd01808, hPLIC_N, Ubiquitin-like domain of hPLIC-1	5e-06
cd01792	80	cd01792, ISG15_repeat1, ISG15 ubiquitin-like prote	6e-06
PRK00432	50	PRK00432, PRK00432, 30S ribosomal protein S27ae; V	2e-05
cd01804	78	cd01804, midnolin_N, Ubiquitin-like domain of midn	9e-05
cd01799	75	cd01799, Hoil1_N, Ubiquitin-like domain of HOIL1	8e-04
pfam13019	163	pfam13019, Telomere_Sde2, Telomere stability and s	0.002

>gnl|CDD|176398 cd01803, Ubiquitin, Ubiquitin

 Score =  155 bits (393), Expect = 2e-50
 Identities = 73/76 (96%), Positives = 75/76 (98%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76

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

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

 Score =  106 bits (268), Expect = 2e-31
 Identities = 47/72 (65%), Positives = 57/72 (79%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          +++ VKTL GKTITLEV+ SDT+  +K KI +  GIPP+QQRLI+ GK LED RTLADY 
Sbjct: 1  IELTVKTLDGKTITLEVKPSDTVSELKEKIAELTGIPPEQQRLIYKGKVLEDDRTLADYG 60

Query: 61 IQKESTLHLVLR 72
          IQ  ST+HLVLR
Sbjct: 61 IQDGSTIHLVLR 72

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

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

 Score =  106 bits (266), Expect = 3e-31
 Identities = 50/69 (72%), Positives = 57/69 (82%)

Query: 6  KTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKES 65
          KTL GKTITLEV+ SDT+  +K KI+DKEGIP DQQRLIF+GK LED  TL++Y IQ  S
Sbjct: 1  KTLDGKTITLEVDPSDTVSELKEKIEDKEGIPVDQQRLIFSGKVLEDDTTLSEYGIQDGS 60

Query: 66 TLHLVLRLR 74
          TLHLVLRLR
Sbjct: 61 TLHLVLRLR 69

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|176401 cd01806, Nedd8, Nebb8-like ubiquitin protein

 Score =  101 bits (254), Expect = 2e-29
 Identities = 42/76 (55%), Positives = 59/76 (77%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          M I VKTLTGK I +++E +D ++ +K ++++KEGIPP QQRLI++GKQ+ D +T ADY 
Sbjct: 1  MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDDKTAADYK 60

Query: 61 IQKESTLHLVLRLRGG 76
          ++  S LHLVL LRGG
Sbjct: 61 LEGGSVLHLVLALRGG 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 = 95.0 bits (237), Expect = 7e-27
 Identities = 46/69 (66%), Positives = 54/69 (78%)

Query: 4  FVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQK 63
           VKTLTGKT  LEV   DT+  +KAKI  KEG+PP+QQRLI+AGK L+D +TL+DY IQ 
Sbjct: 1  TVKTLTGKTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKILKDDKTLSDYGIQD 60

Query: 64 ESTLHLVLR 72
           STLHLVLR
Sbjct: 61 GSTLHLVLR 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

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

 Score = 88.7 bits (220), Expect = 3e-24
 Identities = 38/76 (50%), Positives = 52/76 (68%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQI +KTLTGK  +   E  +T+  VK  +Q+KEGI   Q RLI++GKQ+ D   L+DY 
Sbjct: 1  MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYSGKQMSDDLKLSDYK 60

Query: 61 IQKESTLHLVLRLRGG 76
          +   ST+H+VL+LRGG
Sbjct: 61 VVPGSTIHMVLQLRGG 76

Length = 76

>gnl|CDD|110592 pfam01599, Ribosomal_S27, Ribosomal protein S27a

 Score = 79.8 bits (197), Expect = 5e-21
 Identities = 29/41 (70%), Positives = 32/41 (78%)

Query: 101 AVLQFYKVDDSGKVQRLRKECPNAECGAGTFMASHFDRHYC 141
           AVL++YKVD  GKV RLR+ECPN  CGAG FMA H DR YC
Sbjct: 1   AVLKYYKVDGEGKVVRLRRECPNPRCGAGVFMAEHKDRQYC 41

This family of ribosomal proteins consists mainly of the 40S ribosomal protein S27a which is synthesised as a C-terminal extension of ubiquitin (CEP). The S27a domain compromises the C-terminal half of the protein. The synthesis of ribosomal proteins as extensions of ubiquitin promotes their incorporation into nascent ribosomes by a transient metabolic stabilisation and is required for efficient ribosome biogenesis. The ribosomal extension protein S27a contains a basic region that is proposed to form a zinc finger; its fusion gene is proposed as a mechanism to maintain a fixed ratio between ubiquitin necessary for degrading proteins and ribosomes a source of proteins. Length = 47

>gnl|CDD|176397 cd01802, AN1_N, ubiquitin-like domain of AN1

 Score = 78.4 bits (193), Expect = 7e-20
 Identities = 39/76 (51%), Positives = 50/76 (65%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           M++F++TLTG    L V   +T+ +VKAKIQ  EGIP  QQ LI+   +LED   L DYN
Sbjct: 28  MELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIWNNMELEDEYCLNDYN 87

Query: 61  IQKESTLHLVLRLRGG 76
           I +  TL LVL +RGG
Sbjct: 88  ISEGCTLKLVLAMRGG 103

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. Length = 103

>gnl|CDD|192903 pfam11976, Rad60-SLD, Ubiquitin-2 like Rad60 SUMO-like

 Score = 76.8 bits (190), Expect = 1e-19
 Identities = 26/72 (36%), Positives = 46/72 (63%), Gaps = 1/72 (1%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQ-RLIFAGKQLEDGRTLADY 59
          ++I +K   GK + ++V+ + T+  +    + K GIP DQQ RLIF G++L+   T+ADY
Sbjct: 1  IRIKLKGKDGKEVFIKVKPTTTLSKLINAYRKKRGIPADQQVRLIFDGERLDPNDTVADY 60

Query: 60 NIQKESTLHLVL 71
          +I+   T+ +V+
Sbjct: 61 DIEDGDTIDVVI 72

The small ubiquitin-related modifier SUMO-1 is a Ub/Ubl family member, and although SUMO-1 shares structural similarity to Ub, SUMO's cellular functions remain distinct insomuch as SUMO modification alters protein function through changes in activity, cellular localisation, or by protecting substrates from ubiquitination. Rad60 family members contain functionally enigmatic, integral SUMO-like domains (SLDs). Despite their divergence from SUMO, each Rad60 SLD interacts with a subset of SUMO pathway enzymes: SLD2 specifically binds the SUMO E2 conjugating enzyme (Ubc9)), whereas SLD1 binds the SUMO E1 (Fub2, also called Uba2) activating and E3 (Pli1, also called Siz1 and Siz2) specificity enzymes. Structural analysis of PDB:2uyz reveals a mechanistic basis for the near-synonymous roles of Rad60 and SUMO in survival of genotoxic stress and suggest unprecedented DNA-damage-response functions for SLDs in regulating SUMOylation. The Rad60 branch of this family is also known as RENi (Rad60-Esc2-Nip45), and biologically it should be two distinct families SUMO and RENi (Rad60-Esc2-Nip45). Length = 72

>gnl|CDD|176388 cd01793, Fubi, Fubi ubiquitin-like protein

 Score = 66.7 bits (163), Expect = 1e-15
 Identities = 30/76 (39%), Positives = 43/76 (56%), Gaps = 2/76 (2%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQ+FV+     T TLEV   +T+ ++KA +   EGI  + Q L+ AG  LED  TL    
Sbjct: 1  MQLFVRAQ--NTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLAGVPLEDDATLGQCG 58

Query: 61 IQKESTLHLVLRLRGG 76
          +++  TL +  RL GG
Sbjct: 59 VEELCTLEVAGRLLGG 74

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. Length = 74

>gnl|CDD|176400 cd01805, RAD23_N, Ubiquitin-like domain of RAD23

 Score = 66.2 bits (162), Expect = 2e-15
 Identities = 28/63 (44%), Positives = 44/63 (69%), Gaps = 2/63 (3%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG--IPPDQQRLIFAGKQLEDGRTLAD 58
          M+I  KTL  +T  +EV+  DT+  +K KI++++G   PP+QQ+LI++GK L+D  TL +
Sbjct: 1  MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKDDTTLEE 60

Query: 59 YNI 61
          Y I
Sbjct: 61 YKI 63

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). Length = 77

>gnl|CDD|176404 cd01809, Scythe_N, Ubiquitin-like domain of Scythe protein

 Score = 65.7 bits (161), Expect = 3e-15
 Identities = 32/72 (44%), Positives = 50/72 (69%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          ++I VKTL  +T T  VE   T+ ++K KI ++ GIP +QQRLI++G+ L+D  TL++Y 
Sbjct: 1  IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYSGRVLKDDETLSEYK 60

Query: 61 IQKESTLHLVLR 72
          ++   T+HLV R
Sbjct: 61 VEDGHTIHLVKR 72

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. Length = 72

>gnl|CDD|176393 cd01798, parkin_N, amino-terminal ubiquitin-like of parkin protein

 Score = 62.8 bits (153), Expect = 3e-14
 Identities = 27/70 (38%), Positives = 46/70 (65%)

Query: 3  IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQ 62
          ++V+T TG T  +EV+    I  +K  +  ++G+PPDQ R+IFAGK+L +  T+ + ++ 
Sbjct: 1  VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVIFAGKELRNTTTIQECDLG 60

Query: 63 KESTLHLVLR 72
          ++S LH V R
Sbjct: 61 QQSILHAVRR 70

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. Length = 70

>gnl|CDD|176352 cd00196, UBQ, Ubiquitin-like proteins

 Score = 62.9 bits (153), Expect = 3e-14
 Identities = 32/69 (46%), Positives = 41/69 (59%)

Query: 4  FVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQK 63
           VK   GKT+ L V S  T+ ++K K+  K G+PP+QQRL+  GK L D  TL DY +Q 
Sbjct: 1  KVKLNDGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSLTLEDYGLQD 60

Query: 64 ESTLHLVLR 72
             L LV R
Sbjct: 61 GDELVLVPR 69

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. Length = 69

>gnl|CDD|176395 cd01800, SF3a120_C, Ubiquitin-like domain of Mammalian splicing factor SF3a_120

 Score = 59.8 bits (145), Expect = 5e-13
 Identities = 25/72 (34%), Positives = 44/72 (61%)

Query: 8  LTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTL 67
          L G+ +   ++ SD +  +K KI ++ G+P  +Q+L + G  ++D  +LA YN+   + +
Sbjct: 5  LNGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGIFIKDSNSLAYYNLANGTII 64

Query: 68 HLVLRLRGGAKK 79
          HL L+ RGG KK
Sbjct: 65 HLQLKERGGRKK 76

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. Length = 76

>gnl|CDD|176402 cd01807, GDX_N, ubiquitin-like domain of GDX

 Score = 59.1 bits (143), Expect = 9e-13
 Identities = 26/72 (36%), Positives = 45/72 (62%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          M + VK L G+  +L+V   +++  +K  + +   +P +QQRL+F GK L D + L+DY+
Sbjct: 1  MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGKALADDKRLSDYS 60

Query: 61 IQKESTLHLVLR 72
          I   + L+LV+R
Sbjct: 61 IGPNAKLNLVVR 72

GDX contains an N-terminal ubiquitin-like domain as well as an uncharacterized c-terminal domain. The function of GDX is unknown. Length = 74

>gnl|CDD|176392 cd01797, NIRF_N, amino-terminal ubiquitin-like domain of Np95 and NIRF

 Score = 57.9 bits (140), Expect = 3e-12
 Identities = 30/74 (40%), Positives = 47/74 (63%), Gaps = 2/74 (2%)

Query: 1  MQIFVKTLTGK-TITLEVESSDT-IDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLAD 58
          M I V+T+ GK T T++  S  T ++ ++ KIQ+   + P+ QRL + GKQ+EDG TL D
Sbjct: 1  MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEPECQRLFYRGKQMEDGHTLFD 60

Query: 59 YNIQKESTLHLVLR 72
          YN+     + L++R
Sbjct: 61 YNVGLNDIIQLLVR 74

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. Length = 78

>gnl|CDD|233045 TIGR00601, rad23, UV excision repair protein Rad23

 Score = 58.8 bits (142), Expect = 5e-11
 Identities = 22/64 (34%), Positives = 39/64 (60%), Gaps = 3/64 (4%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLA 57
          M +  KTL  +   +++E  +T+  +K KI+ ++G    P  QQ+LI++GK L D +T+ 
Sbjct: 1  MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDDKTVK 60

Query: 58 DYNI 61
          +Y I
Sbjct: 61 EYKI 64

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) [DNA metabolism, DNA replication, recombination, and repair]. Length = 378

>gnl|CDD|176405 cd01810, ISG15_repeat2, ISG15 ubiquitin-like protein, second repeat of 2

 Score = 53.7 bits (129), Expect = 1e-10
 Identities = 24/74 (32%), Positives = 42/74 (56%)

Query: 3  IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQ 62
          I V+   G++   EV+ + T+  +K ++  +E +  DQ  L F G+ +ED   L +Y ++
Sbjct: 1  ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRERVQADQFWLSFEGRPMEDEHPLGEYGLK 60

Query: 63 KESTLHLVLRLRGG 76
             T+ + LRLRGG
Sbjct: 61 PGCTVFMNLRLRGG 74

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. Length = 74

>gnl|CDD|224909 COG1998, RPS31, Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]

 Score = 52.8 bits (127), Expect = 2e-10
 Identities = 23/43 (53%), Positives = 29/43 (67%), Gaps = 3/43 (6%)

Query: 99  KLAVLQFYKVDDSGKVQRLRKECPNAECGAGTFMASHFDRHYC 141
           K+AVL++Y+VDD  KV+R  + CP   CG G FMA H DR  C
Sbjct: 1   KMAVLKYYEVDD-EKVKRKNRFCPR--CGPGVFMADHKDRWAC 40

Length = 51

>gnl|CDD|227597 COG5272, UBI4, Ubiquitin [Posttranslational modification, protein turnover, chaperones]

 Score = 51.4 bits (123), Expect = 8e-10
 Identities = 10/56 (17%), Positives = 19/56 (33%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL 56
              +K  TG     E + +   D    K   ++    ++  L+   + LE  R  
Sbjct: 1  DAKPIKKATGGAAKPESQLAKAKDTRPEKQYAEQDSQLNEMALMDCERNLEASRIS 56

Length = 57

>gnl|CDD|176389 cd01794, DC_UbP_C, dendritic cell derived ubiquitin-like protein

 Score = 44.5 bits (105), Expect = 4e-07
 Identities = 25/67 (37%), Positives = 39/67 (58%)

Query: 5  VKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKE 64
          V+  TGK + L V S DT+  +K ++Q  EG+ P  QR  F+GK L D   L +  IQK+
Sbjct: 3  VRLSTGKDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWFFSGKLLTDKTRLQETKIQKD 62

Query: 65 STLHLVL 71
            + +++
Sbjct: 63 YVVQVIV 69

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. Length = 70

>gnl|CDD|176391 cd01796, DDI1_N, DNA damage inducible protein 1 ubiquitin-like domain

 Score = 44.3 bits (105), Expect = 5e-07
 Identities = 19/54 (35%), Positives = 34/54 (62%), Gaps = 1/54 (1%)

Query: 10 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLADYNIQ 62
            T +L+V+    ++N KA  + + GIP  QQ+LI+ G++L ++ R LA Y ++
Sbjct: 9  ETTFSLDVDPDLELENFKALCEAESGIPASQQQLIYNGRELVDNKRLLALYGVK 62

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. Length = 71

>gnl|CDD|176407 cd01812, BAG1_N, Ubiquitin-like domain of BAG1

 Score = 42.3 bits (100), Expect = 3e-06
 Identities = 18/61 (29%), Positives = 32/61 (52%)

Query: 10 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHL 69
          G++  L + S  T  ++K  +    G+ P  Q+LIF GK+ +D  TL    ++  S + L
Sbjct: 9  GESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGKERDDAETLDMSGVKDGSKVML 68

Query: 70 V 70
          +
Sbjct: 69 L 69

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). Length = 71

>gnl|CDD|206052 pfam13881, Rad60-SLD_2, Ubiquitin-2 like Rad60 SUMO-like

 Score = 42.7 bits (101), Expect = 4e-06
 Identities = 24/88 (27%), Positives = 42/88 (47%), Gaps = 14/88 (15%)

Query: 18  ESSDTIDNVKAKI-----QDKEGIP--PDQQRLIFAGKQLEDGRTLADYNI------QKE 64
             + T+ ++K K+     +DKE  P  P+  +LI AGK LE+ +TL +  +         
Sbjct: 21  SPATTVADLKEKVLAQWPKDKEEGPKSPNDVKLINAGKILENNKTLGECRLPAGETPGGV 80

Query: 65  STLHLVLRLRGGAKKRKKKTYTKPKKIK 92
             +H+V+R     +   +K   KPK+  
Sbjct: 81  IVMHVVVR-PPLPEPNSEKKRNKPKQTG 107

Length = 111

>gnl|CDD|176403 cd01808, hPLIC_N, Ubiquitin-like domain of hPLIC-1 and hPLIC2

 Score = 41.7 bits (98), Expect = 5e-06
 Identities = 24/72 (33%), Positives = 40/72 (55%), Gaps = 1/72 (1%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          +++ VKT   K   +E+    ++ + K  +  K     +Q  LIFAGK L+D  TL  +N
Sbjct: 1  IKVTVKTPKDKE-EIEIAEDASVKDFKEAVSKKFKANQEQLVLIFAGKILKDTDTLTQHN 59

Query: 61 IQKESTLHLVLR 72
          I+   T+HLV++
Sbjct: 60 IKDGLTVHLVIK 71

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. Length = 71

>gnl|CDD|176387 cd01792, ISG15_repeat1, ISG15 ubiquitin-like protein, first repeat of 2

 Score = 41.4 bits (97), Expect = 6e-06
 Identities = 23/70 (32%), Positives = 35/70 (50%), Gaps = 2/70 (2%)

Query: 5  VKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFA--GKQLEDGRTLADYNIQ 62
          VK L G    + +  S T+  +K +I  K G+P  QQRL      + L+DG  L    + 
Sbjct: 7  VKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDGVPLVSQGLG 66

Query: 63 KESTLHLVLR 72
            ST+ LV++
Sbjct: 67 PGSTVLLVVQ 76

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. Length = 80

>gnl|CDD|234760 PRK00432, PRK00432, 30S ribosomal protein S27ae; Validated

 Score = 39.6 bits (93), Expect = 2e-05
 Identities = 22/43 (51%), Positives = 29/43 (67%), Gaps = 4/43 (9%)

Query: 99  KLAVLQFYKVDDSGKVQRLRKECPNAECGAGTFMASHFDRHYC 141
           K+A  ++Y+VD  GKV+R  K CP   CG+G FMA H DR +C
Sbjct: 2   KMAKREYYEVDG-GKVKRKNKFCP--RCGSG-FMAEHLDRWHC 40

Length = 50

>gnl|CDD|176399 cd01804, midnolin_N, Ubiquitin-like domain of midnolin

 Score = 38.2 bits (89), Expect = 9e-05
 Identities = 18/70 (25%), Positives = 33/70 (47%), Gaps = 1/70 (1%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          M + + + TG    L V   +T++ +K +I  +  +P ++  L+    +L  G  L D  
Sbjct: 2  MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHRETRLSSG-KLQDLG 60

Query: 61 IQKESTLHLV 70
          +   S L LV
Sbjct: 61 LGDGSKLTLV 70

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. Length = 78

>gnl|CDD|176394 cd01799, Hoil1_N, Ubiquitin-like domain of HOIL1

 Score = 36.0 bits (83), Expect = 8e-04
 Identities = 16/51 (31%), Positives = 23/51 (45%)

Query: 12 TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQ 62
          TI L V    T+  +K K+    G PP  QR +   +   D  TL  + I+
Sbjct: 14 TIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRWVIGQRLARDQETLYSHGIR 64

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. Length = 75

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

 Score = 36.3 bits (84), Expect = 0.002
 Identities = 18/87 (20%), Positives = 34/87 (39%), Gaps = 11/87 (12%)

Query: 1  MQIFVKTLTG----KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRL--IFAGKQL--ED 52
          + + V +  G     T++L + S+ T+ ++  K+  +       Q +    + +QL    
Sbjct: 1  INVLVSSFPGLGLPPTLSLTLPSTATVSDLIDKLSRRLPESLTSQLILTTTSNRQLSPSS 60

Query: 53 GRTLADYNIQKEST---LHLVLRLRGG 76
             L+        T   L L  RL GG
Sbjct: 61 DLPLSSLLSSSADTFLSLRLSPRLCGG 87

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	145
KOG0004	156	consensus Ubiquitin/40S ribosomal protein S27a fus	100.0
PF01599	47	Ribosomal_S27: Ribosomal protein S27a; InterPro: I	99.95
COG1998	51	RPS31 Ribosomal protein S27AE [Translation, riboso	99.89
cd01793	74	Fubi Fubi ubiquitin-like protein. Fubi is a ubiqui	99.88
PTZ00044	76	ubiquitin; Provisional	99.88
cd01807	74	GDX_N ubiquitin-like domain of GDX. GDX contains a	99.87
cd01803	76	Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40	99.87
cd01802	103	AN1_N ubiquitin-like domain of AN1. AN1 (also know	99.87
cd01806	76	Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also kn	99.86
cd01810	74	ISG15_repeat2 ISG15 ubiquitin-like protein, second	99.85
cd01804	78	midnolin_N Ubiquitin-like domain of midnolin. midn	99.85
cd01797	78	NIRF_N amino-terminal ubiquitin-like domain of Np9	99.84
cd01791	73	Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also know	99.83
cd01805	77	RAD23_N Ubiquitin-like domain of RAD23. RAD23 belo	99.82
cd01800	76	SF3a120_C Ubiquitin-like domain of Mammalian splic	99.81
cd01809	72	Scythe_N Ubiquitin-like domain of Scythe protein.	99.81
cd01794	70	DC_UbP_C dendritic cell derived ubiquitin-like pro	99.81
cd01798	70	parkin_N amino-terminal ubiquitin-like of parkin p	99.8
cd01792	80	ISG15_repeat1 ISG15 ubiquitin-like protein, first	99.8
cd01808	71	hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC	99.78
PF00240	69	ubiquitin: Ubiquitin family; InterPro: IPR000626 U	99.78
KOG0003	128	consensus Ubiquitin/60s ribosomal protein L40 fusi	99.77
cd01796	71	DDI1_N DNA damage inducible protein 1 ubiquitin-li	99.75
cd01763	87	Sumo Small ubiquitin-related modifier (SUMO). Smal	99.74
cd01812	71	BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-ter	99.74
cd01790	79	Herp_N Homocysteine-responsive endoplasmic reticul	99.72
cd01813	74	UBP_N UBP ubiquitin processing protease. The UBP (	99.71
KOG0005	70	consensus Ubiquitin-like protein [Cell cycle contr	99.69
smart00213	64	UBQ Ubiquitin homologues. Ubiquitin-mediated prote	99.67
cd01814	113	NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and AT	99.65
TIGR00601	378	rad23 UV excision repair protein Rad23. All protei	99.62
cd01799	75	Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HO	99.59
cd01815	75	BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC	99.54
cd01769	69	UBL Ubiquitin-like domain of UBL. UBLs function by	99.54
PRK00432	50	30S ribosomal protein S27ae; Validated	99.52
PF11976	72	Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; Inter	99.49
cd01795	107	USP48_C USP ubiquitin-specific protease. The USP (	99.47
KOG0010	493	consensus Ubiquitin-like protein [Posttranslationa	99.46
KOG0011	340	consensus Nucleotide excision repair factor NEF2,	99.38
cd01789	84	Alp11_N Ubiquitin-like domain of Alp11 tubulin-fol	99.33
PF14560	87	Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2K	99.25
PF13881	111	Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB	99.2
PLN02560	308	enoyl-CoA reductase	99.2
cd01788	119	ElonginB Ubiquitin-like domain of Elongin B. Elong	99.19
KOG0001	75	consensus Ubiquitin and ubiquitin-like proteins [P	99.17
cd01801	77	Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-	99.0
KOG4248	1143	consensus Ubiquitin-like protein, regulator of apo	98.93
PF11543	80	UN_NPL4: Nuclear pore localisation protein NPL4; I	98.92
cd00196	69	UBQ Ubiquitin-like proteins. Ubiquitin homologs; I	98.81
cd01811	80	OASL_repeat1 2'-5' oligoadenylate synthetase-like	98.56
KOG1769	99	consensus Ubiquitin-like proteins [Posttranslation	98.51
KOG0006	446	consensus E3 ubiquitin-protein ligase (Parkin prot	98.49
KOG3493	73	consensus Ubiquitin-like protein [Posttranslationa	98.43
KOG1872	473	consensus Ubiquitin-specific protease [Posttransla	98.38
PF13019	162	Telomere_Sde2: Telomere stability and silencing	98.36
KOG4495	110	consensus RNA polymerase II transcription elongati	98.27
PF08817	79	YukD: WXG100 protein secretion system (Wss), prote	98.15
PF00789	82	UBX: UBX domain; InterPro: IPR001012 The UBX domai	97.97
PF11470	65	TUG-UBL1: GLUT4 regulating protein TUG; InterPro:	97.94
smart00166	80	UBX Domain present in ubiquitin-regulatory protein	97.8
COG5227	103	SMT3 Ubiquitin-like protein (sentrin) [Posttransla	97.74
PF10302	97	DUF2407: DUF2407 ubiquitin-like domain; InterPro:	97.71
cd01772	79	SAKS1_UBX SAKS1-like UBX domain. SAKS1 (SAPK-subst	97.63
cd01770	79	p47_UBX p47-like ubiquitin domain. p47_UBX p47 is	97.51
cd01767	77	UBX UBX (ubiquitin regulatory X) domain. The UBX (	97.48
cd01773	82	Faf1_like1_UBX Faf1 ike-1 UBX domain. Faf1_like1 i	97.43
KOG1639	297	consensus Steroid reductase required for elongatio	97.38
COG5417	81	Uncharacterized small protein [Function unknown]	97.37
KOG0013	231	consensus Uncharacterized conserved protein [Funct	97.3
cd01771	80	Faf1_UBX Faf1 UBX domain. Faf1 (fas-associated fac	97.25
cd01774	85	Faf1_like2_UBX Faf1 ike-2 UBX domain. Faf1_like2 i	97.19
KOG3206	234	consensus Alpha-tubulin folding cofactor B [Posttr	96.92
PRK06437	67	hypothetical protein; Provisional	96.78
PRK06488	65	sulfur carrier protein ThiS; Validated	96.63
PRK08364	70	sulfur carrier protein ThiS; Provisional	96.28
PF15044	76	CLU_N: Mitochondrial function, CLU-N-term	96.28
PLN02799	82	Molybdopterin synthase sulfur carrier subunit	96.26
KOG4583	391	consensus Membrane-associated ER protein involved	96.25
cd00754	80	MoaD Ubiquitin domain of MoaD-like proteins. MoaD	96.19
PF12754	309	Blt1: Cell-cycle control medial ring component; In	96.18
cd06406	80	PB1_P67 A PB1 domain is present in p67 proteins wh	96.11
PF09379	80	FERM_N: FERM N-terminal domain ; InterPro: IPR0189	96.1
cd06409	86	PB1_MUG70 The MUG70 protein is a product of the me	96.03
PF14836	88	Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A	95.97
PF11620	88	GABP-alpha: GA-binding protein alpha chain; InterP	95.73
PRK05863	65	sulfur carrier protein ThiS; Provisional	95.67
KOG0012	380	consensus DNA damage inducible protein [Replicatio	95.53
PF10790	76	DUF2604: Protein of Unknown function (DUF2604); In	95.47
cd06407	82	PB1_NLP A PB1 domain is present in NIN like protei	95.46
PRK08053	66	sulfur carrier protein ThiS; Provisional	95.43
PRK05659	66	sulfur carrier protein ThiS; Validated	95.41
TIGR01682	80	moaD molybdopterin converting factor, subunit 1, n	95.1
cd00565	65	ThiS ThiaminS ubiquitin-like sulfur carrier protei	95.05
TIGR01687	88	moaD_arch MoaD family protein, archaeal. Members o	94.97
PRK06944	65	sulfur carrier protein ThiS; Provisional	94.87
COG5100	571	NPL4 Nuclear pore protein [Nuclear structure]	94.87
PF02597	77	ThiS: ThiS family; InterPro: IPR003749 ThiS (thiam	94.87
PRK07696	67	sulfur carrier protein ThiS; Provisional	94.56
PF14453	57	ThiS-like: ThiS-like ubiquitin	94.55
PRK06083	84	sulfur carrier protein ThiS; Provisional	94.46
TIGR01683	64	thiS thiamine biosynthesis protein ThiS. This mode	94.38
smart00666	81	PB1 PB1 domain. Phox and Bem1p domain, present in	94.01
PRK07440	70	hypothetical protein; Provisional	94.01
smart00295	207	B41 Band 4.1 homologues. Also known as ezrin/radix	93.01
cd06408	86	PB1_NoxR The PB1 domain is present in the Epichloe	92.99
TIGR02958	452	sec_mycoba_snm4 secretion protein snm4. Members of	92.85
COG2104	68	ThiS Sulfur transfer protein involved in thiamine	91.79
KOG2689	290	consensus Predicted ubiquitin regulatory protein [	91.75
KOG2086	380	consensus Protein tyrosine phosphatase SHP1/Cofact	91.46
smart00455	70	RBD Raf-like Ras-binding domain.	90.95
PRK11840	326	bifunctional sulfur carrier protein/thiazole synth	90.78
PF00564	84	PB1: PB1 domain; InterPro: IPR000270 The Phox and	90.76
cd05992	81	PB1 The PB1 domain is a modular domain mediating s	90.37
cd01760	72	RBD Ubiquitin-like domain of RBD-like S/T kinases.	90.19
cd06411	78	PB1_p51 The PB1 domain is present in the p51 prote	89.92
cd06398	91	PB1_Joka2 The PB1 domain is present in the Nicotia	89.92
PRK11130	81	moaD molybdopterin synthase small subunit; Provisi	89.03
KOG0009	62	consensus Ubiquitin-like/40S ribosomal S30 protein	88.98
PF02196	71	RBD: Raf-like Ras-binding domain; InterPro: IPR003	88.91
PTZ00380	121	microtubule-associated protein (MAP); Provisional	88.84
cd06396	81	PB1_NBR1 The PB1 domain is an essential part of NB	88.45
COG5272	57	UBI4 Ubiquitin [Posttranslational modification, pr	88.37
PF14732	87	UAE_UbL: Ubiquitin/SUMO-activating enzyme ubiquiti	87.02
PF10209	122	DUF2340: Uncharacterized conserved protein (DUF234	86.66
cd06410	97	PB1_UP2 Uncharacterized protein 2. The PB1 domain	86.04
PF02017	78	CIDE-N: CIDE-N domain; InterPro: IPR003508 This do	86.04
PF08825	84	E2_bind: E2 binding domain; InterPro: IPR014929 E1	85.92
PF14451	81	Ub-Mut7C: Mut7-C ubiquitin	85.27
KOG4250	732	consensus TANK binding protein kinase TBK1 [Signal	85.2
PF14533	213	USP7_C2: Ubiquitin-specific protease C-terminal; P	85.18
cd01766	82	Ufm1 Urm1-like ubiquitin domain. Ufm1 (ubiquitin-f	83.91
KOG2982	418	consensus Uncharacterized conserved protein [Funct	83.73
cd01764	94	Urm1 Urm1-like ubuitin domain. Urm1 (Ubiquitin-Rel	83.55
PF08337	539	Plexin_cytopl: Plexin cytoplasmic RasGAP domain; I	83.23
cd01787	85	GRB7_RA RA (RAS-associated like) domain of Grb7. G	83.02
PRK01777	95	hypothetical protein; Validated	82.51
PF02991	104	Atg8: Autophagy protein Atg8 ubiquitin like; Inter	81.01

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

Probab=100.00  E-value=7.9e-48  Score=272.85  Aligned_cols=144  Identities=86%  Similarity=1.276  Sum_probs=142.6

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCcccc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAKKR   80 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~~k~   80 (145)
                      |+|+|+.+.++++.+++.+++||..+|+.|+..+|||+++|+|+|.|++|+|..+|+||+|+..+||+++++++||+++|
T Consensus         1 m~ifVk~l~~kti~~eve~~~ti~~~Kakiq~~egIp~dqqrlifag~qLedgrtlSDY~Iqkestl~l~l~l~Gg~kkr   80 (156)
T KOG0004|consen    1 MQIFVKTLTGKTITLEVEANDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGAKKR   80 (156)
T ss_pred             CccchhhccccceeeeecccccHHHHHHhhhcccCCCchhhhhhhhhcccccCCccccccccccceEEEEEEecCCcccc
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccCCcccccccceeeeeeeeeEEEcCCCcEEEecccCCCCCCCccEEeceeCCcccccCC
Q 032224           81 KKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKECPNAECGAGTFMASHFDRHYCEFV  144 (145)
Q Consensus        81 ~k~~~~~pk~~k~~~kk~k~~v~k~~~v~~~~~~~~l~~~c~~~~c~~g~~ma~h~~~~~c~~~  144 (145)
                      +++.|++|++++|.++++++++++||++|++|+|++++++||++.||+|||||.|+||+|||+|
T Consensus        81 kkk~~~~pk~~~~~~kk~~l~~~~y~kvd~ngkiq~l~~~~~~~~~~~~v~~a~~~~r~y~gkc  144 (156)
T KOG0004|consen   81 KKKSYTTPKKIKSKHKKVSLAVLKYYKVDENGKVQRLRRECPNPACGAGVFMASHADRHYCGKC  144 (156)
T ss_pred             cccccccccccCCCccccccCCccceeeccCcchhhhhhhcCCcccccceeccccccccccccc
Confidence            9999999999999999999999999999999999999999999999999999999999999997

>PF01599 Ribosomal_S27: Ribosomal protein S27a; InterPro: IPR002906 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.95  E-value=9.9e-30  Score=147.39  Aligned_cols=44  Identities=68%  Similarity=1.278  Sum_probs=37.2

Q ss_pred             eeeeeEEEcCCCcEEEecccCCCCCCCccEEeceeCCcccccCC
Q 032224          101 AVLQFYKVDDSGKVQRLRKECPNAECGAGTFMASHFDRHYCEFV  144 (145)
Q Consensus       101 ~v~k~~~v~~~~~~~~l~~~c~~~~c~~g~~ma~h~~~~~c~~~  144 (145)
                      |||+||+||++|+|+|++++|||++||+|||||+|+||+|||||
T Consensus         1 AvlkyYkvd~~Gkv~r~rk~CP~~~CG~GvFMA~H~dR~~CGKC   44 (47)
T PF01599_consen    1 AVLKYYKVDENGKVKRLRKECPSPRCGAGVFMAEHKDRHYCGKC   44 (47)
T ss_dssp             S----CEEETTTEEEESSEE-TSTTTTSSSEEEE-SSEEEETTT
T ss_pred             CcceEEEECCCCcEEEhhhcCCCcccCCceEeeecCCCccCCCc
Confidence            68999999999999999999999999999999999999999998

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family of ribosomal proteins consists mainly of the 40S ribosomal protein S27a which is synthesized as a C-terminal extension of ubiquitin (CEP) (IPR000626 from INTERPRO). The S27a domain compromises the C-terminal half of the protein. The synthesis of ribosomal proteins as extensions of ubiquitin promotes their incorporation into nascent ribosomes by a transient metabolic stabilisation and is required for efficient ribosome biogenesis []. The ribosomal extension protein S27a contains a basic region that is proposed to form a zinc finger; its fusion gene is proposed as a mechanism to maintain a fixed ratio between ubiquitin necessary for degrading proteins and ribosomes a source of proteins [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2K4X_A 3U5C_f 3U5G_f 2XZN_9 2XZM_9.

>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]

Probab=99.89  E-value=6.3e-24  Score=122.86  Aligned_cols=43  Identities=51%  Similarity=0.962  Sum_probs=40.4

Q ss_pred             eeeeeeeEEEcCCCcEEEecccCCCCCCCccEEeceeCCcccccCC
Q 032224           99 KLAVLQFYKVDDSGKVQRLRKECPNAECGAGTFMASHFDRHYCEFV  144 (145)
Q Consensus        99 k~~v~k~~~v~~~~~~~~l~~~c~~~~c~~g~~ma~h~~~~~c~~~  144 (145)
                      ++++++||+|+ +++|.|+++.||  +||+|+|||.|.|||+||||
T Consensus         1 ~~~~~~yY~v~-~~kv~rk~~~CP--rCG~gvfmA~H~dR~~CGkC   43 (51)
T COG1998           1 KMAVLKYYEVD-DEKVKRKNRFCP--RCGPGVFMADHKDRWACGKC   43 (51)
T ss_pred             CccceeEEEEc-CCcEEEccccCC--CCCCcchhhhcCceeEeccc
Confidence            36889999999 678999999999  99999999999999999998

>cd01793 Fubi Fubi ubiquitin-like protein

Probab=99.88  E-value=1.5e-22  Score=129.70  Aligned_cols=74  Identities=41%  Similarity=0.621  Sum_probs=71.6

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+||.  ++++.++|++++||++||++|++.+|+|+++|+|+|+|++|+|+.+|++|+|+++++|+++++++||
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--QNTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLAGVPLEDDATLGQCGVEELCTLEVAGRLLGG   74 (74)
T ss_pred             CEEEEEC--CCEEEEEECCcCcHHHHHHHHHhhhCCCHHHEEEEECCeECCCCCCHHHcCCCCCCEEEEEEecCCC
Confidence            8999997  4789999999999999999999999999999999999999999999999999999999999999997

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.

>PTZ00044 ubiquitin; Provisional

Probab=99.88  E-value=4.4e-22  Score=127.85  Aligned_cols=76  Identities=50%  Similarity=0.822  Sum_probs=74.6

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|++.+|+++.+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+++++++|+++++++||
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 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYSGKQMSDDLKLSDYKVVPGSTIHMVLQLRGG   76 (76)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEEccCCCcHHHcCCCCCCEEEEEEEccCC
Confidence            8999999999999999999999999999999999999999999999999999999999999999999999999886

>cd01807 GDX_N ubiquitin-like domain of GDX

Probab=99.87  E-value=8.2e-22  Score=126.27  Aligned_cols=73  Identities=36%  Similarity=0.653  Sum_probs=71.3

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEe
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRL   73 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~   73 (145)
                      |+|+|+..+|+++.++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||+++++|++++++
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 MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGKALADDKRLSDYSIGPNAKLNLVVRP   73 (74)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCCCHHHCCCCCCCEEEEEEcC
Confidence            8999999999999999999999999999999999999999999999999999999999999999999999875

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

>cd01803 Ubiquitin Ubiquitin

Probab=99.87  E-value=1.5e-21  Score=124.92  Aligned_cols=76  Identities=96%  Similarity=1.322  Sum_probs=74.5

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|++.+|+++.+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+++++++|++.++++||
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 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG   76 (76)
T ss_pred             CEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCcHHHcCCCCCCEEEEEEEccCC
Confidence            8999999999999999999999999999999999999999999999999999999999999999999999999987

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

>cd01802 AN1_N ubiquitin-like domain of AN1

Probab=99.87  E-value=1.1e-21  Score=133.25  Aligned_cols=76  Identities=51%  Similarity=0.763  Sum_probs=74.6

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|+.++|+++.++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|+++++|+++++++||
T Consensus        28 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          28 MELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIWNNMELEDEYCLNDYNISEGCTLKLVLAMRGG  103 (103)
T ss_pred             EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEecCCC
Confidence            8999999999999999999999999999999999999999999999999999999999999999999999999987

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.

>cd01806 Nedd8 Nebb8-like ubiquitin protein

Probab=99.86  E-value=3.7e-21  Score=123.13  Aligned_cols=76  Identities=55%  Similarity=0.965  Sum_probs=74.3

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|++.+|+++.+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|++++|++|+++++++||
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 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDDKTAADYKLEGGSVLHLVLALRGG   76 (76)
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhCCChhhEEEEECCeEccCCCCHHHcCCCCCCEEEEEEEccCC
Confidence            8999999999999999999999999999999999999999999999999999999999999999999999999886

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.

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

Probab=99.85  E-value=3.5e-21  Score=123.36  Aligned_cols=74  Identities=32%  Similarity=0.618  Sum_probs=72.1

Q ss_pred             EEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         3 I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+++.|+++.+++++++||++||++|++..|+|+++|+|+|+|+.|+|+.+|++|||+++++|++++++.||
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 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRERVQADQFWLSFEGRPMEDEHPLGEYGLKPGCTVFMNLRLRGG   74 (74)
T ss_pred             CEEECCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCCHHHcCCCCCCEEEEEEEccCC
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999886

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.

>cd01804 midnolin_N Ubiquitin-like domain of midnolin

Probab=99.85  E-value=6.7e-21  Score=123.36  Aligned_cols=75  Identities=25%  Similarity=0.491  Sum_probs=73.0

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|++..|+.+.+++++++||++||++|++..++|+++|+|+|+|+.|+|+ +|++|||+++++|+++..+.||
T Consensus         2 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk~L~d~-~L~~~gi~~~~~i~l~~~~~~~   76 (78)
T cd01804           2 MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHRETRLSSG-KLQDLGLGDGSKLTLVPTVEAG   76 (78)
T ss_pred             eEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEEECCcCCCCC-cHHHcCCCCCCEEEEEeecccc
Confidence            89999999999999999999999999999999999999999999999999999 9999999999999999999887

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.

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

Probab=99.84  E-value=1.2e-20  Score=122.19  Aligned_cols=74  Identities=36%  Similarity=0.634  Sum_probs=70.9

Q ss_pred             CEEEEEeCCCCE-EEEE-EcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEec
Q 032224            1 MQIFVKTLTGKT-ITLE-VESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR   74 (145)
Q Consensus         1 M~I~Vk~~~g~~-~~l~-V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~   74 (145)
                      |+|+|++.+|++ +.++ +++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||+++++|++++++.
T Consensus         1 M~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi~~Gk~L~D~~tL~~y~i~~~~~i~l~~~~~   76 (78)
T cd01797           1 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEPECQRLFYRGKQMEDGHTLFDYNVGLNDIIQLLVRQD   76 (78)
T ss_pred             CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEEeCCEECCCCCCHHHcCCCCCCEEEEEEecC
Confidence            899999999997 7895 8999999999999999999999999999999999999999999999999999999875

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.

>cd01791 Ubl5 UBL5 ubiquitin-like modifier

Probab=99.83  E-value=2.2e-20  Score=119.50  Aligned_cols=71  Identities=24%  Similarity=0.378  Sum_probs=68.6

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~   71 (145)
                      |+|+|+++.|+.+.+++++++||++||++|++..|+|+++|+|+|+|+.|+|+.+|++|||++|++|||..
T Consensus         2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi~~Gk~L~D~~tL~~ygi~~~stv~l~~   72 (73)
T cd01791           2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHISLGDYEIHDGMNLELYY   72 (73)
T ss_pred             EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEeCCcCCCCCCCHHHcCCCCCCEEEEEe
Confidence            78999999999999999999999999999999999999999999999999999999999999999999864

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.

>cd01805 RAD23_N Ubiquitin-like domain of RAD23

Probab=99.82  E-value=8.5e-20  Score=117.39  Aligned_cols=72  Identities=39%  Similarity=0.725  Sum_probs=70.1

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCC--CcCceeeeeCCeeccCCCccccccccCCCEEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGI--PPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gi--p~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      |+|+|++.+|+++.+++++++||++||++|++.+|+  |+++|+|+|+|+.|+|+.+|++|||++|++|+++++
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 MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKDDTTLEEYKIDEKDFVVVMVS   74 (77)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEEECCEEccCCCCHHHcCCCCCCEEEEEEe
Confidence            899999999999999999999999999999999999  999999999999999999999999999999999876

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).

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

Probab=99.81  E-value=8e-20  Score=117.68  Aligned_cols=72  Identities=35%  Similarity=0.676  Sum_probs=68.7

Q ss_pred             CCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCccc
Q 032224            8 LTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAKK   79 (145)
Q Consensus         8 ~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~~k   79 (145)
                      ++|+++.+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|+++++|+|+++++||++|
T Consensus         5 l~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~~~i~~g~~l~v~~~~~gg~~~   76 (76)
T cd01800           5 LNGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGIFIKDSNSLAYYNLANGTIIHLQLKERGGRKK   76 (76)
T ss_pred             cCCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEEcCCCCcHHHcCCCCCCEEEEEEecCCCcCC
Confidence            478999999999999999999999999999999999999999999999999999999999999999998753

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.

>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein

Probab=99.81  E-value=1.8e-19  Score=114.15  Aligned_cols=72  Identities=44%  Similarity=0.704  Sum_probs=69.7

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      |+|+|+.++|+++.+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++||+++|++|+++.+
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 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYSGRVLKDDETLSEYKVEDGHTIHLVKR   72 (72)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCEECCCcCcHHHCCCCCCCEEEEEeC
Confidence            899999999999999999999999999999999999999999999999999999999999999999998763

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.

>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein

Probab=99.81  E-value=1.2e-19  Score=115.16  Aligned_cols=69  Identities=36%  Similarity=0.587  Sum_probs=66.3

Q ss_pred             EEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEE
Q 032224            3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus         3 I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~   71 (145)
                      +.|+.++|+++.+++++++||++||++|++.+|+|+++|+|+|+|++|+|+.+|++|+|+++++|||++
T Consensus         1 ~~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li~~G~~L~D~~~l~~~~i~~~~tv~~~~   69 (70)
T cd01794           1 LKVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWFFSGKLLTDKTRLQETKIQKDYVVQVIV   69 (70)
T ss_pred             CeEEcCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCCCCHHHcCCCCCCEEEEEe
Confidence            357889999999999999999999999999999999999999999999999999999999999999986

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.

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

Probab=99.80  E-value=1.6e-19  Score=114.43  Aligned_cols=70  Identities=39%  Similarity=0.733  Sum_probs=67.4

Q ss_pred             EEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEE
Q 032224            3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         3 I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      |+|++.+|+++.+++++++||++||++|++.+|+|+++|+|+|+|++|+|+.+|++|||+++++|+++.|
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 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVIFAGKELRNTTTIQECDLGQQSILHAVRR   70 (70)
T ss_pred             CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHCCCHHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEeC
Confidence            6899999999999999999999999999999999999999999999999999999999999999999864

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.

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

Probab=99.80  E-value=3e-19  Score=116.07  Aligned_cols=73  Identities=32%  Similarity=0.431  Sum_probs=70.3

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceee--eeCCeeccCCCccccccccCCCEEEEEEEe
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRL--IFAGKQLEDGRTLADYNIQKESTLHLVLRL   73 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L--~~~G~~L~d~~tL~~~gi~~~sti~l~~~~   73 (145)
                      |+|+|+..+|+++.+++++++||++||++|++..|+|+++|+|  +|+|+.|+|+.+|++|||++|++|+++++-
T Consensus         3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~D~~tL~~~gi~~gs~l~l~~~~   77 (80)
T cd01792           3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDGVPLVSQGLGPGSTVLLVVQN   77 (80)
T ss_pred             eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCCCCCHHHcCCCCCCEEEEEEEc
Confidence            7899999999999999999999999999999999999999999  899999999999999999999999999873

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.

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

Probab=99.78  E-value=1e-18  Score=110.98  Aligned_cols=71  Identities=34%  Similarity=0.489  Sum_probs=67.3

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      |+|+|++.+|+ ..+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||+++++|+++++
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 IKVTVKTPKDK-EEIEIAEDASVKDFKEAVSKKFKANQEQLVLIFAGKILKDTDTLTQHNIKDGLTVHLVIK   71 (71)
T ss_pred             CEEEEEcCCCC-EEEEECCCChHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEEC
Confidence            68999999997 589999999999999999999999999999999999999999999999999999999874

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.

>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=99.78  E-value=1.3e-18  Score=109.51  Aligned_cols=68  Identities=56%  Similarity=0.962  Sum_probs=65.1

Q ss_pred             EeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEe
Q 032224            6 KTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRL   73 (145)
Q Consensus         6 k~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~   73 (145)
                      |+++|+++.++|++++||.+||++|++.+++|++.|+|+|+|+.|+|+.+|++|||.++++|++++++
T Consensus         1 k~~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~G~~L~d~~tL~~~~i~~~~~I~l~~k~   68 (69)
T PF00240_consen    1 KTLSGKTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIYNGKELDDDKTLSDYGIKDGSTIHLVIKP   68 (69)
T ss_dssp             EETTSEEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEETTEEESTTSBTGGGTTSTTEEEEEEESS
T ss_pred             CCCCCcEEEEEECCCCCHHHhhhhcccccccccccceeeeeeecccCcCcHHHcCCCCCCEEEEEEec
Confidence            56789999999999999999999999999999999999999999999999999999999999998864

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 ....

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

Probab=99.77  E-value=5.4e-20  Score=123.32  Aligned_cols=77  Identities=97%  Similarity=1.316  Sum_probs=75.4

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGA   77 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~   77 (145)
                      |+++++.+.|++++++++|++||..+|+.|....|||++.|+|+|+|++|+|..||++|||+..+||+++++++||-
T Consensus         1 ~~~~~~~~~GKT~~le~EpS~ti~~vKA~i~~~~Gi~~~~~~L~~~~k~LED~~Tla~Y~i~~~~Tl~~~~rL~GG~   77 (128)
T KOG0003|consen    1 MQIFVKTLTGKTITLEVEPSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGI   77 (128)
T ss_pred             CcEEEEEeeCceEEEEecccchHHHHHHHhccccCCCHHHHHHHhcccccccCCcccccCccchhhhhhhHHHhcCC
Confidence            78999999999999999999999999999999999999999999999999999999999999999999999999994

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

Probab=99.75  E-value=4.7e-18  Score=108.09  Aligned_cols=68  Identities=35%  Similarity=0.543  Sum_probs=64.1

Q ss_pred             EEEEeC-CCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCC-CccccccccCCCEEEEE
Q 032224            3 IFVKTL-TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLADYNIQKESTLHLV   70 (145)
Q Consensus         3 I~Vk~~-~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~-~tL~~~gi~~~sti~l~   70 (145)
                      |+|++. +|+++.+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+ .+|++|||+++++|+|.
T Consensus         1 l~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~gip~~~q~Li~~Gk~L~D~~~~L~~~gi~~~~~l~l~   70 (71)
T cd01796           1 ITVYTARSETTFSLDVDPDLELENFKALCEAESGIPASQQQLIYNGRELVDNKRLLALYGVKDGDLVVLR   70 (71)
T ss_pred             CEEEECCCCCEEEEEECCcCCHHHHHHHHHHHhCCCHHHeEEEECCeEccCCcccHHHcCCCCCCEEEEe
Confidence            578999 899999999999999999999999999999999999999999987 68999999999999874

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.

>cd01763 Sumo Small ubiquitin-related modifier (SUMO)

Probab=99.74  E-value=1.8e-17  Score=109.40  Aligned_cols=76  Identities=18%  Similarity=0.467  Sum_probs=74.2

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|++.+|+.+.+.|.+++|+..|++++++..|+|+++|+|+|+|+.|+++.|+++|+++++++|++++++.||
T Consensus        12 i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~G~~L~~~~T~~~l~m~d~d~I~v~l~l~GG   87 (87)
T cd01763          12 INLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQRIRDNQTPDDLGMEDGDEIEVMLEQTGG   87 (87)
T ss_pred             EEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCeECCCCCCHHHcCCCCCCEEEEEEecccC
Confidence            6899999999999999999999999999999999999999999999999999999999999999999999999997

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.

>cd01812 BAG1_N Ubiquitin-like domain of BAG1

Probab=99.74  E-value=1.2e-17  Score=105.55  Aligned_cols=70  Identities=29%  Similarity=0.469  Sum_probs=66.5

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~   71 (145)
                      |+|+|+.. |+.+.+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||++|++|+++.
T Consensus         1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~l~d~~~L~~~~i~~g~~l~v~~   70 (71)
T cd01812           1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGKERDDAETLDMSGVKDGSKVMLLE   70 (71)
T ss_pred             CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeCCcccCccCcHHHcCCCCCCEEEEec
Confidence            68999986 88999999999999999999999999999999999999999999999999999999998864

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).

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

Probab=99.72  E-value=1.9e-17  Score=107.04  Aligned_cols=71  Identities=25%  Similarity=0.282  Sum_probs=63.5

Q ss_pred             CEEEEEeCCCCE--EEEEEcCCCcHHHHHHHHHHHhC--CCcCceeeeeCCeeccCCCcccccc--ccCCCEEEEEE
Q 032224            1 MQIFVKTLTGKT--ITLEVESSDTIDNVKAKIQDKEG--IPPDQQRLIFAGKQLEDGRTLADYN--IQKESTLHLVL   71 (145)
Q Consensus         1 M~I~Vk~~~g~~--~~l~V~~~~TV~~LK~~I~~~~g--ip~~~q~L~~~G~~L~d~~tL~~~g--i~~~sti~l~~   71 (145)
                      |.|+||+++++.  +.+++++++||.+||++|++..+  .|+++|+|+|+|+.|+|+.+|++|.  +.++.+|||+.
T Consensus         2 i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GKiLkD~~tL~~~~~~~~~~~tiHLV~   78 (79)
T cd01790           2 VTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGKLLPDHLKLRDVLRKQDEYHMVHLVC   78 (79)
T ss_pred             eEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCeeccchhhHHHHhhcccCCceEEEEe
Confidence            579999999998  45555899999999999999874  5579999999999999999999996  99999999985

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.

>cd01813 UBP_N UBP ubiquitin processing protease

Probab=99.71  E-value=5.5e-17  Score=104.02  Aligned_cols=69  Identities=23%  Similarity=0.427  Sum_probs=65.0

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeee---CCeeccCCCccccccccCCCEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF---AGKQLEDGRTLADYNIQKESTLHLV   70 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~---~G~~L~d~~tL~~~gi~~~sti~l~   70 (145)
                      |.|.|+. +|+++.++|++++||++||++|++.+|+|+++|+|+|   .|+.|+|+.+|++|+|++|+.|+|+
T Consensus         1 ~~i~vk~-~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~l~D~~~L~~~~i~~g~~i~lm   72 (74)
T cd01813           1 VPVIVKW-GGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAEDDVKISALKLKPNTKIMMM   72 (74)
T ss_pred             CEEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCCCCcCHHHcCCCCCCEEEEE
Confidence            6788886 6889999999999999999999999999999999996   8999999999999999999999886

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.

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

Probab=99.69  E-value=3.9e-17  Score=98.58  Aligned_cols=70  Identities=54%  Similarity=0.911  Sum_probs=67.8

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV   70 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~   70 (145)
                      |.|.|++++|+.+.++++|+++|..+|+.|++..||||.+|+|+|.|+++.|+.+-++|.+.-||.+|++
T Consensus         1 m~iKvktLt~KeIeidIep~DkverIKErvEEkeGIPp~qqrli~~gkqm~DD~tA~~Y~~~~GSVlHlv   70 (70)
T KOG0005|consen    1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYAGKQMNDDKTAAHYNLLGGSVLHLV   70 (70)
T ss_pred             CeeeEeeeccceEEEeeCcchHHHHHHHHhhhhcCCCchhhhhhhccccccccccHHHhhhccceeEeeC
Confidence            7899999999999999999999999999999999999999999999999999999999999999999874

>smart00213 UBQ Ubiquitin homologues

Probab=99.67  E-value=2.8e-16  Score=96.77  Aligned_cols=64  Identities=61%  Similarity=0.864  Sum_probs=61.3

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKES   65 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~s   65 (145)
                      |+|+|+..+ ..+.++|++++||++||++|+..+|+|+++|+|+|+|+.|+|+.+|++|||++|+
T Consensus         1 ~~i~vk~~~-~~~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~~~g~~L~d~~tL~~~~i~~~~   64 (64)
T smart00213        1 IELTVKTLD-GTITLEVKPSDTVSELKEKIAELTGIPVEQQRLIYKGKVLEDDRTLADYNIQDGS   64 (64)
T ss_pred             CEEEEEECC-ceEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEECCCCCCHHHcCCcCCC
Confidence            899999998 7899999999999999999999999999999999999999999999999999875

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

>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4

Probab=99.65  E-value=3e-16  Score=106.85  Aligned_cols=91  Identities=25%  Similarity=0.317  Sum_probs=77.8

Q ss_pred             EEEEEeCCCCE-EEEEEcCCCcHHHHHHHHHHHh-----CCC--cCceeeeeCCeeccCCCcccccc------ccCCCEE
Q 032224            2 QIFVKTLTGKT-ITLEVESSDTIDNVKAKIQDKE-----GIP--PDQQRLIFAGKQLEDGRTLADYN------IQKESTL   67 (145)
Q Consensus         2 ~I~Vk~~~g~~-~~l~V~~~~TV~~LK~~I~~~~-----gip--~~~q~L~~~G~~L~d~~tL~~~g------i~~~sti   67 (145)
                      .|.+|..+|.. =++.+++++||++||++|++..     ++|  +++|+|+|+|++|+|+.||++|+      +....|+
T Consensus         6 e~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGKiLeD~~TL~d~~~p~g~~~~~~~Tm   85 (113)
T cd01814           6 EIKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGKILENSKTVGECRSPVGDIAGGVITM   85 (113)
T ss_pred             EEEEEccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCeecCCCCcHHHhCCcccccCCCceEE
Confidence            57788888875 4678899999999999999555     455  99999999999999999999999      6777999


Q ss_pred             EEEEEecCCccccccccccCCcccc
Q 032224           68 HLVLRLRGGAKKRKKKTYTKPKKIK   92 (145)
Q Consensus        68 ~l~~~~~gg~~k~~k~~~~~pk~~k   92 (145)
                      ||++++....++.+|+....|+...
T Consensus        86 Hvvlr~~~~~~~~~k~~~~~~~~~~  110 (113)
T cd01814          86 HVVVQPPLADKKTEKKVDKAPKAVI  110 (113)
T ss_pred             EEEecCCCCCccccccccCCcccCC
Confidence            9999999888887787777777653

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

>TIGR00601 rad23 UV excision repair protein Rad23

Probab=99.62  E-value=1.8e-15  Score=123.32  Aligned_cols=72  Identities=31%  Similarity=0.618  Sum_probs=69.9

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhC---CCcCceeeeeCCeeccCCCccccccccCCCEEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~g---ip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      |+|+||+++|+++.|+|++++||.+||++|+...|   +|+++|+|+|+|++|+|+.+|++|+|+++++|++++.
T Consensus         1 MkItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GkiL~Dd~tL~dy~I~e~~~Ivvmv~   75 (378)
T TIGR00601         1 MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDDKTVREYKIKEKDFVVVMVS   75 (378)
T ss_pred             CEEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEECCEECCCCCcHHHcCCCCCCEEEEEec
Confidence            89999999999999999999999999999999998   9999999999999999999999999999999998875

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).

>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1

Probab=99.59  E-value=4.9e-15  Score=95.18  Aligned_cols=64  Identities=30%  Similarity=0.372  Sum_probs=58.4

Q ss_pred             eCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeecc-CCCcccccccc-CCCEEEEEE
Q 032224            7 TLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLADYNIQ-KESTLHLVL   71 (145)
Q Consensus         7 ~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~-d~~tL~~~gi~-~~sti~l~~   71 (145)
                      ...|.++.++|++++||++||++|++.+|+|+++|+| |+|+.|. |+.+|++||++ +|++++|.+
T Consensus         9 ~~~~~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL-~~G~~L~dD~~tL~~ygi~~~g~~~~l~~   74 (75)
T cd01799           9 QSHTVTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW-VIGQRLARDQETLYSHGIRTNGDSAFLYI   74 (75)
T ss_pred             ccCCCeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE-EcCCeeCCCcCCHHHcCCCCCCCEEEEEe
Confidence            3467899999999999999999999999999999999 9999885 77999999998 889999864

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=99.54  E-value=8.4e-15  Score=93.61  Aligned_cols=56  Identities=32%  Similarity=0.555  Sum_probs=50.2

Q ss_pred             EEc-CCCcHHHHHHHHHHHh--CCC-cCceeeeeCCeeccCCCccccccccCCCEEEEEE
Q 032224           16 EVE-SSDTIDNVKAKIQDKE--GIP-PDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus        16 ~V~-~~~TV~~LK~~I~~~~--gip-~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~   71 (145)
                      +|+ .++||.+||++|++..  +++ +++|+|+|.|+.|+|+.+|++|||+++++||++.
T Consensus        15 ~~~~~~~TV~~LK~kI~~~~~egi~~~dqQrLIy~GKiL~D~~TL~dygI~~gstlhLv~   74 (75)
T cd01815          15 DVSPGGYQVSTLKQLIAAQLPDSLPDPELIDLIHCGRKLKDDQTLDFYGIQSGSTIHILR   74 (75)
T ss_pred             CcCCccCcHHHHHHHHHHhhccCCCChHHeEEEeCCcCCCCCCcHHHcCCCCCCEEEEEe
Confidence            344 4789999999999995  575 8999999999999999999999999999999874

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.

>cd01769 UBL Ubiquitin-like domain of UBL

Probab=99.54  E-value=3.5e-14  Score=88.47  Aligned_cols=67  Identities=67%  Similarity=0.992  Sum_probs=63.5

Q ss_pred             EEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEE
Q 032224            5 VKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus         5 Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~   71 (145)
                      |+..+|+.+.+++++++||.+||++|+..+|+|+++|+|+|+|+.|+|+.+|++|++.++++|++..
T Consensus         2 v~~~~~~~~~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l~~~g~~l~d~~~l~~~~v~~~~~i~v~~   68 (69)
T cd01769           2 VKTLTGKTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKILKDDKTLSDYGIQDGSTLHLVL   68 (69)
T ss_pred             eEccCCCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCcCCCCcCCHHHCCCCCCCEEEEEE
Confidence            6777899999999999999999999999999999999999999999999999999999999998864

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.

>PRK00432 30S ribosomal protein S27ae; Validated

Probab=99.52  E-value=7.9e-15  Score=86.93  Aligned_cols=43  Identities=51%  Similarity=0.969  Sum_probs=40.1

Q ss_pred             eeeeeeeEEEcCCCcEEEecccCCCCCCCccEEeceeCCcccccCCC
Q 032224           99 KLAVLQFYKVDDSGKVQRLRKECPNAECGAGTFMASHFDRHYCEFVP  145 (145)
Q Consensus        99 k~~v~k~~~v~~~~~~~~l~~~c~~~~c~~g~~ma~h~~~~~c~~~~  145 (145)
                      ++++++||+|+ +++|.++++.||  +||++ |||.|.+|++||+|.
T Consensus         2 ~~~~~~~y~v~-~~~v~~~~~fCP--~Cg~~-~m~~~~~r~~C~~Cg   44 (50)
T PRK00432          2 KMAKREYYEVD-GGKVKRKNKFCP--RCGSG-FMAEHLDRWHCGKCG   44 (50)
T ss_pred             CcceeeeEEEC-CCEEEEccCcCc--CCCcc-hheccCCcEECCCcC
Confidence            68999999998 669999999999  89999 999999999999984

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

Probab=99.49  E-value=1.5e-13  Score=87.11  Aligned_cols=71  Identities=34%  Similarity=0.633  Sum_probs=66.0

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCc-CceeeeeCCeeccCCCccccccccCCCEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP-DQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~-~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~   71 (145)
                      |+|+|+..+|+.+.+.|.+++++..|.+.+++..++|+ +.++|+|+|+.|+++.|++++|+.+|++|+|++
T Consensus         1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~L~~~~T~~~~~ied~d~Idv~I   72 (72)
T PF11976_consen    1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDGKRLDPNDTPEDLGIEDGDTIDVII   72 (72)
T ss_dssp             EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETTEEE-TTSCHHHHT-STTEEEEEE-
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECCEEcCCCCCHHHCCCCCCCEEEEEC
Confidence            68999999999999999999999999999999999999 999999999999999999999999999999874

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 ....

>cd01795 USP48_C USP ubiquitin-specific protease

Probab=99.47  E-value=1.5e-13  Score=91.45  Aligned_cols=61  Identities=28%  Similarity=0.335  Sum_probs=56.9

Q ss_pred             EEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeecc-CCCccccccccCCCEEEEEEE
Q 032224           12 TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus        12 ~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~-d~~tL~~~gi~~~sti~l~~~   72 (145)
                      ...++|++++||.+||.+|.+.+++||++|+|+++|+.|. |..||++|||.++++|.|.+.
T Consensus        16 ~~~L~V~~~~TVg~LK~lImQ~f~V~P~dQkL~~dG~~L~DDsrTLssyGv~sgSvl~Llid   77 (107)
T cd01795          16 EKALLVSANQTLKELKIQIMHAFSVAPFDQNLSIDGKILSDDCATLGTLGVIPESVILLKAD   77 (107)
T ss_pred             CceEEeCccccHHHHHHHHHHHhcCCcccceeeecCceeccCCccHHhcCCCCCCEEEEEec
Confidence            4678999999999999999999999999999999999885 568999999999999999875

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,

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

Probab=99.46  E-value=9.1e-14  Score=114.63  Aligned_cols=74  Identities=36%  Similarity=0.577  Sum_probs=69.4

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG   75 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~g   75 (145)
                      +.|+||+.++ .+.|.|..+.||.+||+.|...+++++++++|+|.|++|.|+.+|..|||++|.||||+++..-
T Consensus        16 irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIfaGrILKD~dTL~~~gI~Dg~TvHLVik~~~   89 (493)
T KOG0010|consen   16 IRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFGAPPDQLVLIYAGRILKDDDTLKQYGIQDGHTVHLVIKSQP   89 (493)
T ss_pred             eEEEEecCCc-ceeEecccchHHHHHHHHHHHhcCCChhHeeeeecCccccChhhHHHcCCCCCcEEEEEeccCC
Confidence            4688998876 8999999999999999999999999999999999999999999999999999999999998553

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

Probab=99.38  E-value=1.1e-12  Score=103.68  Aligned_cols=74  Identities=38%  Similarity=0.657  Sum_probs=70.7

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhC--CCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEec
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG--IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR   74 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~g--ip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~   74 (145)
                      |+|+||++.+++|++++.|++||.++|..|+...|  +|++.|+|+|+|+.|.|+.++.+|+|.++.-|.|++.-.
T Consensus         1 m~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLIy~GkiL~D~~tv~Eykv~E~~fiVvMlsK~   76 (340)
T KOG0011|consen    1 MKLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLIYSGKILKDETTVGEYKVKEKKFIVVMLSKD   76 (340)
T ss_pred             CeeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhheeeecceeccCCcchhhhccccCceEEEEEecC
Confidence            89999999999999999999999999999999999  999999999999999999999999999999998888643

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

Probab=99.33  E-value=1.1e-11  Score=81.28  Aligned_cols=70  Identities=21%  Similarity=0.379  Sum_probs=58.8

Q ss_pred             EEEEEeCC-CCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee-eCCe-----ec-cCCCccccccccCCCEEEEEE
Q 032224            2 QIFVKTLT-GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI-FAGK-----QL-EDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus         2 ~I~Vk~~~-g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~-~~G~-----~L-~d~~tL~~~gi~~~sti~l~~   71 (145)
                      .|+|.... ....+..+++++||++||++++..+|+||+.|+|. |.|.     .| +|+.+|++||+++|++|||+-
T Consensus         3 ~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~IhVvD   80 (84)
T cd01789           3 TVNITSSADSFSFEKKYSRGLTIAELKKKLELVVGTPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIHVID   80 (84)
T ss_pred             EEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEEEEe
Confidence            46666543 33456679999999999999999999999999995 7887     45 677899999999999999874

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.

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

Probab=99.25  E-value=4.2e-11  Score=78.73  Aligned_cols=70  Identities=27%  Similarity=0.538  Sum_probs=57.7

Q ss_pred             EEEEEeCCC--CEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeC----Ce---ec-cCCCccccccccCCCEEEEEE
Q 032224            2 QIFVKTLTG--KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFA----GK---QL-EDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus         2 ~I~Vk~~~g--~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~----G~---~L-~d~~tL~~~gi~~~sti~l~~   71 (145)
                      .|+|.+...  ...+..+++++||++||++|+..+|+|++.|+|.+.    +.   .+ +|+.+|++||+.+|.+|+|.-
T Consensus         3 ~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~~dg~~i~V~D   82 (87)
T PF14560_consen    3 KLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSKIEELDDDDATLGSYGIKDGMRIHVVD   82 (87)
T ss_dssp             EEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-STTEEEEEEE
T ss_pred             EEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEEecCCCccccccCCCccEeecCCCCCCCEEEEEe
Confidence            577777654  488899999999999999999999999999999865    21   23 578999999999999999874

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

Probab=99.20  E-value=2.1e-10  Score=78.87  Aligned_cols=77  Identities=29%  Similarity=0.466  Sum_probs=57.7

Q ss_pred             EEEEEeCCCC-EEEEEEcCCCcHHHHHHHHHHHhC-------CCcCceeeeeCCeeccCCCccccccccCCC------EE
Q 032224            2 QIFVKTLTGK-TITLEVESSDTIDNVKAKIQDKEG-------IPPDQQRLIFAGKQLEDGRTLADYNIQKES------TL   67 (145)
Q Consensus         2 ~I~Vk~~~g~-~~~l~V~~~~TV~~LK~~I~~~~g-------ip~~~q~L~~~G~~L~d~~tL~~~gi~~~s------ti   67 (145)
                      .|.++..+|. .-++.+++++||++||+.|...+.       ..++.++|+|.|+.|+|+.+|+++.+..++      ++
T Consensus         4 ~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~tL~~~~~~~~~~~~~~~vm   83 (111)
T PF13881_consen    4 ELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNKTLSDCRLPSGETPGGPTVM   83 (111)
T ss_dssp             EEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSSBTGGGT--TTSETT--EEE
T ss_pred             EEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcCcHHHhCCCCCCCCCCCEEE
Confidence            5677777999 788999999999999999987652       234679999999999999999999987766      57


Q ss_pred             EEEEEecCCcc
Q 032224           68 HLVLRLRGGAK   78 (145)
Q Consensus        68 ~l~~~~~gg~~   78 (145)
                      ||++++.....
T Consensus        84 Hlvvrp~~~~~   94 (111)
T PF13881_consen   84 HLVVRPNAPEP   94 (111)
T ss_dssp             EEEE-SSSSSS
T ss_pred             EEEecCCCCCc
Confidence            88887665443

>PLN02560 enoyl-CoA reductase

Probab=99.20  E-value=6.1e-11  Score=94.58  Aligned_cols=73  Identities=32%  Similarity=0.544  Sum_probs=63.6

Q ss_pred             CEEEEEeCCCCEE---EEEEcCCCcHHHHHHHHHHHhCC-CcCceeeeeC---C----eeccCCCccccccccCCCEEEE
Q 032224            1 MQIFVKTLTGKTI---TLEVESSDTIDNVKAKIQDKEGI-PPDQQRLIFA---G----KQLEDGRTLADYNIQKESTLHL   69 (145)
Q Consensus         1 M~I~Vk~~~g~~~---~l~V~~~~TV~~LK~~I~~~~gi-p~~~q~L~~~---G----~~L~d~~tL~~~gi~~~sti~l   69 (145)
                      |+|+|+..+|+.+   ++++++++||+|||++|++..++ ++++|+|.+.   |    ..|+|+.+|+++|++++++|+ 
T Consensus         1 M~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~gv~~gstLy-   79 (308)
T PLN02560          1 MKVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVLDDSKSLKDYGLGDGGTVV-   79 (308)
T ss_pred             CEEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCccccCCCCCHHhcCCCCCceEE-
Confidence            8999998889886   79999999999999999999986 8999999973   3    378999999999999999865 


Q ss_pred             EEEecC
Q 032224           70 VLRLRG   75 (145)
Q Consensus        70 ~~~~~g   75 (145)
                       ++.+|
T Consensus        80 -~kDLG   84 (308)
T PLN02560         80 -FKDLG   84 (308)
T ss_pred             -EEeCC
Confidence             45555

>cd01788 ElonginB Ubiquitin-like domain of Elongin B

Probab=99.19  E-value=1.1e-10  Score=79.57  Aligned_cols=77  Identities=30%  Similarity=0.437  Sum_probs=66.3

Q ss_pred             CEEEEEeCCCC-EEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccc-------cCCCEEEEEEE
Q 032224            1 MQIFVKTLTGK-TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNI-------QKESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g~-~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi-------~~~sti~l~~~   72 (145)
                      |.+|++....+ ++.++..++.||.+||+.|+.....||++|+|+-.+..|+|+++|++||+       ++.++|-|.++
T Consensus         1 MdvFlmIrR~KTTiF~dakes~tVlelK~~iegI~k~pp~dQrL~kd~qvLeD~kTL~d~g~t~~~akaq~pA~vgLa~r   80 (119)
T cd01788           1 MDVFLMIRRHKTTIFTDAKESTTVYELKRIVEGILKRPPEDQRLYKDDQLLDDGKTLGDCGFTSQTARPQAPATVGLAFR   80 (119)
T ss_pred             CceEEEEEecceEEEeecCCcccHHHHHHHHHHHhcCChhHheeecCceeecccccHHHcCccccccccCCCCeEEEEEe
Confidence            66777766555 68889999999999999999999999999999977789999999999999       66888888887


Q ss_pred             ecCCc
Q 032224           73 LRGGA   77 (145)
Q Consensus        73 ~~gg~   77 (145)
                      ...|.
T Consensus        81 ~~d~~   85 (119)
T cd01788          81 SSDDT   85 (119)
T ss_pred             cCCCC
Confidence            54443

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.

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

Probab=99.17  E-value=3.5e-10  Score=70.10  Aligned_cols=73  Identities=84%  Similarity=1.145  Sum_probs=68.4

Q ss_pred             EEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecC
Q 032224            3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG   75 (145)
Q Consensus         3 I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~g   75 (145)
                      +++....|+++.+.+.+..++..+|.+|+...++|++.|++.+.|+.|+|+.+|.+|+|..++++++..++.+
T Consensus         2 ~~~~~~~gk~~~~~~~~~~~i~~~k~~i~~~~~~~~~~q~~~~~~~~l~d~~~l~~~~i~~~~~~~l~~~~~~   74 (75)
T KOG0001|consen    2 IFVKTLDGKTITLEVSPSDTIEVVKAKIRDKEGIPVDQQRLIFGGKPLEDGRTLADYNIQEGSTLHLVLSLRG   74 (75)
T ss_pred             EEEEecCCCEEEEEecCCCHHHHHHHHHHhhcCCCCeeEEEEECCEECcCCCcHHHhCCCCCCEEEEEEecCC
Confidence            5677788999999999999999999999999999999999999999999999999999999999999988653

>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13

Probab=99.00  E-value=1.4e-09  Score=69.89  Aligned_cols=68  Identities=26%  Similarity=0.318  Sum_probs=53.9

Q ss_pred             EEEEEeCC-CCEEEEEE-cCCCcHHHHHHHHHHHhC-CCcCceeee--eCCeeccCCCccccccccCCCEEEE
Q 032224            2 QIFVKTLT-GKTITLEV-ESSDTIDNVKAKIQDKEG-IPPDQQRLI--FAGKQLEDGRTLADYNIQKESTLHL   69 (145)
Q Consensus         2 ~I~Vk~~~-g~~~~l~V-~~~~TV~~LK~~I~~~~g-ip~~~q~L~--~~G~~L~d~~tL~~~gi~~~sti~l   69 (145)
                      +|.++..+ .....+++ +++.||.+||+.|+...+ +++++|+|.  +.|+.|.|+.+|+++|+.+|++|++
T Consensus         2 ~i~~~~~~~k~~~~~~~~~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~~L~d~~tL~~~gv~~g~~lyv   74 (77)
T cd01801           2 EILDAKRSDKPIGKLKVSSGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGKSLKDDDTLVDLGVGAGATLYV   74 (77)
T ss_pred             eeeccccCcCceeecccCCCCccHHHHHHHHHHHcCCCCcceeEEEeCCCCcccCCcccHhhcCCCCCCEEEE
Confidence            45665554 33222333 588999999999999876 578999885  8899999999999999999999876

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.

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

Probab=98.93  E-value=1.6e-09  Score=96.00  Aligned_cols=72  Identities=35%  Similarity=0.607  Sum_probs=68.9

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEec
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR   74 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~   74 (145)
                      .|+||+++.++.+|.|...+||.+||+.|.+..+|+.+.|||+|.|+.|.|++++.+|+| +|-+|||+-|+.
T Consensus         4 ~v~vktld~r~~t~~ig~q~ti~~~~d~~r~~~ni~s~~qr~i~~grvl~~~k~vq~~~v-dgk~~hlverpp   75 (1143)
T KOG4248|consen    4 NVLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVNIPSEKQRLIYQGRVLQDDKKVQEYNV-DGKVIHLVERPP   75 (1143)
T ss_pred             ceeeeecccceeEEEechHHHHHHHHHHHHHhcccccccceeeecceeeccchhhhhccC-CCeEEEeeccCC
Confidence            478999999999999999999999999999999999999999999999999999999999 999999998854

>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=98.92  E-value=4e-09  Score=68.44  Aligned_cols=69  Identities=29%  Similarity=0.434  Sum_probs=43.5

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCC---eec--cCCCccccccccCCCEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG---KQL--EDGRTLADYNIQKESTLHLV   70 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G---~~L--~d~~tL~~~gi~~~sti~l~   70 (145)
                      |-|.|++.+| ++.|++++++|+.+|+++|++..++|.+.|.|..+.   ..|  .++.+|+++||+.|+.|+|.
T Consensus         5 milRvrS~dG-~~Rie~~~~~t~~~L~~kI~~~l~~~~~~~~L~~~~~~~~~l~s~~~~tl~~lglkHGdmlyL~   78 (80)
T PF11543_consen    5 MILRVRSKDG-MKRIEVSPSSTLSDLKEKISEQLSIPDSSQSLSKDRNNKEELKSSDSKTLSSLGLKHGDMLYLK   78 (80)
T ss_dssp             -EEEEE-SSE-EEEEEE-TTSBHHHHHHHHHHHS---TTT---BSSGGGGGCSSS-TT-CCCCT---TT-EEE--
T ss_pred             EEEEEECCCC-CEEEEcCCcccHHHHHHHHHHHcCCCCcceEEEecCCCCcccccCCcCCHHHcCCCCccEEEEe
Confidence            5677887765 778899999999999999999999999999886432   244  46789999999999999874

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.

>cd00196 UBQ Ubiquitin-like proteins

Probab=98.81  E-value=3.8e-08  Score=58.02  Aligned_cols=66  Identities=45%  Similarity=0.659  Sum_probs=59.9

Q ss_pred             EeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEE
Q 032224            6 KTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus         6 k~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~   71 (145)
                      +..++....+.+++++|+.+|++.|.+..|++++.+.|+++|..+.+...+.++++.++++|++..
T Consensus         3 ~~~~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~   68 (69)
T cd00196           3 KLNDGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSLTLEDYGLQDGDELVLVP   68 (69)
T ss_pred             EecCCCEEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence            344678889999999999999999999999999999999999999999888899999999998764

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.

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

Probab=98.56  E-value=4.9e-07  Score=57.23  Aligned_cols=70  Identities=29%  Similarity=0.407  Sum_probs=60.2

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeC---C--eeccCCCccccccccCCCEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFA---G--KQLEDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~---G--~~L~d~~tL~~~gi~~~sti~l~~   71 (145)
                      +||+|+...+..+.+.|+|..+|..||++|....+++- .|+|.|.   |  +.|.+..+|++|||-..-.|-|+-
T Consensus         1 iqVtV~q~g~~dl~l~vnPy~pI~k~K~kI~~~~~~~g-~qrLsfQepgg~rqlL~s~~sLA~yGiFs~~~i~lle   75 (80)
T cd01811           1 IQVTVEQTGYSDWILRVNPYSPIRKIKEKIRRSRNCSG-LQRLSFQEPGGERQLLSSRKSLADYGIFSKTNICLLE   75 (80)
T ss_pred             CEEEeeecCCCceEEEeCCcchHHHHHHHHHHhhCccc-ceEEEeecCCcccccccccccHhhhcceeccEEEEEe
Confidence            58999998888999999999999999999999999976 8999983   3  367899999999997776666553

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.

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

Probab=98.51  E-value=1.2e-06  Score=58.43  Aligned_cols=76  Identities=17%  Similarity=0.427  Sum_probs=69.6

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCc
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGA   77 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~   77 (145)
                      +|.|...++.+..+.|..++++..|+....++.|++.+.++++|+|+.+.+..|-++++..+++.|.++....||.
T Consensus        22 ~LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~Gl~~~s~RFlFdG~rI~~~~TP~~L~mEd~D~Iev~~~q~gG~   97 (99)
T KOG1769|consen   22 NLKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQGLSMNSLRFLFDGQRIRETHTPADLEMEDGDEIEVVQEQTGGF   97 (99)
T ss_pred             EEEEecCCCCEEEEEeecCChHHHHHHHHHHHcCCccceEEEEECCcCcCCCCChhhhCCcCCcEEEEEeecccCC
Confidence            4556665677888999999999999999999999999999999999999999999999999999999999988885

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

Probab=98.49  E-value=2.8e-07  Score=73.19  Aligned_cols=73  Identities=34%  Similarity=0.636  Sum_probs=62.5

Q ss_pred             CEEEEEeC-CC--CEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEE-EEe
Q 032224            1 MQIFVKTL-TG--KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV-LRL   73 (145)
Q Consensus         1 M~I~Vk~~-~g--~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~-~~~   73 (145)
                      |.++|+.. .|  ..++|+|+.+.+|.+||+.++.+.|+|+++.+++|.|+.|.|+.++..+.+..-+.+|++ +|+
T Consensus         1 m~~lvqf~~~~~~h~l~v~v~~~t~I~~lke~Vak~~gvp~D~L~viFaGKeLs~~ttv~~cDL~qqs~~hi~~lRP   77 (446)
T KOG0006|consen    1 MIVLVQFNKTGSSHGLPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELSNDTTVQNCDLSQQSATHIMLLRP   77 (446)
T ss_pred             CeEEEEeCCccccCceeEEEecCCCHHHHHHHHHHhhCCChhheEEEEeccccccCceeecccccccchhhhhccCc
Confidence            66777654 12  358899999999999999999999999999999999999999999998888777787776 554

>KOG3493 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]

Probab=98.43  E-value=1.3e-07  Score=58.24  Aligned_cols=69  Identities=26%  Similarity=0.398  Sum_probs=61.6

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEE
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV   70 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~   70 (145)
                      ++.+...-|+...+...+++||+|+|..|+..+|..++.+.|--.+..+.|.-+|++|.|.+|..+.+.
T Consensus         3 ev~~nDrLGKKVRvKCn~dDtiGD~KKliaaQtGT~~~kivl~k~~~i~kd~I~L~dyeihdg~~lely   71 (73)
T KOG3493|consen    3 EVVLNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHITLSDYEIHDGMNLELY   71 (73)
T ss_pred             eehhhhhcCceEEEEeCCcccccCHHHHHHHhhCCChhHhHHHhhhhhhhcccceeeEEeccCccEEEe
Confidence            566666778999999999999999999999999999998888877778999999999999999888765

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

Probab=98.38  E-value=8.5e-07  Score=73.45  Aligned_cols=73  Identities=25%  Similarity=0.448  Sum_probs=65.0

Q ss_pred             EEEEeCCCCEEEEE-EcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            3 IFVKTLTGKTITLE-VESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         3 I~Vk~~~g~~~~l~-V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |.|+ ..|+.+.++ ++.++|+..||+++...+|+||++|++++.|..+.|+-.+..++|+++.+|+++-....+
T Consensus         6 v~VK-W~gk~y~v~~l~~d~t~~vlKaqlf~LTgV~PeRQKv~vKGg~a~dd~~~~al~iKpn~~lmMmGt~e~~   79 (473)
T KOG1872|consen    6 VIVK-WGGKKYPVETLSTDETPSVLKAQLFALTGVPPERQKVMVKGGLAKDDVDWGALQIKPNETLMMMGTAEAG   79 (473)
T ss_pred             Eeee-ecCccccceeccCCCchHHHHHHHHHhcCCCccceeEEEecccccccccccccccCCCCEEEeecccccc
Confidence            5665 468899987 999999999999999999999999999999999999988999999999999988654433

>PF13019 Telomere_Sde2: Telomere stability and silencing

Probab=98.36  E-value=3.6e-06  Score=61.16  Aligned_cols=78  Identities=29%  Similarity=0.503  Sum_probs=60.9

Q ss_pred             CEEEEEeCCC----CEEEEEEcCCCcHHHHHHHHHHHhCCCcCce-eeee-CCeec--cCCCccccccccCC----CEEE
Q 032224            1 MQIFVKTLTG----KTITLEVESSDTIDNVKAKIQDKEGIPPDQQ-RLIF-AGKQL--EDGRTLADYNIQKE----STLH   68 (145)
Q Consensus         1 M~I~Vk~~~g----~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q-~L~~-~G~~L--~d~~tL~~~gi~~~----sti~   68 (145)
                      |+|+|.+++|    .++.+.+++++||++|+..|.+..++++..| .|.+ .+..|  .++..++++.-.+.    -++.
T Consensus         1 i~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~~~L~~~~n~~l~~~~~~~~s~l~~~~~~~~~~~l~   80 (162)
T PF13019_consen    1 INVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLPIPSSSQLYLTTNSNGQLSPSSDIPLSSLLSSSQDSDFITLR   80 (162)
T ss_pred             CeEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcCCCccceeEEEEeCCCeeCCCccccHHhhccCcCCCCceEEE
Confidence            7899999999    5888999999999999999999999998874 4444 34444  45566666654333    3789


Q ss_pred             EEEEecCCcc
Q 032224           69 LVLRLRGGAK   78 (145)
Q Consensus        69 l~~~~~gg~~   78 (145)
                      |.+++.||+-
T Consensus        81 l~~rl~GGKG   90 (162)
T PF13019_consen   81 LSLRLRGGKG   90 (162)
T ss_pred             EEEeccCCCc
Confidence            9999999976

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

Probab=98.27  E-value=1.3e-06  Score=57.91  Aligned_cols=62  Identities=29%  Similarity=0.435  Sum_probs=51.5

Q ss_pred             CEEEEEeCCC-CEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeee-CC-eeccCCCcccccccc
Q 032224            1 MQIFVKTLTG-KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF-AG-KQLEDGRTLADYNIQ   62 (145)
Q Consensus         1 M~I~Vk~~~g-~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~-~G-~~L~d~~tL~~~gi~   62 (145)
                      |.++++.... .++.++..++.||.+||..++....-|++.|+|+. +. +.|+|..+|+++|..
T Consensus         1 ~~~f~~VrR~kttif~da~es~tV~elK~~l~gi~~~Pvn~qrL~kmd~eqlL~D~ktL~d~gft   65 (110)
T KOG4495|consen    1 MDVFLRVRRHKTTIFTDAKESSTVFELKRKLEGILKRPVNEQRLYKMDTEQLLDDGKTLGDCGFT   65 (110)
T ss_pred             CceeeeeeecceeEEeecCccccHHHHHHHHHHHHhCCCcchheeecCHHHHhhccchhhhcccc
Confidence            4566655433 46888999999999999999999999999999986 44 578999999999763

>PF08817 YukD: WXG100 protein secretion system (Wss), protein YukD; InterPro: IPR014921 YukD is a bacterial protein that adopts a ubiquitin-like fold []

Probab=98.15  E-value=1.3e-05  Score=51.67  Aligned_cols=68  Identities=24%  Similarity=0.405  Sum_probs=49.3

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcC------ceeee-eCCeeccCCCccccccccCCCEEEE
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPD------QQRLI-FAGKQLEDGRTLADYNIQKESTLHL   69 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~------~q~L~-~~G~~L~d~~tL~~~gi~~~sti~l   69 (145)
                      .|+|...+|+.+.+.++.+.+|.+|...|.+..+.+..      ...|. -+|..|+++.+|+++||.+|+.+.+
T Consensus         4 rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~~~g~~L~~~~tL~~~gV~dGd~L~L   78 (79)
T PF08817_consen    4 RVTVDAGNGRQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLARAGGRPLDPDQTLADAGVRDGDVLVL   78 (79)
T ss_dssp             EEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG-GGTEEEETTSBCGGGT--TT-EEEE
T ss_pred             EEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEEecCCcccCCcCcHhHcCCCCCCEEEe
Confidence            46666545688999999999999999999998876432      24666 6889999999999999999999976

Ubiquitin covalently binds to protein and flags them for protein degradation, however conjugation assays have indicated that YukD lacks the capacity for covalent bond formation with other proteins []. ; PDB: 2BPS_B.

>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=97.97  E-value=0.00012  Score=47.05  Aligned_cols=68  Identities=24%  Similarity=0.361  Sum_probs=57.4

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCc-eeee--eCCeeccCC--CccccccccCCCEEEE
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQ-QRLI--FAGKQLEDG--RTLADYNIQKESTLHL   69 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~-q~L~--~~G~~L~d~--~tL~~~gi~~~sti~l   69 (145)
                      .|.||.++|+.+...+.+++||.+|.+-|......+... ..|+  |-.+.+.++  .+|++.|+.+.++|+|
T Consensus         8 ~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~~~~Pr~~l~~~~~~tl~e~~l~p~~~l~v   80 (82)
T PF00789_consen    8 RIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSPEESDFELITAFPRRELTDEDSKTLEEAGLLPSATLIV   80 (82)
T ss_dssp             EEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEEESSSTEECCSTTTSBTCCCTTSSCEEEEE
T ss_pred             EEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCCCCccEEEEeCCCCcCCCccccccHHHhcCCCCeEEEE
Confidence            588999999999999999999999999999887766654 6675  666777543  7999999999999876

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=97.94  E-value=5.7e-05  Score=47.05  Aligned_cols=63  Identities=19%  Similarity=0.252  Sum_probs=47.0

Q ss_pred             eCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEE
Q 032224            7 TLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHL   69 (145)
Q Consensus         7 ~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l   69 (145)
                      ..+++.+.+.+.|++++.++-++..+.+++++++-.|.|+++.|+-+.++.-.|+.+|+.+.+
T Consensus         3 ~~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~~~~~L~h~~k~ldlslp~R~snL~n~akLeL   65 (65)
T PF11470_consen    3 CYNFRRFKVKVTPNTTLNQVLEEACKKFGLDPSSYDLKHNNKPLDLSLPFRLSNLPNNAKLEL   65 (65)
T ss_dssp             -TTS-EEEE---TTSBHHHHHHHHHHHTT--GGG-EEEETTEEESSS-BHHHH---SS-EEEE
T ss_pred             ccCCcEEEEEECCCCCHHHHHHHHHHHcCCCccceEEEECCEEeccccceeecCCCCCCEEeC
Confidence            457889999999999999999999999999999999999999999999999999999999875

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.

>smart00166 UBX Domain present in ubiquitin-regulatory proteins

Probab=97.80  E-value=0.0002  Score=46.01  Aligned_cols=68  Identities=22%  Similarity=0.260  Sum_probs=55.7

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee--eCCeeccC---CCccccccccCCCEEEE
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLED---GRTLADYNIQKESTLHL   69 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~--~~G~~L~d---~~tL~~~gi~~~sti~l   69 (145)
                      .|.||.++|+.+...+.+++||.+|.+.|....+.......|+  |-.+.+.+   +.+|.+.|+.+.++|.|
T Consensus         6 ~I~iRlPdG~ri~~~F~~~~tl~~v~~~v~~~~~~~~~~f~L~t~~Prk~l~~~d~~~tL~e~gL~p~~~l~v   78 (80)
T smart00166        6 RLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALTDGNDPFTLNSPFPRRTFTKDDYSKTLLELALLPSSTLVL   78 (80)
T ss_pred             EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHcccCCCCCEEEEeCCCCcCCccccccCCHHHCCCCCceEEEE
Confidence            5889999999999999999999999999976666666666775  56667753   47999999988888765

Present in FAF1 and Shp1p.

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

Probab=97.74  E-value=3.6e-05  Score=50.57  Aligned_cols=76  Identities=18%  Similarity=0.385  Sum_probs=68.2

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCc
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGA   77 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~   77 (145)
                      .+.|...+|.++.+.|-.++|...|....+.+.|-..++.|++|+|..++-++|-.+++..+++.|.++....||+
T Consensus        26 nLkvv~qd~telfFkiKktT~f~klm~af~~rqGK~m~slRfL~dG~rI~~dqTP~dldmEdnd~iEav~eQvGG~  101 (103)
T COG5227          26 NLKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQGKNMSSLRFLFDGKRIDLDQTPGDLDMEDNDEIEAVTEQVGGA  101 (103)
T ss_pred             ceEEecCCCCEEEEEEeccchHHHHHHHHHHHhCcCcceeEEEEcceecCCCCChhhcCCccchHHHHHHHHhcCc
Confidence            3455556788899999999999999999999999999999999999999999999999999999998887777775

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

Probab=97.71  E-value=0.0001  Score=49.45  Aligned_cols=58  Identities=21%  Similarity=0.352  Sum_probs=45.1

Q ss_pred             EEEEEeCCC-CEEEEEEc--CCCcHHHHHHHHHHHhC--CCcCceeeeeCCeeccCCCccccc
Q 032224            2 QIFVKTLTG-KTITLEVE--SSDTIDNVKAKIQDKEG--IPPDQQRLIFAGKQLEDGRTLADY   59 (145)
Q Consensus         2 ~I~Vk~~~g-~~~~l~V~--~~~TV~~LK~~I~~~~g--ip~~~q~L~~~G~~L~d~~tL~~~   59 (145)
                      .|.|+..++ ..+.++++  .+.||..||+.|.+...  ..-.+++|+|+|+.|.|+..|+..
T Consensus         2 ~l~IRFs~sipDl~L~I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d~t~l~~~   64 (97)
T PF10302_consen    2 YLTIRFSDSIPDLPLDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDHTDLSSE   64 (97)
T ss_pred             eEEEEECCCCCCceeecCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCccchhhhh
Confidence            367777663 34677777  78999999999999883  333578999999999998877654

They contain a characteristic GFDRL sequence motif.

>cd01772 SAKS1_UBX SAKS1-like UBX domain

Probab=97.63  E-value=0.00062  Score=43.81  Aligned_cols=67  Identities=16%  Similarity=0.324  Sum_probs=54.3

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee--eCCeeccC---CCccccccccCCCEEEE
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLED---GRTLADYNIQKESTLHL   69 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~--~~G~~L~d---~~tL~~~gi~~~sti~l   69 (145)
                      .|.||.++|+.+...++.++|+++|.+.|....+.+ ....|+  |-.+.+.+   +.+|.+.|+.+.++|.|
T Consensus         6 ~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~~~~~-~~f~L~t~fPrk~~~~~d~~~TL~elgL~Psa~L~v   77 (79)
T cd01772           6 RIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTGNG-GPFTLMTPFPRKVFTEDDMEKPLQELGLVPSAVLIV   77 (79)
T ss_pred             EEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCCCC-CCEEEEeCCCCeECCcccccCCHHHCCCCCceEEEE
Confidence            578999999999999999999999999998765433 445565  66677753   48999999999888876

SAKS1 (SAPK-substrate-1), also known as Y33K, is a widely expressed protein containing N-terminal UBA (ubiquitin-associated) and C-terminal UBX (ubiqiutin-like) domains that was identified as a substrate of stress-activated protein kinases (SAPKs). SAKS1 is related evolutionarily to two other UBA/UBX-containing proteins, p47 and Faf1. The UBA and UBX domains of SAKS1 bind ubiquitin tetramers and valosin-containing protein (VCP), respectively suggesting a role for SAKS1 as an adaptor that directs VCP to polyubiquitinated proteins facilitating its destruction by the proteasome. 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=97.51  E-value=0.00089  Score=43.16  Aligned_cols=65  Identities=22%  Similarity=0.287  Sum_probs=51.3

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCC-cCceeee--eCCeecc-CCCccccccccCCCE
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIP-PDQQRLI--FAGKQLE-DGRTLADYNIQKEST   66 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip-~~~q~L~--~~G~~L~-d~~tL~~~gi~~~st   66 (145)
                      .|.||.++|+.+...+..++||++|.+-|....+-+ .....|.  |-.+.|. ++.||.|.|+.+.+.
T Consensus         6 ~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~~~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~s~v   74 (79)
T cd01770           6 SIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLMTAFPVKELSDESLTLKEANLLNAVI   74 (79)
T ss_pred             EEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEecCCCCcccCCCCCcHHHCCCcCcEE
Confidence            588999999999999999999999999999865432 2445665  6677774 478999999986433

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.

>cd01767 UBX UBX (ubiquitin regulatory X) domain

Probab=97.48  E-value=0.0011  Score=42.17  Aligned_cols=66  Identities=15%  Similarity=0.265  Sum_probs=51.0

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee--eCCeecc---CCCccccccccCCCEEEE
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLE---DGRTLADYNIQKESTLHL   69 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~--~~G~~L~---d~~tL~~~gi~~~sti~l   69 (145)
                      .|.||.++|+.+...++.++||++|.+-|.....- .....|+  |-.+.+.   .+.+|.+.|+.+ +++.+
T Consensus         4 ~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~~~-~~~f~L~t~~Pr~~~~~~~~~~TL~e~gL~~-s~~~~   74 (77)
T cd01767           4 KIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNGPP-AEPFTLMTSFPRRVLTDLDYELTLQEAGLVN-EVVFQ   74 (77)
T ss_pred             EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcCCC-CCCEEEEeCCCCccCCCCCccCcHHHcCCcc-ceEEE
Confidence            58899999999999999999999999999876433 4445565  5556664   478999999984 44433

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.

>cd01773 Faf1_like1_UBX Faf1 ike-1 UBX domain

Probab=97.43  E-value=0.0018  Score=42.13  Aligned_cols=69  Identities=16%  Similarity=0.328  Sum_probs=58.3

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee--eCCeec---cCCCccccccccCCCEEEEEE
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQL---EDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~--~~G~~L---~d~~tL~~~gi~~~sti~l~~   71 (145)
                      +|.||.++|+...-.+..++++++|-..+.. .|.+++...|+  |--+.+   +.+.+|.+.|+.+.++|.|.-
T Consensus         7 ~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~-~g~~~~~f~L~t~FPRr~~~~~d~~~TL~e~GL~P~~~LfVq~   80 (82)
T cd01773           7 RLMLRYPDGKREQIALPEQAKLLALVRHVQS-KGYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQE   80 (82)
T ss_pred             EEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cCCCCCCEEEecCCCCcccCCcccCCCHHHcCCCCCcEEEEec
Confidence            5889999999999999999999999999988 57788888887  555555   335899999999999988754

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.

>KOG1639 consensus Steroid reductase required for elongation of the very long chain fatty acids [Lipid transport and metabolism]

Probab=97.38  E-value=0.00041  Score=53.68  Aligned_cols=73  Identities=29%  Similarity=0.388  Sum_probs=54.4

Q ss_pred             CEEEEEeCCCC-EEE-EEEcCCCcHHHHHHHHHHHh-CCCcCceee----eeCCeeccCCCccccccccCCCEEEEEEEe
Q 032224            1 MQIFVKTLTGK-TIT-LEVESSDTIDNVKAKIQDKE-GIPPDQQRL----IFAGKQLEDGRTLADYNIQKESTLHLVLRL   73 (145)
Q Consensus         1 M~I~Vk~~~g~-~~~-l~V~~~~TV~~LK~~I~~~~-gip~~~q~L----~~~G~~L~d~~tL~~~gi~~~sti~l~~~~   73 (145)
                      |.|++.+.++. ... .+.+...|+.|++..|.... .+.+..+++    .-+|++|-|+.+|++|++.++++|.  ++.
T Consensus         1 m~It~~srs~~~~~~~~~~s~~~ti~d~~~~~~~~~~k~~~~~~r~tlr~e~kgkpl~~~s~l~e~~~~s~~~i~--vKD   78 (297)
T KOG1639|consen    1 MEITIASRSKGLRIKEKDLSGSETIDDLLKAISAKNLKITPYRIRLTLRVEPKGKPLIDNSKLQEYGDGSGATIY--VKD   78 (297)
T ss_pred             CceeeeccCCCceeeeecCCCCCcHHHHHHHHHHhhhccCccchhheeeccCCCccccchhHHHHhccCCCCEEE--Eec
Confidence            78999887663 333 67778899999998887654 566644433    3579999999999999998886654  565


Q ss_pred             cC
Q 032224           74 RG   75 (145)
Q Consensus        74 ~g   75 (145)
                      +|
T Consensus        79 LG   80 (297)
T KOG1639|consen   79 LG   80 (297)
T ss_pred             cC
Confidence            55

>COG5417 Uncharacterized small protein [Function unknown]

Probab=97.37  E-value=0.0016  Score=41.32  Aligned_cols=64  Identities=19%  Similarity=0.254  Sum_probs=54.4

Q ss_pred             EeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCc-----CceeeeeCCeeccCCCccccccccCCCEEEE
Q 032224            6 KTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP-----DQQRLIFAGKQLEDGRTLADYNIQKESTLHL   69 (145)
Q Consensus         6 k~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~-----~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l   69 (145)
                      +..+|.++.+.++.-.++..|-..+.+...+..     ..+++.-.++.|.++..|.+|+|.+|+.+.+
T Consensus        12 t~y~g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~llsgd~kL~d~~IadGD~Lei   80 (81)
T COG5417          12 TNYNGGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGDILEI   80 (81)
T ss_pred             EecCCceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEecCCceEEeccccCCCEEEe
Confidence            556789999999999999999988887765432     3468888999999999999999999999875

>KOG0013 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.30  E-value=0.00056  Score=51.64  Aligned_cols=65  Identities=28%  Similarity=0.431  Sum_probs=58.0

Q ss_pred             CCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEe
Q 032224            9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRL   73 (145)
Q Consensus         9 ~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~   73 (145)
                      .++.+.+.++.-+|+.++|.++.+..++.+-.|+++|+|..|-|...|.+++|..|+...|.+..
T Consensus       155 T~~d~~lta~~~Dtv~eik~~L~Aaeg~D~~sQrif~Sg~~l~dkt~LeEc~iekg~rYvlqviV  219 (231)
T KOG0013|consen  155 TREDFWLTAPHYDTVGEIKRALRAAEGVDPLSQRIFFSGGVLVDKTDLEECKIEKGQRYVLQVIV  219 (231)
T ss_pred             hhhheeecccCcCcHHHHHHHHHHhhccchhhheeeccCCceeccccceeeeecCCCEEEEEEEe
Confidence            45678889999999999999999999999999999999999999999999999999776655543

>cd01771 Faf1_UBX Faf1 UBX domain

Probab=97.25  E-value=0.0031  Score=40.77  Aligned_cols=68  Identities=21%  Similarity=0.329  Sum_probs=56.8

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee--eCCeecc---CCCccccccccCCCEEEEE
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLE---DGRTLADYNIQKESTLHLV   70 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~--~~G~~L~---d~~tL~~~gi~~~sti~l~   70 (145)
                      +|.||.++|+.+.-.+..++++++|-.-|... |.++...+|+  |--+.+.   .+.+|.+.|+....+|.|-
T Consensus         6 ~i~iRlP~G~r~~rrF~~t~~L~~l~~fv~~~-~~~~~~f~L~t~fPRk~~~~~d~~~TL~e~gL~p~~~L~Ve   78 (80)
T cd01771           6 KLRVRTPSGDFLERRFLGDTPLQVLLNFVASK-GYPIDEYKLLSSWPRRDLTQLDPNFTLLELKLYPQETLILE   78 (80)
T ss_pred             EEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc-CCCCCCEEEecCCCCCCCcCCCCCCcHHHcCCCCCcEEEEE
Confidence            68899999999999999999999999999875 7777778886  5556663   3579999999998888764

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.

>cd01774 Faf1_like2_UBX Faf1 ike-2 UBX domain

Probab=97.19  E-value=0.0044  Score=40.51  Aligned_cols=68  Identities=12%  Similarity=0.177  Sum_probs=54.6

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeC--Ceecc--------CCCccccccccCCCEEEEE
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFA--GKQLE--------DGRTLADYNIQKESTLHLV   70 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~--G~~L~--------d~~tL~~~gi~~~sti~l~   70 (145)
                      +|.||.++|+.+.-.+..++||++|.+-|.. .+..++...|+.+  -+.+.        .+.||.+.||.+.++|.|.
T Consensus         6 ~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~-~~~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s~~L~V~   83 (85)
T cd01774           6 KIVFKLPNGTRVERRFLFTQSLRVIHDFLFS-LKETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSNSEVLFVQ   83 (85)
T ss_pred             EEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-CCCCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCCccEEEEe
Confidence            6889999999999999999999999999965 3455677778743  36664        3679999999988887664

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.

>KOG3206 consensus Alpha-tubulin folding cofactor B [Posttranslational modification, protein turnover, chaperones]

Probab=96.92  E-value=0.003  Score=47.72  Aligned_cols=73  Identities=15%  Similarity=0.273  Sum_probs=55.7

Q ss_pred             EEEEEeCCCC-EEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee-eCC-----eecc-CCCccccccccCCCEEEEEEEe
Q 032224            2 QIFVKTLTGK-TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI-FAG-----KQLE-DGRTLADYNIQKESTLHLVLRL   73 (145)
Q Consensus         2 ~I~Vk~~~g~-~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~-~~G-----~~L~-d~~tL~~~gi~~~sti~l~~~~   73 (145)
                      .|.|.+.... .....+++++||.+||.+++-.+|.+++.+.|. |+|     ..|+ ++..|..|+..+|-.||++-..
T Consensus         3 ~v~Iss~~~~~~~Ekr~~~~ltl~q~K~KLe~~~G~~~~~M~l~l~~~~d~~~~~lsn~d~~lg~~~~~Dg~rihviD~~   82 (234)
T KOG3206|consen    3 RVVISSSLNDFRTEKRLSNSLTLAQFKDKLELLTGTEAESMELELYDGDDKKVSALSNEDADLGFYKVEDGLRIHVIDSN   82 (234)
T ss_pred             EEEEecccccchhhhhcCCcCcHHHHHhhhhhhhCCCccceEEEEEcCCCceeeeccCCcccccccCCCCceEEEEEecC
Confidence            3555443222 245678899999999999999999999999887 655     2454 5688999999999999987554


Q ss_pred             c
Q 032224           74 R   74 (145)
Q Consensus        74 ~   74 (145)
                      .
T Consensus        83 ~   83 (234)
T KOG3206|consen   83 A   83 (234)
T ss_pred             c
Confidence            3

>PRK06437 hypothetical protein; Provisional

Probab=96.78  E-value=0.017  Score=35.92  Aligned_cols=63  Identities=19%  Similarity=0.398  Sum_probs=47.0

Q ss_pred             EEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            5 VKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         5 Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+-.+++...++++...||++|-+++    +++++..-+..+|..+.     .+.-+++|+.|.++--..||
T Consensus         5 ~~v~g~~~~~~~i~~~~tv~dLL~~L----gi~~~~vaV~vNg~iv~-----~~~~L~dgD~Veiv~~V~GG   67 (67)
T PRK06437          5 IRVKGHINKTIEIDHELTVNDIIKDL----GLDEEEYVVIVNGSPVL-----EDHNVKKEDDVLILEVFSGG   67 (67)
T ss_pred             EEecCCcceEEEcCCCCcHHHHHHHc----CCCCccEEEEECCEECC-----CceEcCCCCEEEEEecccCC
Confidence            33334566788888899999988664    78888888889999997     44556789999876544443

>PRK06488 sulfur carrier protein ThiS; Validated

Probab=96.63  E-value=0.019  Score=35.25  Aligned_cols=65  Identities=18%  Similarity=0.398  Sum_probs=45.2

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|   +|+.+.+  + ..|+.+|.+.+    +++++...+-.|+..+.. ...++.-+++|+.|.++--..||
T Consensus         1 m~i~~---Ng~~~~~--~-~~tl~~Ll~~l----~~~~~~vavavN~~iv~~-~~~~~~~L~dgD~Ieiv~~V~GG   65 (65)
T PRK06488          1 MKLFV---NGETLQT--E-ATTLALLLAEL----DYEGNWLATAVNGELVHK-EARAQFVLHEGDRIEILSPMQGG   65 (65)
T ss_pred             CEEEE---CCeEEEc--C-cCcHHHHHHHc----CCCCCeEEEEECCEEcCH-HHcCccccCCCCEEEEEEeccCC
Confidence            66776   4676666  3 46899998765    566666667789988863 22445667889999887655554

>PRK08364 sulfur carrier protein ThiS; Provisional

Probab=96.28  E-value=0.047  Score=34.14  Aligned_cols=56  Identities=13%  Similarity=0.238  Sum_probs=42.8

Q ss_pred             EEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224           12 TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus        12 ~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      ...+++++..||.+|-+++    ++++....+..||..+..     +.-+++|+.|.++--..||
T Consensus        15 ~~~~~~~~~~tv~~ll~~l----~~~~~~v~v~vNg~iv~~-----~~~l~~gD~Veii~~V~GG   70 (70)
T PRK08364         15 EKEIEWRKGMKVADILRAV----GFNTESAIAKVNGKVALE-----DDPVKDGDYVEVIPVVSGG   70 (70)
T ss_pred             ceEEEcCCCCcHHHHHHHc----CCCCccEEEEECCEECCC-----CcCcCCCCEEEEEccccCC
Confidence            5678888899999998776    677777777799998854     4456789999877655554

>PF15044 CLU_N: Mitochondrial function, CLU-N-term

Probab=96.28  E-value=0.0072  Score=38.65  Aligned_cols=56  Identities=23%  Similarity=0.331  Sum_probs=45.4

Q ss_pred             EcCCCcHHHHHHHHHHHhC-CCcCceeeeeCCeeccCCCccccc-cccCCCEEEEEEE
Q 032224           17 VESSDTIDNVKAKIQDKEG-IPPDQQRLIFAGKQLEDGRTLADY-NIQKESTLHLVLR   72 (145)
Q Consensus        17 V~~~~TV~~LK~~I~~~~g-ip~~~q~L~~~G~~L~d~~tL~~~-gi~~~sti~l~~~   72 (145)
                      |+++++|.|+++.+..... ..-....|.++|..|+|...|+++ |+.++++|.|+..
T Consensus         1 v~~~d~v~dvrq~L~~~~~t~~~Tn~~L~~~g~~L~~~~el~~i~~~~~~~~L~lve~   58 (76)
T PF15044_consen    1 VSPTDTVQDVRQVLAESPETCYLTNFSLEHNGQRLDDFVELSEIEGIKDGCVLELVEE   58 (76)
T ss_pred             CChhhHHHHHHHHHHhCccccceeEEEEEECCCccCCchhhhhhhCCCCCcEEEEEec
Confidence            5688999999999987654 334567888999999998888887 4888999988754

>PLN02799 Molybdopterin synthase sulfur carrier subunit

Probab=96.26  E-value=0.02  Score=36.64  Aligned_cols=71  Identities=18%  Similarity=0.268  Sum_probs=48.1

Q ss_pred             CEEEEEeCC------C-CEEEEEEcCCCcHHHHHHHHHHHhC-CCc--CceeeeeCCeeccCCCccccccccCCCEEEEE
Q 032224            1 MQIFVKTLT------G-KTITLEVESSDTIDNVKAKIQDKEG-IPP--DQQRLIFAGKQLEDGRTLADYNIQKESTLHLV   70 (145)
Q Consensus         1 M~I~Vk~~~------g-~~~~l~V~~~~TV~~LK~~I~~~~g-ip~--~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~   70 (145)
                      |+|.|+...      | ....++++...||.+|.+.+..... +..  ....+..||+...++     .-+++|++|.+.
T Consensus         2 m~i~V~~fa~~re~~g~~~~~~~~~~~~tv~~L~~~l~~~~p~l~~~~~~~~vavN~~~v~~~-----~~l~dgDeVai~   76 (82)
T PLN02799          2 VEIKVLFFARARELTGVSDMTLELPAGSTTADCLAELVAKFPSLEEVRSCCVLALNEEYTTES-----AALKDGDELAII   76 (82)
T ss_pred             eEEEEEehHHHHHHhCCCeEEEECCCCCcHHHHHHHHHHHChhHHHHhhCcEEEECCEEcCCC-----cCcCCCCEEEEe
Confidence            677777653      4 4577888889999999999976641 111  122455788876543     346789999887


Q ss_pred             EEecCC
Q 032224           71 LRLRGG   76 (145)
Q Consensus        71 ~~~~gg   76 (145)
                      ....||
T Consensus        77 PpvsGG   82 (82)
T PLN02799         77 PPISGG   82 (82)
T ss_pred             CCCCCC
Confidence            666665

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

Probab=96.25  E-value=0.0022  Score=51.62  Aligned_cols=61  Identities=21%  Similarity=0.355  Sum_probs=47.5

Q ss_pred             EEEEEeCCCC--EEEEEEcCCCcHHHHHHHHHHHhCCC--cCceeeeeCCeeccCCCcccccccc
Q 032224            2 QIFVKTLTGK--TITLEVESSDTIDNVKAKIQDKEGIP--PDQQRLIFAGKQLEDGRTLADYNIQ   62 (145)
Q Consensus         2 ~I~Vk~~~g~--~~~l~V~~~~TV~~LK~~I~~~~gip--~~~q~L~~~G~~L~d~~tL~~~gi~   62 (145)
                      .++|++.+.+  .+.|..+..+||++||..++..+--.  +.+|||+|.|+.|.|...|.|.=++
T Consensus        11 ~lliks~Nq~y~dl~i~~dl~wtv~~Lk~hls~VyPskpl~~dqrliYsgkllld~qcl~d~lrk   75 (391)
T KOG4583|consen   11 TLLIKSPNQSYKDLSISLDLKWTVGDLKVHLSQVYPSKPLELDQRLIYSGKLLLDHQCLTDWLRK   75 (391)
T ss_pred             EEEecCCCccccceeeehhhhhhHHHHhhhHhhcCCCCCchhhHHHHhhccccccchhHHHHHHH
Confidence            4677777655  45667778899999999999876322  2579999999999999988887543

>cd00754 MoaD Ubiquitin domain of MoaD-like proteins

Probab=96.19  E-value=0.027  Score=35.55  Aligned_cols=60  Identities=13%  Similarity=0.228  Sum_probs=44.9

Q ss_pred             EEEEEEcCCCcHHHHHHHHHHHhCC----CcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224           12 TITLEVESSDTIDNVKAKIQDKEGI----PPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus        12 ~~~l~V~~~~TV~~LK~~I~~~~gi----p~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      ...++++...||.+|.+.+....+-    ......+..||+....     +.-+.+|+.|.++....||
T Consensus        17 ~~~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~~-----~~~l~~gD~v~i~ppv~GG   80 (80)
T cd00754          17 EEELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVRL-----DTPLKDGDEVAIIPPVSGG   80 (80)
T ss_pred             eEEEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcCC-----CcccCCCCEEEEeCCCCCC
Confidence            4667888889999999999887532    2345567789988873     4457789999988776665

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.

>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=96.18  E-value=0.0013  Score=52.43  Aligned_cols=77  Identities=19%  Similarity=0.434  Sum_probs=0.0

Q ss_pred             EEEEEeCCCCEEEEEEc---C--CCcHHHHHHHHHH----------HhCCCcCcee-----eeeCCeeccCCCccccccc
Q 032224            2 QIFVKTLTGKTITLEVE---S--SDTIDNVKAKIQD----------KEGIPPDQQR-----LIFAGKQLEDGRTLADYNI   61 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~---~--~~TV~~LK~~I~~----------~~gip~~~q~-----L~~~G~~L~d~~tL~~~gi   61 (145)
                      .|+++.+....+.+.++   +  +.||.+||..+++          .+++|.+.++     |+|+-+++.|..+|.+..-
T Consensus        80 tV~Lks~rnp~l~i~L~~~~plattSv~dlk~~v~~rv~~~~~~~~~~~vp~dKik~~~~~lL~~kkPv~~~ktl~e~l~  159 (309)
T PF12754_consen   80 TVHLKSLRNPPLDISLPNVPPLATTSVQDLKDAVQQRVHPSQATYDETRVPLDKIKNFRCRLLYKKKPVGDSKTLAEVLA  159 (309)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             EEEeecCCCCCceeEeCCCCcCCcCcHHHHHHHHHhhhcccccccccccCCHHHhhhhhhhheecCccCCCcCcHHHHHh
Confidence            34555554444444332   3  6899999999999          8899999888     9999999999888887754


Q ss_pred             c-------CCCEEEEEEEecCCcc
Q 032224           62 Q-------KESTLHLVLRLRGGAK   78 (145)
Q Consensus        62 ~-------~~sti~l~~~~~gg~~   78 (145)
                      .       .+.++.+.+...||+.
T Consensus       160 ~~~~~l~~~~~~vE~gvMVlGGa~  183 (309)
T PF12754_consen  160 DSESRLLSGGKEVEFGVMVLGGAA  183 (309)
T ss_dssp             ------------------------
T ss_pred             cccchhccCCceEEEEEEEECCcc
Confidence            3       4678888888888875

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.

>cd06406 PB1_P67 A PB1 domain is present in p67 proteins which forms a signaling complex with p40, a crucial step for activation of NADPH oxidase during phagocytosis

Probab=96.11  E-value=0.028  Score=36.30  Aligned_cols=38  Identities=18%  Similarity=0.344  Sum_probs=35.3

Q ss_pred             EEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCee
Q 032224           12 TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQ   49 (145)
Q Consensus        12 ~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~   49 (145)
                      ++.|+|++..+.++|.++|.++.++|++...|.|....
T Consensus        12 tIaIrvp~~~~y~~L~~ki~~kLkl~~e~i~LsYkde~   49 (80)
T cd06406          12 TVAIQVARGLSYATLLQKISSKLELPAEHITLSYKSEA   49 (80)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCchhcEEEeccCC
Confidence            88999999999999999999999999999999997653

PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes . 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 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid 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 conserved in amoebas, fungi, animals, and plants. The p67 proteins contain

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

Probab=96.10  E-value=0.091  Score=33.12  Aligned_cols=67  Identities=24%  Similarity=0.345  Sum_probs=49.7

Q ss_pred             EEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCc-Cceeeee----CC--eeccCCCccccccccCCCEEEEEE
Q 032224            5 VKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP-DQQRLIF----AG--KQLEDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus         5 Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~-~~q~L~~----~G--~~L~d~~tL~~~gi~~~sti~l~~   71 (145)
                      |+.++|....+++++++|+.+|-++|.+..++.. +-.-|.+    +|  .-|+.+.+|.+..........+.+
T Consensus         1 V~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~~~~~~~~~~wL~~~k~l~~q~~~~~~~~~l~f   74 (80)
T PF09379_consen    1 VRLLDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQYQVDKDGEHHWLDLDKKLKKQLKKNNPPFTLYF   74 (80)
T ss_dssp             EEESSEEEEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE-EBTTSSEEEE-SSSBGGGSTBTSSSSEEEEE
T ss_pred             CCCcCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEEeecCCCcceeccCcccHHHHcCCCCCCEEEEE
Confidence            5678999999999999999999999999999864 3456666    23  246788888888776334433333

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 ....

>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=96.03  E-value=0.03  Score=36.73  Aligned_cols=44  Identities=14%  Similarity=0.278  Sum_probs=38.1

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCc---Cceeeee
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP---DQQRLIF   45 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~---~~q~L~~   45 (145)
                      .+.++.+.|+++.+.+.+++.+.+|++.|.++.|+..   +...|.|
T Consensus         2 ~FK~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~Y   48 (86)
T cd06409           2 AFKFKDPKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSY   48 (86)
T ss_pred             cEEeeCCCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEE
Confidence            3567888999999999999999999999999999886   3566666

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

>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A

Probab=95.97  E-value=0.069  Score=35.14  Aligned_cols=65  Identities=20%  Similarity=0.243  Sum_probs=46.1

Q ss_pred             CEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeee----CC-eecc-CCCccccccccCCCEEEEEEEecCC
Q 032224           11 KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF----AG-KQLE-DGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus        11 ~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~----~G-~~L~-d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      ..++..++..+||+.+...+.+.+.| ..+.||.-    ++ ..|. .+.||.+.||.+|.+|.+-.+...|
T Consensus        14 ~~~t~~FSk~DTI~~v~~~~rklf~i-~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~gQ~vliE~rn~DG   84 (88)
T PF14836_consen   14 SVLTKQFSKTDTIGFVEKEMRKLFNI-QEETRLWNKYSENSYELLNNPEITVEDAGLYDGQVVLIEERNEDG   84 (88)
T ss_dssp             EEEEEEE-TTSBHHHHHHHHHHHCT--TS-EEEEEECTTTCEEEE--TTSBTTTTT--TTEEEEEEE--TTS
T ss_pred             cHhHhhccccChHHHHHHHHHHHhCC-CccceehhccCCcchhhhCCCCccHHHccCcCCCEEEEEeeccCC
Confidence            36778899999999999999999999 66678863    22 2564 4579999999999999988876554

>PF11620 GABP-alpha: GA-binding protein alpha chain; InterPro: IPR024668 GA-binding protein alpha is a transcription factor capable of interacting with purine rich repeats (GA repeats)

Probab=95.73  E-value=0.059  Score=35.17  Aligned_cols=63  Identities=19%  Similarity=0.346  Sum_probs=45.1

Q ss_pred             EEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEec
Q 032224           12 TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR   74 (145)
Q Consensus        12 ~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~   74 (145)
                      .+...++-..+++.||..++.+.++.-+.-.++..+..|+++.+|-+-+++-..++.+.+...
T Consensus         4 vI~q~mDI~epl~~Lk~lLe~Rl~~~L~~~~f~LQD~~L~~~k~L~dQcVqgeGlVQlnvQi~   66 (88)
T PF11620_consen    4 VIMQHMDIREPLSTLKKLLERRLGISLSDYEFWLQDIQLEPHKSLVDQCVQGEGLVQLNVQIK   66 (88)
T ss_dssp             EEEEEEESSSBGGGHHHHSHHHH-S--SS-EEEETTEE--TTSBTTTSS----SEEEEEEEEE
T ss_pred             eEEEEEecCCcHHHHHHHHHHhhCCCcCCCeEEeccceecCCccHHHhhccccCEEEEEEEEE
Confidence            345567778899999999999999998888888888889999999999999888888887643

This N-terminal domain found in the transcription factor GABP alpha consists of a five-stranded beta-sheet crossed by a distorted helix and has been termed OST domain. The surface of the GABP alpha OST domain contains two clusters of negatively-charged residues suggesting there are positively-charged partner proteins. The OST domain binds to the CH1 and CH3 domains of the co-activator histone acetyltransferase CBP/p300 [].; PDB: 2JUO_A.

>PRK05863 sulfur carrier protein ThiS; Provisional

Probab=95.67  E-value=0.072  Score=32.78  Aligned_cols=65  Identities=18%  Similarity=0.296  Sum_probs=45.5

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|   +|+.+.  +++..|+.+|-+.    .++++...-+..++..+..+.- +.+ +++|+.|.++--..||
T Consensus         1 m~i~v---NG~~~~--~~~~~tl~~ll~~----l~~~~~~vav~~N~~iv~r~~~-~~~-L~~gD~ieIv~~VgGG   65 (65)
T PRK05863          1 MIVVV---NEEQVE--VDEQTTVAALLDS----LGFPEKGIAVAVDWSVLPRSDW-ATK-LRDGARLEVVTAVQGG   65 (65)
T ss_pred             CEEEE---CCEEEE--cCCCCcHHHHHHH----cCCCCCcEEEEECCcCcChhHh-hhh-cCCCCEEEEEeeccCC
Confidence            66766   466544  4567888888765    4788888888999997754322 234 8899999977555444

>KOG0012 consensus DNA damage inducible protein [Replication, recombination and repair]

Probab=95.53  E-value=0.024  Score=46.10  Aligned_cols=70  Identities=21%  Similarity=0.323  Sum_probs=58.9

Q ss_pred             CEEEEEeC--CCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccC--CCccccccccCCCEEEEE
Q 032224            1 MQIFVKTL--TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLED--GRTLADYNIQKESTLHLV   70 (145)
Q Consensus         1 M~I~Vk~~--~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d--~~tL~~~gi~~~sti~l~   70 (145)
                      |.++|-..  ....+.++|..+..+..|+..++...|++.+..-|+|+++++.+  ...|.++|+.+++++.+-
T Consensus         1 M~~tvs~~l~~~~~~~i~v~~dg~L~nl~aL~~~d~g~~~~~~~li~n~~~l~s~~s~~l~Q~g~~~~dsl~lr   74 (380)
T KOG0012|consen    1 MSLTVSVALNFEKKFPIPVTTDGELNNLAALCWKDTGIVYDPSDLIYNPRPLVSNESQGLTQIGLKDGDSLALR   74 (380)
T ss_pred             CeEEEEEEecceeeeccccccccchhhHHHHHHHHhCcccchhhcccCCCccccchhhhhhhcccccceeEecc
Confidence            55555443  45678899999999999999999999999999999999999965  478999999999887654

>PF10790 DUF2604: Protein of Unknown function (DUF2604); InterPro: IPR019726 This entry represents bacterial proteins with undetermined function

Probab=95.47  E-value=0.1  Score=32.38  Aligned_cols=65  Identities=23%  Similarity=0.473  Sum_probs=52.2

Q ss_pred             CCCEEEEEEcCCCcHHHHHHHHHHHh---CCCcCceeee-eCCeeccCCCccccccccCCCEEEEEEEe
Q 032224            9 TGKTITLEVESSDTIDNVKAKIQDKE---GIPPDQQRLI-FAGKQLEDGRTLADYNIQKESTLHLVLRL   73 (145)
Q Consensus         9 ~g~~~~l~V~~~~TV~~LK~~I~~~~---gip~~~q~L~-~~G~~L~d~~tL~~~gi~~~sti~l~~~~   73 (145)
                      +|+...++..++..+--..+.--+..   |-|++...|- -+|..|+-+..++|||+.++.++.+.++.
T Consensus         4 NGqPv~VEANvnaPLh~v~akALe~sgNvgQP~ENWElkDe~G~vlD~~kKveD~GftngvkLFLsLKA   72 (76)
T PF10790_consen    4 NGQPVQVEANVNAPLHPVRAKALEQSGNVGQPPENWELKDESGQVLDVNKKVEDFGFTNGVKLFLSLKA   72 (76)
T ss_pred             CCCceeeecCCCCcchHHHHHHHhhccccCCCcccceeeccCCcEeeccchhhhccccccceEEEEeec
Confidence            68888899888888877777665554   4677776665 57889999999999999999999888763

>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium)

Probab=95.46  E-value=0.091  Score=34.06  Aligned_cols=46  Identities=11%  Similarity=0.154  Sum_probs=36.6

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCc-CceeeeeCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP-DQQRLIFAG   47 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~-~~q~L~~~G   47 (145)
                      |.|.+. .+|..+.+.++++++..+|++.|..++++.. ....|.|-.
T Consensus         1 ~~vK~~-~~~d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY~D   47 (82)
T cd06407           1 VRVKAT-YGEEKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKYLD   47 (82)
T ss_pred             CEEEEE-eCCeEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEEEC
Confidence            445553 3677899999999999999999999999875 567777744

The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes like 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 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid 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-inte

>PRK08053 sulfur carrier protein ThiS; Provisional

Probab=95.43  E-value=0.2  Score=30.79  Aligned_cols=66  Identities=15%  Similarity=0.256  Sum_probs=44.5

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|   +|+.+  +++...||.+|-+.+    +++.....+-.|+..+..+ ..++.-+++|+.|.++--..||
T Consensus         1 m~i~v---Ng~~~--~~~~~~tl~~ll~~l----~~~~~~vaVavN~~iv~r~-~w~~~~L~~gD~Ieii~~v~GG   66 (66)
T PRK08053          1 MQILF---NDQPM--QCAAGQTVHELLEQL----NQLQPGAALAINQQIIPRE-QWAQHIVQDGDQILLFQVIAGG   66 (66)
T ss_pred             CEEEE---CCeEE--EcCCCCCHHHHHHHc----CCCCCcEEEEECCEEeChH-HcCccccCCCCEEEEEEEccCC
Confidence            67777   45554  446678999988764    5555567777899988522 1334457889999887655554

>PRK05659 sulfur carrier protein ThiS; Validated

Probab=95.41  E-value=0.18  Score=30.75  Aligned_cols=66  Identities=20%  Similarity=0.387  Sum_probs=45.8

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|   +|+.  ++++...||.+|-+.    .++++...-+..+|..+.-+. ..+.-+++|+.|.++--..||
T Consensus         1 m~i~v---NG~~--~~~~~~~tl~~lL~~----l~~~~~~vav~vNg~iv~r~~-~~~~~l~~gD~vei~~~vgGG   66 (66)
T PRK05659          1 MNIQL---NGEP--RELPDGESVAALLAR----EGLAGRRVAVEVNGEIVPRSQ-HASTALREGDVVEIVHALGGG   66 (66)
T ss_pred             CEEEE---CCeE--EEcCCCCCHHHHHHh----cCCCCCeEEEEECCeEeCHHH-cCcccCCCCCEEEEEEEecCC
Confidence            66666   4664  456677898888765    578888888889998775332 234456789999987655554

>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal

Probab=95.10  E-value=0.18  Score=32.06  Aligned_cols=60  Identities=17%  Similarity=0.294  Sum_probs=43.9

Q ss_pred             EEEEEEcCC-CcHHHHHHHHHHHhC-C-C-cCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224           12 TITLEVESS-DTIDNVKAKIQDKEG-I-P-PDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus        12 ~~~l~V~~~-~TV~~LK~~I~~~~g-i-p-~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      ...++++.+ .||.+|.+.+.+... + . .....+..|++...+     +.-|++|++|.++....||
T Consensus        17 ~~~~~~~~~~~tv~~L~~~L~~~~p~l~~~~~~~~v~vn~~~v~~-----~~~l~dgDevai~PpvsGG   80 (80)
T TIGR01682        17 EETLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVTD-----DALLNEGDEVAFIPPVSGG   80 (80)
T ss_pred             eEEEECCCCCcCHHHHHHHHHHhCchhhhhccceEEEECCEEcCC-----CcCcCCCCEEEEeCCCCCC
Confidence            457888877 899999999988763 1 1 123456678887765     4566789999988776665

The C-terminal Gly-Gly of this model is critical to function.

>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein

Probab=95.05  E-value=0.12  Score=31.61  Aligned_cols=57  Identities=21%  Similarity=0.399  Sum_probs=41.7

Q ss_pred             EEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224           15 LEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus        15 l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      ++++...||.+|.+++    +++++...+..+|+.+..+. .++.-|++|++|.++--..||
T Consensus         9 ~~~~~~~tv~~ll~~l----~~~~~~i~V~vNg~~v~~~~-~~~~~L~~gD~V~ii~~v~GG   65 (65)
T cd00565           9 REVEEGATLAELLEEL----GLDPRGVAVALNGEIVPRSE-WASTPLQDGDRIEIVTAVGGG   65 (65)
T ss_pred             EEcCCCCCHHHHHHHc----CCCCCcEEEEECCEEcCHHH-cCceecCCCCEEEEEEeccCC
Confidence            4556778999998775    46777888889999885432 234457889999987666665

ThiS (ThiaminS) is a sulfur carrier protein involved in thiamin biosynthesis in bacteria. The ThiS fold, like those of two closely related proteins MoaD and Urm1, is similar to that of ubiquitin although there is little or no sequence similarity.

>TIGR01687 moaD_arch MoaD family protein, archaeal

Probab=94.97  E-value=0.16  Score=32.82  Aligned_cols=61  Identities=11%  Similarity=0.273  Sum_probs=43.6

Q ss_pred             EEEEEEcCCCcHHHHHHHHHHHhCC------C-----cCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224           12 TITLEVESSDTIDNVKAKIQDKEGI------P-----PDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus        12 ~~~l~V~~~~TV~~LK~~I~~~~gi------p-----~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      ...++++ ..||.+|.+.+.+...-      .     .....+..||+....+..   .-+++|++|.++....||
T Consensus        17 ~~~v~~~-~~tv~~l~~~l~~~~p~~~~~~l~~~~~~~~~~~v~vN~~~v~~~~~---~~l~dgdev~i~PpvsGG   88 (88)
T TIGR01687        17 SEEIEIE-GKTVGDLLNELMARYPKEFSELFKEGLGLVPNVIILVNGRNVDWGLG---TELKDGDVVAIFPPVSGG   88 (88)
T ss_pred             eEEEEeC-CCCHHHHHHHHHHHCcHHHHHhCccCCcccccEEEEECCEecCccCC---CCCCCCCEEEEeCCCcCC
Confidence            5677776 89999999999877631      0     123566678887764431   467889999988777776

Members of this family appear to be archaeal versions of MoaD, subunit 1 of molybdopterin converting factor. This model has been split from the bacterial/eukaryotic equivalog model TIGR01682 because the presence of two members of this family in a substantial number of archaeal species suggests that roles might not be interchangeable.

>PRK06944 sulfur carrier protein ThiS; Provisional

Probab=94.87  E-value=0.37  Score=29.21  Aligned_cols=65  Identities=20%  Similarity=0.253  Sum_probs=42.5

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|.   |+.  +++++..||.+|-+.+.    ++ ....+..+|..+..+. -.+.-+++|++|.++-...||
T Consensus         1 m~i~vN---g~~--~~~~~~~tl~~ll~~l~----~~-~~~~v~vN~~~v~~~~-~~~~~L~~gD~vei~~~v~GG   65 (65)
T PRK06944          1 MDIQLN---QQT--LSLPDGATVADALAAYG----AR-PPFAVAVNGDFVARTQ-HAARALAAGDRLDLVQPVAGG   65 (65)
T ss_pred             CEEEEC---CEE--EECCCCCcHHHHHHhhC----CC-CCeEEEECCEEcCchh-cccccCCCCCEEEEEeeccCC
Confidence            666663   554  45667789999988763    33 3456678888775321 223346789999987666665

>COG5100 NPL4 Nuclear pore protein [Nuclear structure]

Probab=94.87  E-value=0.15  Score=42.36  Aligned_cols=72  Identities=21%  Similarity=0.233  Sum_probs=54.8

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHh--CCCcCceeeee--C--Cee--ccCCCccccccccCCCEEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKE--GIPPDQQRLIF--A--GKQ--LEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~--gip~~~q~L~~--~--G~~--L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      |-+.+|+..| ...+++.++++++.|-.+|-..+  +..|+.+.+.-  +  |..  +..++++.++|+..|..|+|...
T Consensus         1 Mi~rfRsk~G-~~Rve~qe~d~lg~l~~kll~~~~~n~~~e~~svc~~p~~qG~~~s~l~dqt~~dlGL~hGqmLyl~ys   79 (571)
T COG5100           1 MIFRFRSKEG-QRRVEVQESDVLGMLSPKLLAFFEVNYSPEQISVCSAPDGQGEIFSLLKDQTPDDLGLRHGQMLYLEYS   79 (571)
T ss_pred             CeEEEecCCC-ceeeeccccchhhhhhHHHHhhhccCCCccceEEEeCCCCCceeeecccccChhhhccccCcEEEEEec
Confidence            6678887665 56789999999999999887665  45566666653  2  222  45678999999999999999885


Q ss_pred             e
Q 032224           73 L   73 (145)
Q Consensus        73 ~   73 (145)
                      .
T Consensus        80 d   80 (571)
T COG5100          80 D   80 (571)
T ss_pred             c
Confidence            3

>PF02597 ThiS: ThiS family; InterPro: IPR003749 ThiS (thiaminS) is a 66 aa protein involved in sulphur transfer

Probab=94.87  E-value=0.14  Score=31.83  Aligned_cols=63  Identities=14%  Similarity=0.249  Sum_probs=48.1

Q ss_pred             EEEEEEcCCCcHHHHHHHHHHHhCC--CcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224           12 TITLEVESSDTIDNVKAKIQDKEGI--PPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus        12 ~~~l~V~~~~TV~~LK~~I~~~~gi--p~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      ...+.+....||.+|.+.+.....-  ......+..||+...+  ...+.-+++|++|.++....||
T Consensus        13 ~~~~~~~~~~tv~~ll~~l~~~~p~~~~~~~~~v~vN~~~v~~--~~~~~~l~~gD~V~i~ppvsGG   77 (77)
T PF02597_consen   13 EEEIEVPEGSTVRDLLEALAERYPELALRDRVAVAVNGEIVPD--DGLDTPLKDGDEVAILPPVSGG   77 (77)
T ss_dssp             EEEEEESSTSBHHHHHHHHCHHTGGGHTTTTEEEEETTEEEGG--GTTTSBEETTEEEEEEESTSTS
T ss_pred             CeEEecCCCCcHHHHHHHHHhhccccccCccEEEEECCEEcCC--ccCCcCcCCCCEEEEECCCCCC
Confidence            5677888999999999999877631  2256778899999888  2556667889999987666665

ThiS is coded in the thiCEFSGH operon in Escherichia coli. This family of proteins have two conserved Glycines at the COOH terminus. Thiocarboxylate is formed at the last G in the activation process. Sulphur is transferred from ThiI to ThiS in a reaction catalysed by IscS []. MoaD, a protein involved in sulphur transfer during molybdopterin synthesis, is about the same length and shows limited sequence similarity to ThiS. Both have the conserved GG at the COOH end.; PDB: 1JW9_D 1JWB_D 1JWA_D 3BII_D 1NVI_D 1FMA_D 1FM0_D 2QIE_G 2Q5W_D 2K5P_A ....

>PRK07696 sulfur carrier protein ThiS; Provisional

Probab=94.56  E-value=0.45  Score=29.42  Aligned_cols=66  Identities=18%  Similarity=0.253  Sum_probs=44.9

Q ss_pred             CEEEEEeCCCCEEEEEEcCC-CcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESS-DTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~-~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|   +|+.+  +++.. .||.+|-+.    .++++...-+-.+|..+.-+. .++.-+++|+.|.++--..||
T Consensus         1 m~I~v---NG~~~--~~~~~~~tv~~lL~~----l~~~~~~vav~vN~~iv~r~~-w~~~~L~~gD~iEIv~~VgGG   67 (67)
T PRK07696          1 MNLKI---NGNQI--EVPESVKTVAELLTH----LELDNKIVVVERNKDILQKDD-HTDTSVFDGDQIEIVTFVGGG   67 (67)
T ss_pred             CEEEE---CCEEE--EcCCCcccHHHHHHH----cCCCCCeEEEEECCEEeCHHH-cCceecCCCCEEEEEEEecCC
Confidence            66666   46655  44454 578877764    577777777889999885432 445567899999977555554

>PF14453 ThiS-like: ThiS-like ubiquitin

Probab=94.55  E-value=0.16  Score=30.72  Aligned_cols=55  Identities=18%  Similarity=0.289  Sum_probs=40.1

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~   71 (145)
                      |+|+|.   |  -.+++..+.|+.+|+.++...      .-.++++|-+..++..|     ++|+.|.++-
T Consensus         1 M~I~vN---~--k~~~~~~~~tl~~lr~~~k~~------~DI~I~NGF~~~~d~~L-----~e~D~v~~Ik   55 (57)
T PF14453_consen    1 MKIKVN---E--KEIETEENTTLFELRKESKPD------ADIVILNGFPTKEDIEL-----KEGDEVFLIK   55 (57)
T ss_pred             CEEEEC---C--EEEEcCCCcCHHHHHHhhCCC------CCEEEEcCcccCCcccc-----CCCCEEEEEe
Confidence            677773   3  356778889999999987642      22678999988876655     4688887763

>PRK06083 sulfur carrier protein ThiS; Provisional

Probab=94.46  E-value=0.35  Score=31.46  Aligned_cols=61  Identities=11%  Similarity=0.249  Sum_probs=42.6

Q ss_pred             CCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         9 ~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      +|+.  .++++..||.+|-+.    .++++...-+-.||..+.-+ ..++.-+++|+.|.++--..||
T Consensus        24 NG~~--~~~~~~~tl~~LL~~----l~~~~~~vAVevNg~iVpr~-~w~~t~L~egD~IEIv~~VgGG   84 (84)
T PRK06083         24 NDQS--IQVDISSSLAQIIAQ----LSLPELGCVFAINNQVVPRS-EWQSTVLSSGDAISLFQAIAGG   84 (84)
T ss_pred             CCeE--EEcCCCCcHHHHHHH----cCCCCceEEEEECCEEeCHH-HcCcccCCCCCEEEEEEEecCC
Confidence            4554  345667888888775    47788777888999988432 3456667899999987655554

>TIGR01683 thiS thiamine biosynthesis protein ThiS

Probab=94.38  E-value=0.26  Score=30.06  Aligned_cols=61  Identities=20%  Similarity=0.394  Sum_probs=42.3

Q ss_pred             CCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         9 ~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      +|+.  ++++...||.+|.+.+    +++++...+..+|..+..+. ..++-+++|+.|.++.-..||
T Consensus         4 Ng~~--~~~~~~~tv~~ll~~l----~~~~~~v~v~vN~~iv~~~~-~~~~~L~~gD~veii~~V~GG   64 (64)
T TIGR01683         4 NGEP--VEVEDGLTLAALLESL----GLDPRRVAVAVNGEIVPRSE-WDDTILKEGDRIEIVTFVGGG   64 (64)
T ss_pred             CCeE--EEcCCCCcHHHHHHHc----CCCCCeEEEEECCEEcCHHH-cCceecCCCCEEEEEEeccCC
Confidence            4554  4456778999998864    56777777789999874322 234567889999887665555

This model represents ThiS, a small thiamine-biosynthesis protein related to MoaD, a molybdenum cofactor biosynthesis protein. Both proteins are involved in sulfur transfer. ThiS has a conserved Gly-Gly C-terminus that is modified, in reactions requiring ThiI, ThiF, IscS, and a sulfur atom from Cys, into the thiocarboxylate that provides the sulfur for thiazole biosynthesis.

>smart00666 PB1 PB1 domain

Probab=94.01  E-value=0.33  Score=30.67  Aligned_cols=44  Identities=16%  Similarity=0.335  Sum_probs=36.8

Q ss_pred             EEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCC
Q 032224            3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG   47 (145)
Q Consensus         3 I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G   47 (145)
                      |.++. ++..+.+.++++.|..+|.++|.+.++++.....|.|..
T Consensus         4 vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~D   47 (81)
T smart00666        4 VKLRY-GGETRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQD   47 (81)
T ss_pred             EEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEEC
Confidence            44544 567888999999999999999999999987778888864

Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.

>PRK07440 hypothetical protein; Provisional

Probab=94.01  E-value=0.57  Score=29.27  Aligned_cols=61  Identities=20%  Similarity=0.329  Sum_probs=42.7

Q ss_pred             CCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         9 ~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      +|+.  ++++...||.+|-+.    .++++...-+-.||..+.-+. ..+.-+++|+.|.++--..||
T Consensus        10 NG~~--~~~~~~~tl~~lL~~----l~~~~~~vav~~N~~iv~r~~-w~~~~L~~gD~IEIv~~v~GG   70 (70)
T PRK07440         10 NGET--RTCSSGTSLPDLLQQ----LGFNPRLVAVEYNGEILHRQF-WEQTQVQPGDRLEIVTIVGGG   70 (70)
T ss_pred             CCEE--EEcCCCCCHHHHHHH----cCCCCCeEEEEECCEEeCHHH-cCceecCCCCEEEEEEEecCC
Confidence            4654  556677899988764    467777788889999886321 345567789999877555554

>smart00295 B41 Band 4

Probab=93.01  E-value=1.6  Score=31.86  Aligned_cols=71  Identities=28%  Similarity=0.367  Sum_probs=49.1

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcC-ceeeee---CC---eeccCCCcccccccc-CCCEEEEEEE
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPD-QQRLIF---AG---KQLEDGRTLADYNIQ-KESTLHLVLR   72 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~-~q~L~~---~G---~~L~d~~tL~~~gi~-~~sti~l~~~   72 (145)
                      .|.|..++|....+.+++++|+.++-+.+....|++.. ..-|.+   .+   ..|+...+|.+.... ....+++-.+
T Consensus         5 ~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~~~~~~~~~~l~fr~r   83 (207)
T smart00295        5 VLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQFEDPDEDLSHWLDPAKTLLDQDVKSEPLTLYFRVK   83 (207)
T ss_pred             EEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhCCCccceeEEEEEcCCCCcCeeCCCccCHHHhcCCCCCcEEEEEEE
Confidence            57788889999999999999999999999999999642 234432   11   245556666666544 2334544444

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.

>cd06408 PB1_NoxR The PB1 domain is present in the Epichloe festucae NoxR protein (NADPH oxidase regulator), a key regulator of NADPH oxidase isoform, NoxA

Probab=92.99  E-value=0.63  Score=30.48  Aligned_cols=46  Identities=17%  Similarity=0.247  Sum_probs=36.6

Q ss_pred             CCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccc
Q 032224            9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLA   57 (145)
Q Consensus         9 ~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~   57 (145)
                      .|.++.+.|+++.+..+|.++|.+++++. ..+.|-|...  .|-.+|+
T Consensus        10 ~~Dv~~i~v~~~i~f~dL~~kIrdkf~~~-~~~~iKykDE--GD~iti~   55 (86)
T cd06408          10 QDDTRYIMIGPDTGFADFEDKIRDKFGFK-RRLKIKMKDD--GDMITMG   55 (86)
T ss_pred             cCcEEEEEcCCCCCHHHHHHHHHHHhCCC-CceEEEEEcC--CCCcccc
Confidence            67799999999999999999999999995 5666667655  4444443

NoxA is essential for growth control of the fungal endophyte in plant tissue in the process of symbiotic interaction between a fungi and its plant host. The Epichloe festucae p67(phox)-like regulator, NoxR, dispensable in culture but essential in plants for the symbiotic interaction. Plants infected with a noxR deletion mutant show severe stunting and premature senescence, whereas hyphae in the meristematic tissues show increased branching leading to increased fungal colonization of pseudostem and leaf blade tissue. The PB1 domain is a modular domain mediating specific protein-protein interactions which a play 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

>TIGR02958 sec_mycoba_snm4 secretion protein snm4

Probab=92.85  E-value=0.63  Score=39.34  Aligned_cols=70  Identities=14%  Similarity=0.172  Sum_probs=54.2

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCC----C--cCceeee-eCCeeccCCCccccccccCCCEEEEEEE
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGI----P--PDQQRLI-FAGKQLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gi----p--~~~q~L~-~~G~~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      +|+|... .+..++-++.+.+|.||--.|-+..+-    +  +..-.|. .+|.+|+.+.+|.+.||.||+++++...
T Consensus         4 RVtV~~~-~~~~DlaLPa~~PvaellP~ll~~~~~~~~~~~~~~~w~L~r~gG~pL~~~~sL~~~gV~DG~~L~L~p~   80 (452)
T TIGR02958         4 RVTVLAG-RRAVDVALPADVPVAELIPDLVDLLDDRGAAELGAVRWALARAGGSPLDPDASLAEAGVRDGELLVLVPA   80 (452)
T ss_pred             EEEEeeC-CeeeeeecCCCCcHHHHHHHHHHHhCcccccCCCCcceEEecCCCCCCCCCCCHHHcCCCCCCeEEEeeC
Confidence            4667654 345888899999999999999887753    1  1223444 5788999999999999999999998754

Members of this family are the 12-transmembrane domain protein snm4, where snm stands for secretion in mycocbacteria. This system acts on Mycobacterium tuberculosis related pair of virulence factors ESAT-6 and CFP-10 and on other homologs. The system is conserved in many Actinobacteria, including the non-pathogenic Mycobacterium smegmatis.

>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]

Probab=91.79  E-value=1.8  Score=27.01  Aligned_cols=58  Identities=19%  Similarity=0.389  Sum_probs=41.3

Q ss_pred             EEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224           14 TLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus        14 ~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      .++++...|+++|-+.    .+++++..-+..||.++..+. -.+.-+++|+.|.++--..||
T Consensus        11 ~~e~~~~~tv~dLL~~----l~~~~~~vav~vNg~iVpr~~-~~~~~l~~gD~ievv~~v~GG   68 (68)
T COG2104          11 EVEIAEGTTVADLLAQ----LGLNPEGVAVAVNGEIVPRSQ-WADTILKEGDRIEVVRVVGGG   68 (68)
T ss_pred             EEEcCCCCcHHHHHHH----hCCCCceEEEEECCEEccchh-hhhccccCCCEEEEEEeecCC
Confidence            4566666899998875    578888888889999886432 345566778998876544444

>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]

Probab=91.75  E-value=0.62  Score=36.80  Aligned_cols=68  Identities=19%  Similarity=0.301  Sum_probs=52.2

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee--eCCeec-cC--CCccccccccCCCEEEE
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQL-ED--GRTLADYNIQKESTLHL   69 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~--~~G~~L-~d--~~tL~~~gi~~~sti~l   69 (145)
                      .|.||.++|+++..++++..|+.+++..|....+.......|.  |--..+ +|  ..+|..+++.+.++|.+
T Consensus       212 rlQiRl~DG~Tl~~tF~a~E~L~~VR~wVd~n~~~~~~P~~f~t~fPR~tf~edD~~KpLq~L~L~Psa~lil  284 (290)
T KOG2689|consen  212 RLQIRLPDGQTLTQTFNARETLAAVRLWVDLNRGDGLDPYSFHTGFPRVTFTEDDELKPLQELDLVPSAVLIL  284 (290)
T ss_pred             EEEEEcCCCCeeeeecCchhhHHHHHHHHHHhccCCCCCeeeecCCCceecccccccccHHHhccccchheec
Confidence            4788999999999999999999999999999887665444443  333334 22  37899999988887654

>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]

Probab=91.46  E-value=0.42  Score=39.38  Aligned_cols=65  Identities=20%  Similarity=0.314  Sum_probs=50.7

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhC-CCcCceeee--eCCeecc-CCCccccccccCCCE
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG-IPPDQQRLI--FAGKQLE-DGRTLADYNIQKEST   66 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~g-ip~~~q~L~--~~G~~L~-d~~tL~~~gi~~~st   66 (145)
                      .|.||..+|.-+...++.+-||.|++..|...-. -+...+.|+  |--+.|. ++.||++.||.+...
T Consensus       307 sIQIRLanG~RlV~~fN~sHTv~DIR~fI~~aRp~~~~~~F~L~~~FPpk~l~D~sqTle~AgL~Nsvl  375 (380)
T KOG2086|consen  307 SIQIRLANGTRLVLKFNHSHTVSDIREFIDTARPGDSSTYFILMMAFPPKPLSDDSQTLEEAGLLNSVL  375 (380)
T ss_pred             eEEEEecCCceeeeeccCcccHHHHHHHHHhcCCCCcCCceeeeecCCCcccCCcchhHHhccchhhhh
Confidence            4788889999988999999999999999987654 333456665  6667775 568999999976543

>smart00455 RBD Raf-like Ras-binding domain

Probab=90.95  E-value=1.1  Score=27.95  Aligned_cols=49  Identities=22%  Similarity=0.322  Sum_probs=41.6

Q ss_pred             EEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCC--eecc
Q 032224            3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG--KQLE   51 (145)
Q Consensus         3 I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G--~~L~   51 (145)
                      +.|-.++|+...+.+.|..|+.|+-+.+-++.|+.++...+...|  ++|+
T Consensus         2 ~~v~LP~~~~~~V~vrpg~tl~e~L~~~~~kr~l~~~~~~v~~~g~~k~ld   52 (70)
T smart00455        2 CKVHLPDNQRTVVKVRPGKTVRDALAKALKKRGLNPECCVVRLRGEKKPLD   52 (70)
T ss_pred             eEEECCCCCEEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEcCCCccee
Confidence            345567899999999999999999999999999999988888755  3554

>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional

Probab=90.78  E-value=1.5  Score=35.52  Aligned_cols=68  Identities=19%  Similarity=0.288  Sum_probs=49.7

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCcc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAK   78 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~~   78 (145)
                      |+|+|   +|+.  ++++...||.+|-+.    .+++++..-+..||+.+.-+ ...++-|++|+.|.++--..||.-
T Consensus         1 M~I~V---NGk~--~el~e~~TL~dLL~~----L~i~~~~VAVeVNgeIVpr~-~w~~t~LkeGD~IEII~~VgGGs~   68 (326)
T PRK11840          1 MRIRL---NGEP--RQVPAGLTIAALLAE----LGLAPKKVAVERNLEIVPRS-EYGQVALEEGDELEIVHFVGGGSD   68 (326)
T ss_pred             CEEEE---CCEE--EecCCCCcHHHHHHH----cCCCCCeEEEEECCEECCHH-HcCccccCCCCEEEEEEEecCCCC
Confidence            66766   4554  555677888888765    47888888888999988532 245566789999998876666653

>PF00564 PB1: PB1 domain; InterPro: IPR000270 The Phox and Bem1p domain, is present in many eukaryotic cytoplasmic signalling proteins

Probab=90.76  E-value=1.2  Score=28.08  Aligned_cols=44  Identities=20%  Similarity=0.397  Sum_probs=34.8

Q ss_pred             EEEEeCCCCEEE-EEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCC
Q 032224            3 IFVKTLTGKTIT-LEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG   47 (145)
Q Consensus         3 I~Vk~~~g~~~~-l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G   47 (145)
                      |.+.. ++.... +.++.+.|..+|..+|++.++.+.....|.|.+
T Consensus         4 vK~~~-~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D   48 (84)
T PF00564_consen    4 VKVRY-GGDIRRIISLPSDVSFDDLRSKIREKFGLLDEDFQLKYKD   48 (84)
T ss_dssp             EEEEE-TTEEEEEEEECSTSHHHHHHHHHHHHHTTSTSSEEEEEEE
T ss_pred             EEEEE-CCeeEEEEEcCCCCCHHHHHHHHHHHhCCCCccEEEEeeC
Confidence            34433 445555 899999999999999999999998888888843

The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.; GO: 0005515 protein binding; PDB: 1IPG_A 1IP9_A 2KFK_A 1WMH_A 1VD2_A 1WI0_A 1OEY_C 1PQS_A 1Q1O_A 1TZ1_A ....

>cd05992 PB1 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

Probab=90.37  E-value=1.4  Score=27.49  Aligned_cols=45  Identities=22%  Similarity=0.335  Sum_probs=35.2

Q ss_pred             EEEEEeCCCCEEEEEEc-CCCcHHHHHHHHHHHhCCCcCceeeeeCC
Q 032224            2 QIFVKTLTGKTITLEVE-SSDTIDNVKAKIQDKEGIPPDQQRLIFAG   47 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~-~~~TV~~LK~~I~~~~gip~~~q~L~~~G   47 (145)
                      .|.++. +|....+.++ .+.|..+|+++|.+.++++.....|.|..
T Consensus         2 ~vK~~~-~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y~D   47 (81)
T cd05992           2 RVKVKY-GGEIRRFVVVSRSISFEDLRSKIAEKFGLDAVSFKLKYPD   47 (81)
T ss_pred             cEEEEe-cCCCEEEEEecCCCCHHHHHHHHHHHhCCCCCcEEEEeeC
Confidence            345543 4678888888 89999999999999999886666776644

A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid 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 a noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.

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

Probab=90.19  E-value=1.3  Score=27.96  Aligned_cols=44  Identities=20%  Similarity=0.272  Sum_probs=38.5

Q ss_pred             EEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeC
Q 032224            3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFA   46 (145)
Q Consensus         3 I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~   46 (145)
                      +.|-.++|+.-.+.+.|.+||.|+-+.+.++.|+.++.--|.+.
T Consensus         2 ~~V~LPng~~t~V~vrpg~ti~d~L~~~c~kr~l~~~~~~v~~~   45 (72)
T cd01760           2 CRVYLPNGQRTVVPVRPGMSVRDVLAKACKKRGLNPECCDVFLL   45 (72)
T ss_pred             EEEECcCCCeEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEe
Confidence            45667899999999999999999999999999999987766654

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.

>cd06411 PB1_p51 The PB1 domain is present in the p51 protein, a homolog of the p67 protein

Probab=89.92  E-value=0.81  Score=29.40  Aligned_cols=36  Identities=11%  Similarity=0.250  Sum_probs=32.8

Q ss_pred             EEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCC
Q 032224           12 TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG   47 (145)
Q Consensus        12 ~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G   47 (145)
                      ++.+.+++..+.++|.++|+++...+++..+|.|..
T Consensus         8 TVai~v~~g~~y~~L~~~ls~kL~l~~~~~~LSY~~   43 (78)
T cd06411           8 TVALRAPRGADVSSLRALLSQALPQQAQRGQLSYRA   43 (78)
T ss_pred             EEEEEccCCCCHHHHHHHHHHHhcCChhhcEEEecC
Confidence            567789999999999999999999999999999854

p51 plays an important role in NADPH oxidase activation during phagosytosis. The PB1 domain is a modular domain mediating specific protein-protein interaction 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 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid 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 mo

>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein

Probab=89.92  E-value=1.5  Score=28.92  Aligned_cols=65  Identities=15%  Similarity=0.289  Sum_probs=43.3

Q ss_pred             CCCEEEEEEcC-----CCcHHHHHHHHHHHhCCCc-CceeeeeCCe-----eccCCCccccc-----cccCCCEEEEEEE
Q 032224            9 TGKTITLEVES-----SDTIDNVKAKIQDKEGIPP-DQQRLIFAGK-----QLEDGRTLADY-----NIQKESTLHLVLR   72 (145)
Q Consensus         9 ~g~~~~l~V~~-----~~TV~~LK~~I~~~~gip~-~~q~L~~~G~-----~L~d~~tL~~~-----gi~~~sti~l~~~   72 (145)
                      +|....|.++.     +.+..+|+++|++.+.+++ ....|.|...     .|.++.-|.++     .-....++.+.++
T Consensus         8 ~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~~~~~~~~~~~~lrl~v~   87 (91)
T cd06398           8 GGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDEDGDVVTLVDDNDLTDAIQYFCSGSRLNPLRIDVT   87 (91)
T ss_pred             CCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEEEEccHHHHHHHHHHHhccCCCceEEEEEE
Confidence            55667777774     7999999999999999998 5667777543     23443333322     2234667777665


Q ss_pred             e
Q 032224           73 L   73 (145)
Q Consensus        73 ~   73 (145)
                      .
T Consensus        88 ~   88 (91)
T cd06398          88 V   88 (91)
T ss_pred             E
Confidence            4

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 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid 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

>PRK11130 moaD molybdopterin synthase small subunit; Provisional

Probab=89.03  E-value=2.9  Score=26.55  Aligned_cols=57  Identities=12%  Similarity=0.220  Sum_probs=35.6

Q ss_pred             EEEcC-CCcHHHHHHHHHHHhC-----CCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224           15 LEVES-SDTIDNVKAKIQDKEG-----IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus        15 l~V~~-~~TV~~LK~~I~~~~g-----ip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      +++++ ..||.+|++.+.++..     ......++..|+....+     +.-|++|+.|-+.....||
T Consensus        19 ~~v~~~~~tv~~l~~~L~~~~~~~~~~~~~~~~~~aVN~~~~~~-----~~~l~dgDeVai~PPVsGG   81 (81)
T PRK11130         19 LELAADFPTVEALRQHLAQKGDRWALALEDGKLLAAVNQTLVSF-----DHPLTDGDEVAFFPPVTGG   81 (81)
T ss_pred             EEecCCCCCHHHHHHHHHHhCccHHhhhcCCCEEEEECCEEcCC-----CCCCCCCCEEEEeCCCCCC
Confidence            44443 4799999999987752     11122344455544333     3347789999888766665

>KOG0009 consensus Ubiquitin-like/40S ribosomal S30 protein fusion [Translation, ribosomal structure and biogenesis; Posttranslational modification, protein turnover, chaperones]

Probab=88.98  E-value=0.16  Score=30.68  Aligned_cols=27  Identities=30%  Similarity=0.187  Sum_probs=22.0

Q ss_pred             ccccccccccCCcccccccceeeeeee
Q 032224           77 AKKRKKKTYTKPKKIKHKKKKVKLAVL  103 (145)
Q Consensus        77 ~~k~~k~~~~~pk~~k~~~kk~k~~v~  103 (145)
                      -.+++|+..+|||.++++++|.+....
T Consensus         8 larAGKVr~QTPKv~kqeK~kkk~GRa   34 (62)
T KOG0009|consen    8 LARAGKVRGQTPKVEKQEKKKKKRGRA   34 (62)
T ss_pred             hhhcccccccCCcchhhhhcccccchH
Confidence            357789999999999999988876543

>PF02196 RBD: Raf-like Ras-binding domain; InterPro: IPR003116 This is the Ras-binding domain found in proteins related to Ras

Probab=88.91  E-value=4  Score=25.46  Aligned_cols=55  Identities=22%  Similarity=0.290  Sum_probs=40.1

Q ss_pred             EEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCC--eeccCCCccc
Q 032224            3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG--KQLEDGRTLA   57 (145)
Q Consensus         3 I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G--~~L~d~~tL~   57 (145)
                      +.|-.++|+.-.+.+.|..||.|+-..+-++.|+.++...+...|  ++|+-+...+
T Consensus         3 ~~v~LP~~q~t~V~vrpg~ti~d~L~~~~~kr~L~~~~~~V~~~~~~k~l~~~~d~~   59 (71)
T PF02196_consen    3 CRVHLPNGQRTVVQVRPGMTIRDALSKACKKRGLNPECCDVRLVGEKKPLDWDQDSS   59 (71)
T ss_dssp             EEEEETTTEEEEEEE-TTSBHHHHHHHHHHTTT--CCCEEEEEEEEEEEE-TTSBGG
T ss_pred             EEEECCCCCEEEEEEcCCCCHHHHHHHHHHHcCCCHHHEEEEEcCCCccccCCCcee
Confidence            456678999999999999999999999999999999877665433  4565444443

It is found in association with the PE-bind and pkinase domains.; GO: 0005057 receptor signaling protein activity, 0007165 signal transduction; PDB: 1RFA_A 1C1Y_B 3KUD_B 1GUA_B 3KUC_B 2L05_A 3NY5_D 1RRB_A 1WFY_A 1WXM_A.

>PTZ00380 microtubule-associated protein (MAP); Provisional

Probab=88.84  E-value=0.49  Score=32.94  Aligned_cols=58  Identities=17%  Similarity=0.269  Sum_probs=42.0

Q ss_pred             EEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccc---cCCCEEEEEEE
Q 032224           15 LEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNI---QKESTLHLVLR   72 (145)
Q Consensus        15 l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi---~~~sti~l~~~   72 (145)
                      +-|+.+.||++|...|..+.+++++..-|+.++..+..+.++++.=-   .++.-|++...
T Consensus        45 llVP~d~tV~qF~~iIRkrl~l~~~k~flfVnn~lp~~s~~mg~lYe~~KDeDGFLYi~Ys  105 (121)
T PTZ00380         45 LALPRDATVAELEAAVRQALGTSAKKVTLAIEGSTPAVTATVGDIADACKRDDGFLYVSVR  105 (121)
T ss_pred             EEcCCCCcHHHHHHHHHHHcCCChhHEEEEECCccCCccchHHHHHHHhcCCCCeEEEEEc
Confidence            46999999999999999999999988666667766666666655421   23445666543

>cd06396 PB1_NBR1 The PB1 domain is an essential part of NBR1 protein, next to BRCA1, a scaffold protein mediating specific protein-protein interaction with both titin protein kinase and with another scaffold protein p62

Probab=88.45  E-value=1.9  Score=27.92  Aligned_cols=36  Identities=17%  Similarity=0.309  Sum_probs=29.6

Q ss_pred             CCCCEEEEEEcC--CCcHHHHHHHHHHHhCCCcCceeeee
Q 032224            8 LTGKTITLEVES--SDTIDNVKAKIQDKEGIPPDQQRLIF   45 (145)
Q Consensus         8 ~~g~~~~l~V~~--~~TV~~LK~~I~~~~gip~~~q~L~~   45 (145)
                      .+|.+..+.+++  +.|..+|++.|...++++  .+.|-|
T Consensus         7 y~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~--~f~lKY   44 (81)
T cd06396           7 YNGESQSFLVSDSENTTWASVEAMVKVSFGLN--DIQIKY   44 (81)
T ss_pred             ECCeEEEEEecCCCCCCHHHHHHHHHHHhCCC--cceeEE
Confidence            367888899988  779999999999999998  444443

A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The NBR1 protein contains a type I PB1 domain.

>COG5272 UBI4 Ubiquitin [Posttranslational modification, protein turnover, chaperones]

Probab=88.37  E-value=0.085  Score=31.66  Aligned_cols=43  Identities=14%  Similarity=-0.051  Sum_probs=37.5

Q ss_pred             ccccccccCCcccccccceeeeeeeeeEEEcCCCcEEEecccCC
Q 032224           79 KRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKECP  122 (145)
Q Consensus        79 k~~k~~~~~pk~~k~~~kk~k~~v~k~~~v~~~~~~~~l~~~c~  122 (145)
                      ++.++.+++|++++++.++..+.++. +.+++.+...+....||
T Consensus         3 ~~~~~~~~~~~k~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~   45 (57)
T COG5272           3 KPIKKATGGAAKPESQLAKAKDTRPE-KQYAEQDSQLNEMALMD   45 (57)
T ss_pred             ccccccccccccccchHHHHhhccch-hhhhhhccChhhhhccc
Confidence            45678899999999999999999999 99887777777778888

>PF14732 UAE_UbL: Ubiquitin/SUMO-activating enzyme ubiquitin-like domain; PDB: 1Y8Q_B 1Y8R_E 3KYD_B 3KYC_B

Probab=87.02  E-value=1.5  Score=28.57  Aligned_cols=54  Identities=20%  Similarity=0.299  Sum_probs=28.8

Q ss_pred             EEEc-CCCcHHHHHHHHH-HHhCCCcCceeeeeCCeec----------cCCCccccccccCCCEEEEE
Q 032224           15 LEVE-SSDTIDNVKAKIQ-DKEGIPPDQQRLIFAGKQL----------EDGRTLADYNIQKESTLHLV   70 (145)
Q Consensus        15 l~V~-~~~TV~~LK~~I~-~~~gip~~~q~L~~~G~~L----------~d~~tL~~~gi~~~sti~l~   70 (145)
                      +.++ ..+|+.+|-+.|- ...|+..-...  ++|..|          ..+++|+++||.+|+.|.+.
T Consensus         2 v~~d~~~~TL~~lv~~Vlk~~Lg~~~P~v~--~~~~ilyd~de~~~~~~l~k~L~elgi~~gs~L~v~   67 (87)
T PF14732_consen    2 VKVDTKKMTLGDLVEKVLKKKLGMNEPDVS--VGGTILYDSDEEEYDDNLPKKLSELGIVNGSILTVD   67 (87)
T ss_dssp             EEE-TTT-BHHHHHHHCCCCCS--SSEEEE--ES-EEEE-SSSSSSTTCTTSBGGGGT--TT-EEEEE
T ss_pred             EEEechhCcHHHHHHHHHHhccCCCCCEEE--eCCCEEEcCCcchhhhcccCChhHcCCCCCCEEEEE
Confidence            3444 4689999999874 35564432222  244433          12368999999999988764

>PF10209 DUF2340: Uncharacterized conserved protein (DUF2340); InterPro: IPR018794 This entry consists of small proteins of approximately 150 amino acids whose function is unknown

Probab=86.66  E-value=1.4  Score=30.64  Aligned_cols=56  Identities=20%  Similarity=0.440  Sum_probs=39.7

Q ss_pred             EEcC-CCcHHHHHHHHHHHh----CCCcC------ceeeee----------------CC-eec---cCCCccccccccCC
Q 032224           16 EVES-SDTIDNVKAKIQDKE----GIPPD------QQRLIF----------------AG-KQL---EDGRTLADYNIQKE   64 (145)
Q Consensus        16 ~V~~-~~TV~~LK~~I~~~~----gip~~------~q~L~~----------------~G-~~L---~d~~tL~~~gi~~~   64 (145)
                      .|+. ++||.+|++.+.+..    |++|-      .++|+.                +. ..|   +++.+|.++||.++
T Consensus        21 ~vdL~~~Tv~~l~~~v~~~I~t~~~~~Pfrn~~yDtlKIy~~AHg~Kt~nLvInle~De~~iL~~~~~~~tL~~~gv~nE  100 (122)
T PF10209_consen   21 NVDLKDTTVKDLKEQVKQDIKTRPGLPPFRNVKYDTLKIYTKAHGSKTNNLVINLEDDEDWILDVSDDDKTLKELGVENE  100 (122)
T ss_pred             cCCcccCcHHHHHHHHHHHHhcCCCCCCceeeecceEEEEecCCCCCcCCceeeccCCcceeeecCCCCCcHHHcCCCcc
Confidence            5776 899999999887664    45542      234432                11 356   67889999999999


Q ss_pred             CEEEEEE
Q 032224           65 STLHLVL   71 (145)
Q Consensus        65 sti~l~~   71 (145)
                      ..|.+.-
T Consensus       101 TEiSfF~  107 (122)
T PF10209_consen  101 TEISFFN  107 (122)
T ss_pred             ceeeeeC
Confidence            8887653

>cd06410 PB1_UP2 Uncharacterized protein 2

Probab=86.04  E-value=3.9  Score=27.27  Aligned_cols=39  Identities=18%  Similarity=0.240  Sum_probs=32.7

Q ss_pred             EeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeee
Q 032224            6 KTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF   45 (145)
Q Consensus         6 k~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~   45 (145)
                      +-.+|.+..+.|+.+.|..+|+.++.+..+++.. +.|-|
T Consensus        18 ~Y~GG~tr~i~V~r~~s~~el~~kl~~~~~~~~~-~~lky   56 (97)
T cd06410          18 RYVGGETRIVSVDRSISFKELVSKLSELFGAGVV-VTLKY   56 (97)
T ss_pred             EEcCCceEEEEEcCCCCHHHHHHHHHHHhCCCCc-eEEEE
Confidence            4557888999999999999999999999998875 55544

The PB1 domain is a modular domain mediating specific protein-protein interaction 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 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid 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.

>PF02017 CIDE-N: CIDE-N domain; InterPro: IPR003508 This domain consists of caspase-activated (CAD) nucleases, which induce DNA fragmentation and chromatin condensation during apoptosis, and the cell death activator proteins CIDE-A and CIDE-B, which are inhibitors of CAD nuclease

Probab=86.04  E-value=3.3  Score=26.57  Aligned_cols=49  Identities=20%  Similarity=0.464  Sum_probs=35.4

Q ss_pred             CcHHHHHHHHHHHhCCCcCceeeee--CCeeccCCCccccccccCCCEEEEEEE
Q 032224           21 DTIDNVKAKIQDKEGIPPDQQRLIF--AGKQLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus        21 ~TV~~LK~~I~~~~gip~~~q~L~~--~G~~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      .|+.+|+.+..+.++++.+..+|+.  +|..++|+..+..+   +..|+.|++.
T Consensus        21 ~sL~eL~~K~~~~l~~~~~~~~lvL~eDGT~VddEeyF~tL---p~nT~lm~L~   71 (78)
T PF02017_consen   21 SSLEELLEKACDKLQLPEEPVRLVLEEDGTEVDDEEYFQTL---PDNTVLMLLE   71 (78)
T ss_dssp             SSHHHHHHHHHHHHT-SSSTCEEEETTTTCBESSCHHHCCS---SSSEEEEEEE
T ss_pred             CCHHHHHHHHHHHhCCCCcCcEEEEeCCCcEEccHHHHhhC---CCCCEEEEEC
Confidence            5899999999999999977666664  88888887655544   2446555553

The two proteins interact through the region defined by the method signatures.; GO: 0006915 apoptosis, 0005622 intracellular; PDB: 1IBX_A 2EEL_A 1F2R_I 1C9F_A 1D4B_A.

>PF08825 E2_bind: E2 binding domain; InterPro: IPR014929 E1 and E2 enzymes play a central role in ubiquitin and ubiquitin-like protein transfer cascades

Probab=85.92  E-value=2  Score=27.89  Aligned_cols=56  Identities=16%  Similarity=0.248  Sum_probs=37.8

Q ss_pred             EEEcCCCcHHHHHHHHHHHhCCCc-------CceeeeeCCe-ecc------CCCccccccccCCCEEEEEE
Q 032224           15 LEVESSDTIDNVKAKIQDKEGIPP-------DQQRLIFAGK-QLE------DGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus        15 l~V~~~~TV~~LK~~I~~~~gip~-------~~q~L~~~G~-~L~------d~~tL~~~gi~~~sti~l~~   71 (145)
                      |++++++|+.+|-+.+.+...+..       +.-.|++.+- .|+      -+.+|.++ +.+|..|.|.-
T Consensus         1 i~v~~~~TL~~lid~L~~~~~~qlk~PSlt~~~k~LYm~~pp~Lee~Tr~NL~k~l~eL-~~~g~ei~VtD   70 (84)
T PF08825_consen    1 IEVSPSWTLQDLIDSLCEKPEFQLKKPSLTTANKTLYMQSPPSLEEATRPNLSKKLKEL-LSDGEEITVTD   70 (84)
T ss_dssp             EEESTTSBSHHHHHHHHHSTTT--SS-EEESSEEEEEESSSHHHHHHTGGGGSSBTTTT-HHSSEEEEEEE
T ss_pred             CCcCccchHHHHHHHHHhChhhhcCCCcccCCCceEEEeCCHHHHHHhhhhhhhhHHHH-hcCCCEEEEEC
Confidence            679999999999999998743322       2334444332 132      24689999 89999988753

This is an E2 binding domain that is found on NEDD8 activating E1 enzyme. The protein resembles ubiquitin, and recruits the catalytic core of the E2 enzyme Ubc12 in a similar manner to that in which ubiquitin interacts with ubiquitin binding domains []. ; GO: 0005524 ATP binding, 0016881 acid-amino acid ligase activity, 0045116 protein neddylation; PDB: 3GZN_D 3DBL_F 1R4N_H 1R4M_D 2NVU_B 1TT5_D 3DBR_D 3DBH_H 1YOV_B 3FN1_A ....

>PF14451 Ub-Mut7C: Mut7-C ubiquitin

Probab=85.27  E-value=5.2  Score=25.78  Aligned_cols=53  Identities=19%  Similarity=0.386  Sum_probs=40.6

Q ss_pred             CCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee-eCCeeccCCCccccccccCCCEEEEEE
Q 032224           10 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI-FAGKQLEDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus        10 g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~-~~G~~L~d~~tL~~~gi~~~sti~l~~   71 (145)
                      +..+.+.+++..||.++-+.    .|+|..+.-++ .||+..+-+     +-+++|+.|.+.-
T Consensus        22 ~~~~~~~~~~~~tvkd~IEs----LGVP~tEV~~i~vNG~~v~~~-----~~~~~Gd~v~V~P   75 (81)
T PF14451_consen   22 GGPFTHPFDGGATVKDVIES----LGVPHTEVGLILVNGRPVDFD-----YRLKDGDRVAVYP   75 (81)
T ss_pred             CCceEEecCCCCcHHHHHHH----cCCChHHeEEEEECCEECCCc-----ccCCCCCEEEEEe
Confidence            34677889999999988765    69999888666 688877554     5566899988764

>KOG4250 consensus TANK binding protein kinase TBK1 [Signal transduction mechanisms]

Probab=85.20  E-value=2.4  Score=37.67  Aligned_cols=44  Identities=30%  Similarity=0.548  Sum_probs=38.2

Q ss_pred             CCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCee--ccC
Q 032224            9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQ--LED   52 (145)
Q Consensus         9 ~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~--L~d   52 (145)
                      +...+.+-++++.|+..|++.|+..+|||.+.|-|+|.|..  ++|
T Consensus       323 ~~~~~~~~~~~~ntl~~~~~~I~~~Tgipe~~qeLL~e~~~~h~~~  368 (732)
T KOG4250|consen  323 QATSHEYYVHADNTLHSLIERISKQTGIPEGKQELLFEGGLSHLED  368 (732)
T ss_pred             cceEEEEecChhhhHHHHHHHHHHhhCCCCccceeeeecCccccCc
Confidence            45568889999999999999999999999999999998763  445

>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A

Probab=85.18  E-value=4.1  Score=30.83  Aligned_cols=48  Identities=21%  Similarity=0.329  Sum_probs=29.7

Q ss_pred             EEEEEEcCCCcHHHHHHHHHHHhCCCcC---ceeee--eCCee---ccCCCccccc
Q 032224           12 TITLEVESSDTIDNVKAKIQDKEGIPPD---QQRLI--FAGKQ---LEDGRTLADY   59 (145)
Q Consensus        12 ~~~l~V~~~~TV~~LK~~I~~~~gip~~---~q~L~--~~G~~---L~d~~tL~~~   59 (145)
                      .+.+-|+.+.||+||.+.+....+++.+   .++|+  ++++.   +..+..|+++
T Consensus        35 ~~~~~vpk~~tV~Dll~~l~~k~~~~~~~~~~lrl~ev~~~ki~~~~~~d~~i~~l   90 (213)
T PF14533_consen   35 EYELLVPKTGTVSDLLEELQKKVGFSEEGTGKLRLWEVSNHKIYKILSEDEPISSL   90 (213)
T ss_dssp             EEEE--BTT-BHHHHHHHHHTT----TT----EEEEEEETTEEEEEE-TTSBGGGS
T ss_pred             EEEEEECCCCCHHHHHHHHHHHcCCCcCCcCcEEEEEeECCEEEeecCCCCchhhc
Confidence            5778999999999999999999998765   45554  56663   5666666655

>cd01766 Ufm1 Urm1-like ubiquitin domain

Probab=83.91  E-value=6.8  Score=24.94  Aligned_cols=61  Identities=21%  Similarity=0.268  Sum_probs=48.2

Q ss_pred             EEEEcCCCcHHHHHHHHHHHhCCCcCceeee-eCCeeccCCCccccccccCCCEEEEEEEec
Q 032224           14 TLEVESSDTIDNVKAKIQDKEGIPPDQQRLI-FAGKQLEDGRTLADYNIQKESTLHLVLRLR   74 (145)
Q Consensus        14 ~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~-~~G~~L~d~~tL~~~gi~~~sti~l~~~~~   74 (145)
                      .+.|+.++....+-.-.++++.+|+..--++ -+|--+...++-...=++.|+.+.++.|.+
T Consensus        19 vlsVpE~aPftAvlkfaAEeFkv~~~TsAiiTndGvGINP~qtAGnvflkhgselrliPRDr   80 (82)
T cd01766          19 VLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGSELRLIPRDR   80 (82)
T ss_pred             EEeccccCchHHHHHHHHHhcCCCccceeEEecCccccChhhcccceeeecCCEeeeccccc
Confidence            3588888888888888889999998665555 566667777888888888999998887755

Ufm1 (ubiquitin-fold modifier 1) is a post-translational UBL (ubiquitin-like) modifier with a tertiary structure similar to that of ubiquitin. Ufm1 is initially expressed as a precursor which undergoes C-terminal cleavage to expose a conserved glycine residue that is required for the conjugation reactions involving Ufm1.

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=83.73  E-value=1.8  Score=35.24  Aligned_cols=57  Identities=12%  Similarity=0.199  Sum_probs=45.4

Q ss_pred             EEEEcCCCcHHHHHHHHHHHhCCCcCceeeee---CCee-----ccCCCccccccccCCCEEEEE
Q 032224           14 TLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF---AGKQ-----LEDGRTLADYNIQKESTLHLV   70 (145)
Q Consensus        14 ~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~---~G~~-----L~d~~tL~~~gi~~~sti~l~   70 (145)
                      ...|.-.-||.||+..+....|+.+.+++|++   +|+.     .+.+..|-.|.|++|+.+.+-
T Consensus       351 s~~I~~~~TV~D~~~~Ld~~VGvk~trMkLf~L~eD~rt~~~ss~~~N~~L~~fkIedGDs~lvq  415 (418)
T KOG2982|consen  351 SGLICMTRTVLDFMKILDPKVGVKFTRMKLFLLREDGRTDDFSSSDYNMPLHYFKIEDGDSFLVQ  415 (418)
T ss_pred             ceEEEeehHHHHHHHHhccccccccceeEEEEEcccCccCCccccCCCCcceEEeccCCCEeeee
Confidence            34556677999999999999999999999986   3432     234578999999999987653

>cd01764 Urm1 Urm1-like ubuitin domain

Probab=83.55  E-value=2.6  Score=27.83  Aligned_cols=60  Identities=20%  Similarity=0.356  Sum_probs=36.1

Q ss_pred             EEEcCCCcHHHHHHHHHHHhCCCcCceeeeeC-Ce------eccCCC---cc--ccccccCCCEEEEEEEecCC
Q 032224           15 LEVESSDTIDNVKAKIQDKEGIPPDQQRLIFA-GK------QLEDGR---TL--ADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus        15 l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~-G~------~L~d~~---tL--~~~gi~~~sti~l~~~~~gg   76 (145)
                      +++....||.+|-+.+.+.+  |..+..|+.. |.      .|-++.   .|  .++-+++|++|.+.....||
T Consensus        23 ~~~~~~~tV~dll~~L~~~~--~~~~~~lf~~~g~lr~~i~VlvN~~di~~l~g~~t~L~dgD~v~i~P~v~GG   94 (94)
T cd01764          23 LDGEKPVTVGDLLDYVASNL--LEERPDLFIEGGSVRPGIIVLINDTDWELLGEEDYILEDGDHVVFISTLHGG   94 (94)
T ss_pred             ccCCCCCcHHHHHHHHHHhC--chhhhhhEecCCcccCCEEEEECCccccccCCcccCCCCcCEEEEECCCCCC
Confidence            33435679999999998776  2333333322 21      122221   23  35668999999988777665

Urm1 (Ubiquitin-Related Modifier1) The Urm1 fold, like those of two closely related proteins MoaD (molybdopterin synthase) and ThiS (sulfur carrier protein), is similar to that of ubiquitin although there is little or no sequence similarity. The C-terminal glycines of Urm1 are conjugated to an E1-like protein Uba4 as part of a novel conjugation system in yeast. The Urm1 fold is found only in eukaryotes.

>PF08337 Plexin_cytopl: Plexin cytoplasmic RasGAP domain; InterPro: IPR013548 This domain is found at C terminus of various plexins (e

Probab=83.23  E-value=4.8  Score=34.90  Aligned_cols=64  Identities=36%  Similarity=0.532  Sum_probs=42.3

Q ss_pred             CEEEEEEcCCCcHHHHHHHHHHHh--CCC------cCceeeee--C--Ce-eccCC-------------CccccccccCC
Q 032224           11 KTITLEVESSDTIDNVKAKIQDKE--GIP------PDQQRLIF--A--GK-QLEDG-------------RTLADYNIQKE   64 (145)
Q Consensus        11 ~~~~l~V~~~~TV~~LK~~I~~~~--gip------~~~q~L~~--~--G~-~L~d~-------------~tL~~~gi~~~   64 (145)
                      ..+.+.|-..+||.++|++|-+..  +.|      +++.-|.+  +  |+ +|.|.             .||..|+|.+|
T Consensus       202 ~~i~VkVLdCDTItQVKeKiLDavyk~~p~S~rp~~~d~dLEwr~~~~~~~iL~D~D~ts~~~~~wkrLNTL~HY~V~dg  281 (539)
T PF08337_consen  202 EEIPVKVLDCDTITQVKEKILDAVYKNTPYSQRPRADDVDLEWRQGRGGRLILQDEDSTSKVEGGWKRLNTLAHYKVPDG  281 (539)
T ss_dssp             TCEEEEEETTSBHHHHHHHHHHHHTTTS-GGGS--GGGEEEEEEETTSEEEEESSSSTTSEEETTEEE--BHHHHT--TT
T ss_pred             ceEEEEEEecCcccHHHHHHHHHHHcCCCCCCCCCccccceeeecCCCCcccccCCCCCcccCCCceEeccHhhcCCCCC
Confidence            458889999999999999997553  343      34455432  2  23 55543             36999999999


Q ss_pred             CEEEEEEEec
Q 032224           65 STLHLVLRLR   74 (145)
Q Consensus        65 sti~l~~~~~   74 (145)
                      ++|-++.+..
T Consensus       282 a~vaLv~k~~  291 (539)
T PF08337_consen  282 ATVALVPKQH  291 (539)
T ss_dssp             EEEEEEES--
T ss_pred             ceEEEeeccc
Confidence            9999887653

g. P51805 from SWISSPROT). Plexins are receptors for semaphorins, and plexin signalling is important in pathfinding and patterning of both neurons and developing blood vessels [, ]. The cytoplasmic region, which has been called a SEX domain [], and is involved in downstream signalling pathways, by interaction with proteins such as Rac1, RhoD, Rnd1 and other plexins []. ; PDB: 3H6N_A 4E71_A 4E74_A 3IG3_A 2REX_C 2JPH_A 2R2O_A 3HM6_X 3SU8_X 3SUA_E ....

>cd01787 GRB7_RA RA (RAS-associated like) domain of Grb7

Probab=83.02  E-value=5.9  Score=25.85  Aligned_cols=54  Identities=24%  Similarity=0.274  Sum_probs=39.7

Q ss_pred             EEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCc-eeee-e-----CCeeccCCCcc
Q 032224            3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQ-QRLI-F-----AGKQLEDGRTL   56 (145)
Q Consensus         3 I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~-q~L~-~-----~G~~L~d~~tL   56 (145)
                      |.|-..+|.+-.|.|++.+|+.++-+.+..+.+...+. -.|+ .     =.+.++|...|
T Consensus         5 vkv~~~Dg~sK~l~V~~~~Ta~dV~~~L~~K~h~~~~~~W~LvE~~P~l~lER~~EDHE~v   65 (85)
T cd01787           5 VKVYSEDGASKSLEVDERMTARDVCQLLVDKNHCQDDSSWTLVEHLPHLQLERLFEDHELV   65 (85)
T ss_pred             EEEEecCCCeeEEEEcCCCcHHHHHHHHHHHhCCCCCCCeEEEEecchhhhhhhccchHHH
Confidence            45556789999999999999999999999999876543 3333 1     12456777543

Grb7_RA The RA (RAS-associated like) domain of Grb7. Grb7 is an adaptor molecule that mediates signal transduction from multiple cell surface receptors to various downstream signaling pathways. Grb7 and its related family members Grb10 and Grb14 share a conserved domain architecture that includes an amino-terminal proline-rich region, a central segment termed the GM region (for Grb and Mig) which includes the RA, PIR, and PH domains, and a carboxyl-terminal SH2 domain. Grb7/10/14 family proteins are phosphorylated on serine/threonine as well as tyrosine residues and are mainly localized to the cytoplasm.

>PRK01777 hypothetical protein; Validated

Probab=82.51  E-value=12  Score=24.86  Aligned_cols=69  Identities=9%  Similarity=0.101  Sum_probs=45.4

Q ss_pred             CEEEEEeCC-CC--EEEEEEcCCCcHHHHHHHHHHHhCCCcC--c-----eeeeeCCeeccCCCccccccccCCCEEEEE
Q 032224            1 MQIFVKTLT-GK--TITLEVESSDTIDNVKAKIQDKEGIPPD--Q-----QRLIFAGKQLEDGRTLADYNIQKESTLHLV   70 (145)
Q Consensus         1 M~I~Vk~~~-g~--~~~l~V~~~~TV~~LK~~I~~~~gip~~--~-----q~L~~~G~~L~d~~tL~~~gi~~~sti~l~   70 (145)
                      |+|.|-... .+  ...+++++.+||.++-.++    ||+.+  +     -.+.-+|+....+.     -+++|+.|.+.
T Consensus         4 i~v~V~ya~~~~~~~~~l~vp~GtTv~dal~~s----gi~~~~pei~~~~~~vgI~Gk~v~~d~-----~L~dGDRVeIy   74 (95)
T PRK01777          4 IRVEVVYALPERQYLQRLTLQEGATVEEAIRAS----GLLELRTDIDLAKNKVGIYSRPAKLTD-----VLRDGDRVEIY   74 (95)
T ss_pred             eEEEEEEECCCceEEEEEEcCCCCcHHHHHHHc----CCCccCcccccccceEEEeCeECCCCC-----cCCCCCEEEEe
Confidence            456664432 22  4668899999999988765    55544  2     25556787765544     45679999988


Q ss_pred             EEecCCcc
Q 032224           71 LRLRGGAK   78 (145)
Q Consensus        71 ~~~~gg~~   78 (145)
                      -.+.-..+
T Consensus        75 rPL~~DPk   82 (95)
T PRK01777         75 RPLLADPK   82 (95)
T ss_pred             cCCCCCHH
Confidence            77665544

>PF02991 Atg8: Autophagy protein Atg8 ubiquitin like; InterPro: IPR004241 Autophagy is generally known as a process involved in the degradation of bulk cytoplasmic components that are non-specifically sequestered into an autophagosome, where they are sequestered into double-membrane vesicles and delivered to the degradative organelle, the lysosome/vacuole, for breakdown and eventual recycling of the resulting macromolecules

Probab=81.01  E-value=3.7  Score=27.78  Aligned_cols=58  Identities=14%  Similarity=0.169  Sum_probs=39.6

Q ss_pred             EEEcCCCcHHHHHHHHHHHhCCCcCc-eeeeeCCeeccCCCccccccc---cCCCEEEEEEE
Q 032224           15 LEVESSDTIDNVKAKIQDKEGIPPDQ-QRLIFAGKQLEDGRTLADYNI---QKESTLHLVLR   72 (145)
Q Consensus        15 l~V~~~~TV~~LK~~I~~~~gip~~~-q~L~~~G~~L~d~~tL~~~gi---~~~sti~l~~~   72 (145)
                      +=|+.+.||++|...|..+..++++. +-|+.++..+..+.++++.=-   .++.-|++...
T Consensus        37 fLvp~~~tv~qf~~~ir~rl~l~~~~alfl~Vn~~lp~~s~tm~elY~~~kdeDGFLY~~Ys   98 (104)
T PF02991_consen   37 FLVPKDLTVGQFVYIIRKRLQLSPEQALFLFVNNTLPSTSSTMGELYEKYKDEDGFLYMTYS   98 (104)
T ss_dssp             EEEETTSBHHHHHHHHHHHTT--TTS-EEEEBTTBESSTTSBHHHHHHHHB-TTSSEEEEEE
T ss_pred             EEEcCCCchhhHHHHhhhhhcCCCCceEEEEEcCcccchhhHHHHHHHHhCCCCCeEEEEec
Confidence            45789999999999999999998764 566677766677777766421   23445666543

The yeast proteins are involved in the autophagosome, and Atg8 binds Atg19, via its N terminus and the C terminus of Atg19. Light chain 3 is proposed to function primarily as a subunit of microtubule associated proteins 1A and 1B and that its expression may regulate microtubule binding activity [] Related proteins that belong to this group include the human ganglioside expression factor and a symbiosis-related fungal protein.; PDB: 3ECI_A 3D32_B 1GNU_A 1KM7_A 1KLV_A 1KOT_A 3DOW_A 1KJT_A 1V49_A 2ZJD_C ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	145
3u5g_f	152	The Structure Of The Eukaryotic Ribosome At 3.0 A R		6e-52
3u5c_f	152	The Structure Of The Eukaryotic Ribosome At 3.0 A R		2e-47
3olm_D	79	Structure And Function Of A Ubiquitin Binding Site		4e-38
3l0w_B	169	Structure Of Split Monoubiquitinated Pcna With Ubiq		6e-38
3u5e_m	128	The Structure Of The Eukaryotic Ribosome At 3.0 A R		7e-38
1otr_B	76	Solution Structure Of A Cue-Ubiquitin Complex Lengt		7e-38
4ii3_B	96	Crystal Structure Of S. Pombe Ubiquitin Activating		7e-38
4hcn_B	98	Crystal Structure Of Burkholderia Pseudomallei Effe		1e-37
1yx5_B	98	Solution Structure Of S5a Uim-1UBIQUITIN COMPLEX Le		2e-37
2jwz_A	76	Mutations In The Hydrophobic Core Of Ubiquitin Diff		3e-37
2zvn_A	154	Nemo Cozi Domain Incomplex With Diubiquitin In P212		4e-37
3b08_A	152	Crystal Structure Of The Mouse Hoil1-L-Nzf In Compl		4e-37
3jvz_X	81	E2~ubiquitin-Hect Length = 81		4e-37
2w9n_A	152	Crystal Structure Of Linear Di-Ubiquitin Length = 1		4e-37
4ap4_C	80	Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex Le		4e-37
3nob_A	78	Structure Of K11-Linked Di-Ubiquitin Length = 78		4e-37
3u30_A	172	Crystal Structure Of A Linear-Specific Ubiquitin Fa		5e-37
1aar_A	76	Structure Of A Diubiquitin Conjugate And A Model Fo		5e-37
2khw_B	79	Solution Structure Of The Human Polymerase Iota Ubm		5e-37
4a18_K	129	T.Thermophila 60s Ribosomal Subunit In Complex With		5e-37
2ld9_A	77	Backbone Structure Of Ubiquitin Determined Using Ba		5e-37
2znv_C	77	Crystal Structure Of Human Amsh-Lp Dub Domain In Co		6e-37
3vdz_A	111	Tailoring Encodable Lanthanide-Binding Tags As Mri		6e-37
3dvg_X	80	Crystal Structure Of K63-Specific Fab Apu.3a8 Bound		6e-37
2ojr_A	111	Structure Of Ubiquitin Solved By Sad Using The Lant		6e-37
3zf7_s	128	High-resolution Cryo-electron Microscopy Structure		6e-37
4ii2_B	83	Crystal Structure Of Ubiquitin Activating Enzyme 1		9e-37
2znv_B	76	Crystal Structure Of Human Amsh-Lp Dub Domain In Co		1e-36
1zgu_B	76	Solution Structure Of The Human Mms2-Ubiquitin Comp		1e-36
3dvg_Y	79	Crystal Structure Of K63-Specific Fab Apu.3a8 Bound		1e-36
2kdi_A	114	Solution Structure Of A UbiquitinUIM FUSION PROTEIN		1e-36
3q3f_A	189	Engineering Domain-Swapped Binding Interfaces By Mu		1e-36
1yiw_A	76	X-Ray Crystal Structure Of A Chemically Synthesized		1e-36
3rul_A	79	New Strategy To Analyze Structures Of Glycopeptide-		2e-36
2o6v_D	76	Crystal Structure And Solution Nmr Studies Of Lys48		2e-36
2y5b_B	152	Structure Of Usp21 In Complex With Linear Diubiquit		2e-36
1xd3_B	75	Crystal Structure Of Uchl3-Ubvme Complex Length = 7		2e-36
1cmx_B	76	Structural Basis For The Specificity Of Ubiquitin C		2e-36
2xk5_B	76	Crystal Structure Of K6-Linked Diubiquitin Length =		2e-36
3k9o_B	96	The Crystal Structure Of E2-25k And Ubb+1 Complex L		3e-36
1s1q_B	76	Tsg101(Uev) Domain In Complex With Ubiquitin Length		3e-36
2k6d_B	76	Cin85 Sh3-C Domain In Complex With Ubiquitin Length		4e-36
2o6v_B	76	Crystal Structure And Solution Nmr Studies Of Lys48		4e-36
2k25_A	103	Automated Nmr Structure Of The Ubb By Fapsy Length		6e-36
1ogw_A	76	Synthetic Ubiquitin With Fluoro-Leu At 50 And 67 Le		9e-36
2fcs_A	76	X-Ray Crystal Structure Of A Chemically Synthesized		1e-35
1yj1_A	76	X-Ray Crystal Structure Of A Chemically Synthesized		1e-35
3ai5_A	307	Crystal Structure Of Yeast Enhanced Green Fluoresce		1e-35
2gbr_A	81	Crystal Structure Of The 35-36 Moad Insertion Mutan		2e-35
2zcb_A	76	Crystal Structure Of Ubiquitin P37aP38A Length = 76		2e-35
3ldz_F	73	Crystal Structure Of Human Stam1 Vhs Domain In Comp		5e-35
3h7s_B	76	Crystal Structures Of K63-Linked Di- And Tri-Ubiqui		5e-35
2gbk_A	83	Crystal Structure Of The 9-10 Moad Insertion Mutant		5e-35
1ud7_A	76	Solution Structure Of The Designed Hydrophobic Core		6e-35
3ons_A	72	Crystal Structure Of Human Ubiquitin In A New Cryst		1e-34
4gsw_A	80	Crystal Structure Of Ubiquitin From Entamoeba Histo		2e-34
1c3t_A	76	Rotamer Strain As A Determinant Of Protein Structur		2e-34
1zw7_A	82	Elimination Of The C-Cap In Ubiquitin Structure, Dy		2e-34
1sif_A	88	Crystal Structure Of A Multiple Hydrophobic Core Mu		2e-34
3v6e_B	91	Crystal Structure Of Usp2 And A Mutant Form Of Ubiq		3e-34
2gbj_A	84	Crystal Structure Of The 9-10 8 Glycine Insertion M		5e-34
2gbm_A	84	Crystal Structure Of The 35-36 8 Glycine Insertion		5e-34
3v6c_B	91	Crystal Structure Of Usp2 In Complex With Mutated U		7e-34
4hjk_A	77	U7ub7 Disulfide Variant Length = 77		3e-32
4i6l_B	76	Crystal Structure Of Otub1 In Complex With Ubiquiti		7e-32
3mtn_B	85	Usp21 In Complex With A Ubiquitin-based, Usp21-spec		1e-30
2jvc_A	82	Nmr Solution Structure Of Ubiquitin Like Protein Le		2e-30
4hk2_A	78	U7ub25.2540 Length = 78		6e-30
3n3k_B	85	The Catalytic Domain Of Usp8 In Complex With A Usp8		6e-26
1bt0_A	76	Structure Of Ubiquitin-Like Protein, Rub1 Length =		3e-22
1gjz_A	53	Solution Structure Of A Dimeric N-Terminal Fragment		4e-22
3dbh_I	88	Structural Dissection Of A Gating Mechanism Prevent		5e-21
3dbl_I	88	Structural Dissection Of A Gating Mechanism Prevent		2e-20
4hcp_B	78	Crystal Structure Of Burkholderia Pseudomallei Effe		4e-20
4f8c_B	88	Structure Of The Cif:nedd8 Complex - Yersinia Pseud		4e-20
2nvu_I	81	Structure Of Appbp1-Uba3~nedd8-Nedd8-Mgatp-Ubc12(C1		5e-20
2bkr_B	77	Nedd8 Nedp1 Complex Length = 77		5e-20
1ndd_B	76	Structure Of Nedd8 Length = 76		5e-20
3gzn_I	82	Structure Of Nedd8-Activating Enzyme In Complex Wit		5e-20
3dqv_A	81	Structural Insights Into Nedd8 Activation Of Cullin		2e-19
3zey_9	153	High-resolution Cryo-electron Microscopy Structure		3e-13
2dzi_A	81	2dziSOLUTION STRUCTURE OF THE N-Terminal Ubiquitin-		2e-10
2xzm_9	189	Crystal Structure Of The Eukaryotic 40s Ribosomal S		2e-10
2zeq_A	78	Crystal Structure Of Ubiquitin-Like Domain Of Murin		4e-08
2knb_A	81	Solution Nmr Structure Of The Parkin Ubl Domain In		5e-08
1iyf_A	81	Solution Structure Of Ubiquitin-Like Domain Of Huma		6e-08
3b1l_X	76	Crystal Structure Of Parkin Ubiquitin-Like Domain R		7e-08
3sdl_C	164	Crystal Structure Of Human Isg15 In Complex With Ns		7e-08
3rt3_B	159	Complex Of Influenza Virus Protein With Host Anti-V		7e-08
2hj8_A	88	Solution Nmr Structure Of The C-Terminal Domain Of		8e-08
3r66_C	164	Crystal Structure Of Human Isg15 In Complex With Ns		8e-08
2l7r_A	93	Solution Nmr Structure Of N-Terminal Ubiquitin-Like		3e-07
3pse_B	156	Structure Of A Viral Otu Domain Protease Bound To I		4e-07
3phx_B	79	Otu Domain Of Crimean Congo Hemorrhagic Fever Virus		4e-07
2faz_A	78	Ubiquitin-Like Domain Of Human Nuclear Zinc Finger		4e-07
1zkh_A	86	Solution Structure Of A Human Ubiquitin-Like Domain		1e-06
1wy8_A	89	Solution Structure Of The N-Terminal Ubiquitin-Like		1e-06
1z2m_A	155	Crystal Structure Of Isg15, The Interferon-Induced		2e-06
1wh3_A	87	Solution Structure Of C-Terminal Ubiquitin Like Dom		2e-06
1we7_A	115	Solution Structure Of Ubiquitin-Like Domain In Sf3a		5e-06
1wx9_A	86	Solution Structure Of The N-Terminal Ubiquitin-Like		5e-06
4dwf_A	90	Crystal Structure Of A Hla-B Associated Transcript		6e-06
4eew_A	88	Crystal Structure Of The Ubl Domain Of Bag6 Length		1e-05
1ttn_A	106	Solution Structure Of The Ubiquitin-Like Domain Of		2e-05
3m63_B	101	Crystal Structure Of Ufd2 In Complex With The Ubiqu		4e-05
2bwe_S	77	The Crystal Structure Of The Complex Between The Ub		4e-05
1p1a_A	85	Nmr Structure Of Ubiquitin-Like Domain Of Hhr23b Le		5e-05
1uel_A	95	Solution Structure Of Ubiquitin-Like Domain Of Hhr2		6e-05
2wyq_A	85	The Crystal Structure Of The Ubiquitin-Like (Ubl) D		6e-04
1oqy_A	368	Structure Of The Dna Repair Protein Hhr23a Length =		7e-04

>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 =  199 bits (505), Expect = 6e-52,   Method: Compositional matrix adjust.
 Identities = 121/141 (85%), Positives = 128/141 (90%)
Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVESSDTIDNVK+KIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1   MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61  IQKESTLHLVLRLRGGAXXXXXXXXXXXXXXXXXXXXXXLAVLQFYKVDDSGKVQRLRKE 120
           IQKESTLHLVLRLRGG                         VL +YKVD  GKV +LR+E
Sbjct: 61  IQKESTLHLVLRLRGGXXXXXXXXXXXXXXXXXXXXXXXXXVLSYYKVDAEGKVTKLRRE 120
Query: 121 CPNAECGAGTFMASHFDRHYC 141
           C N  CGAG F+A+H DR YC
Sbjct: 121 CSNPTCGAGVFLANHKDRLYC 141

>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 =  184 bits (466), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 117/141 (82%), Positives = 124/141 (87%)
Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVESSDTIDNVK+KIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1   MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61  IQKESTLHLVLRLRGGAXXXXXXXXXXXXXXXXXXXXXXLAVLQFYKVDDSGKVQRLRKE 120
           IQKESTLHLVLRLRGG                         VL +YKVD  GKV +LR+E
Sbjct: 61  IQKESTLHLVLRLRGGGKKRKXXXXXXXXXXXXXXXXXXXXVLSYYKVDAEGKVTKLRRE 120
Query: 121 CPNAECGAGTFMASHFDRHYC 141
           C N  CGAG F+A+H DR YC
Sbjct: 121 CSNPTCGAGVFLANHKDRLYC 141

>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 =  153 bits (386), Expect = 4e-38,   Method: Compositional matrix adjust.
 Identities = 74/76 (97%), Positives = 76/76 (100%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVESSDTIDNVK+KIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 4  MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 64 IQKESTLHLVLRLRGG 79

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

Iteration: 1
 Score =  152 bits (384), Expect = 6e-38,   Method: Compositional matrix adjust.
 Identities = 74/77 (96%), Positives = 76/77 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVESSDTIDNVK+KIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 IQKESTLHLVLRLRGGA 77
          IQKESTLHLVLRLRGG 
Sbjct: 61 IQKESTLHLVLRLRGGG 77

>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 =  152 bits (384), Expect = 7e-38,   Method: Compositional matrix adjust.
 Identities = 74/76 (97%), Positives = 76/76 (100%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVESSDTIDNVK+KIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76

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

Iteration: 1
 Score =  152 bits (384), Expect = 7e-38,   Method: Compositional matrix adjust.
 Identities = 74/76 (97%), Positives = 76/76 (100%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVESSDTIDNVK+KIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76

>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 =  152 bits (383), Expect = 7e-38,   Method: Compositional matrix adjust.
 Identities = 74/76 (97%), Positives = 76/76 (100%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVESSDTIDNVK+KIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 21 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 80
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 81 IQKESTLHLVLRLRGG 96

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

Iteration: 1
 Score =  151 bits (382), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 74/76 (97%), Positives = 76/76 (100%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVESSDTIDNVK+KIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 23 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 82
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 83 IQKESTLHLVLRLRGG 98

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

Iteration: 1
 Score =  150 bits (380), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 73/76 (96%), Positives = 75/76 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76

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

Iteration: 1
 Score =  150 bits (378), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 73/76 (96%), Positives = 75/76 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVESSDTIDNVK+KIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLH VLRLRGG
Sbjct: 61 IQKESTLHSVLRLRGG 76

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

Iteration: 1
 Score =  149 bits (377), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 73/76 (96%), Positives = 75/76 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 3  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 62
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 63 IQKESTLHLVLRLRGG 78

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

Iteration: 1
 Score =  149 bits (377), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 73/76 (96%), Positives = 75/76 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76

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

Iteration: 1
 Score =  149 bits (377), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 73/76 (96%), Positives = 75/76 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 6  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 65
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 66 IQKESTLHLVLRLRGG 81

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

Iteration: 1
 Score =  149 bits (377), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 73/76 (96%), Positives = 75/76 (98%)
Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 77  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 136
Query: 61  IQKESTLHLVLRLRGG 76
           IQKESTLHLVLRLRGG
Sbjct: 137 IQKESTLHLVLRLRGG 152

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

Iteration: 1
 Score =  149 bits (377), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 73/76 (96%), Positives = 75/76 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 5  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 64
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 65 IQKESTLHLVLRLRGG 80

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

Iteration: 1
 Score =  149 bits (377), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 73/76 (96%), Positives = 75/76 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 3  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 62
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 63 IQKESTLHLVLRLRGG 78

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

Iteration: 1
 Score =  149 bits (376), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 73/76 (96%), Positives = 75/76 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 21 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 80
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 81 IQKESTLHLVLRLRGG 96

>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 =  149 bits (376), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 73/76 (96%), Positives = 75/76 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76

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

Iteration: 1
 Score =  149 bits (376), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 73/76 (96%), Positives = 75/76 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 4  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 64 IQKESTLHLVLRLRGG 79

>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 =  149 bits (376), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 72/77 (93%), Positives = 76/77 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITL+VE+SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLDVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 IQKESTLHLVLRLRGGA 77
          IQKESTLHLVLRLRGG 
Sbjct: 61 IQKESTLHLVLRLRGGG 77

>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 =  149 bits (376), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 73/76 (96%), Positives = 75/76 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 2  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 61
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 62 IQKESTLHLVLRLRGG 77

>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 =  149 bits (376), Expect = 6e-37,   Method: Compositional matrix adjust.
 Identities = 73/76 (96%), Positives = 75/76 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76

>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 =  149 bits (376), Expect = 6e-37,   Method: Compositional matrix adjust.
 Identities = 73/76 (96%), Positives = 75/76 (98%)
Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 36  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 95
Query: 61  IQKESTLHLVLRLRGG 76
           IQKESTLHLVLRLRGG
Sbjct: 96  IQKESTLHLVLRLRGG 111

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

Iteration: 1
 Score =  149 bits (376), Expect = 6e-37,   Method: Compositional matrix adjust.
 Identities = 73/76 (96%), Positives = 75/76 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 4  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 64 IQKESTLHLVLRLRGG 79

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

Iteration: 1
 Score =  149 bits (375), Expect = 6e-37,   Method: Compositional matrix adjust.
 Identities = 73/76 (96%), Positives = 75/76 (98%)
Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 36  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 95
Query: 61  IQKESTLHLVLRLRGG 76
           IQKESTLHLVLRLRGG
Sbjct: 96  IQKESTLHLVLRLRGG 111

>pdb|3ZF7|SS Chain s, High-resolution Cryo-electron Microscopy Structure Of The Trypanosoma Brucei Ribosome Length = 128

Iteration: 1
 Score =  149 bits (375), Expect = 6e-37,   Method: Compositional matrix adjust.
 Identities = 72/76 (94%), Positives = 75/76 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTI LEVE+SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLE+GRTLADYN
Sbjct: 1  MQIFVKTLTGKTIALEVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEEGRTLADYN 60
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76

>pdb|4II2|B Chain B, Crystal Structure Of Ubiquitin Activating Enzyme 1 (uba1) In Complex With The Ub E2 Ubc4, Ubiquitin, And Atp/mg Length = 83

Iteration: 1
 Score =  148 bits (374), Expect = 9e-37,   Method: Compositional matrix adjust.
 Identities = 69/76 (90%), Positives = 76/76 (100%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFV+TLTG+TITLEVESSDTIDNV+A+IQD+EGIPPDQQRLIFAG+QLEDGRTLADYN
Sbjct: 8  MQIFVRTLTGRTITLEVESSDTIDNVRARIQDREGIPPDQQRLIFAGRQLEDGRTLADYN 67
Query: 61 IQKESTLHLVLRLRGG 76
          IQ+ESTLHLVLRLRGG
Sbjct: 68 IQRESTLHLVLRLRGG 83

>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 =  148 bits (374), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 72/76 (94%), Positives = 75/76 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 IQKESTLHLVLRLRGG 76
          IQ+ESTLHLVLRLRGG
Sbjct: 61 IQRESTLHLVLRLRGG 76

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

Iteration: 1
 Score =  148 bits (374), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 72/76 (94%), Positives = 75/76 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAG+QLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRTLSDYN 60
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76

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

Iteration: 1
 Score =  148 bits (374), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 72/76 (94%), Positives = 75/76 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 4  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 61 IQKESTLHLVLRLRGG 76
          IQ+ESTLHLVLRLRGG
Sbjct: 64 IQRESTLHLVLRLRGG 79

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

Iteration: 1
 Score =  148 bits (373), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 70/76 (92%), Positives = 75/76 (98%)
Query: 2  QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNI 61
          QIF KTLTGKTITLEVESSDTIDNVK+KIQDKEGIPPDQQRLI+AGKQLEDGRTL+DYNI
Sbjct: 11 QIFAKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSDYNI 70
Query: 62 QKESTLHLVLRLRGGA 77
          Q+ESTLHLVLRLRGG+
Sbjct: 71 QRESTLHLVLRLRGGS 86

>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 =  148 bits (373), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 72/76 (94%), Positives = 74/76 (97%)
Query: 2   QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNI 61
           QIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYNI
Sbjct: 107 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNI 166
Query: 62  QKESTLHLVLRLRGGA 77
           QKESTLHLVLRLRGG 
Sbjct: 167 QKESTLHLVLRLRGGG 182

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

Iteration: 1
 Score =  147 bits (372), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 72/76 (94%), Positives = 75/76 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          +QIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  LQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76

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

Iteration: 1
 Score =  147 bits (371), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 72/75 (96%), Positives = 74/75 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 IQKESTLHLVLRLRG 75
          IQKESTLHLVLRLRG
Sbjct: 61 IQKESTLHLVLRLRG 75

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

Iteration: 1
 Score =  147 bits (371), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 71/76 (93%), Positives = 75/76 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAG+QLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRTLSDYN 60
Query: 61 IQKESTLHLVLRLRGG 76
          IQ+ESTLHLVLRLRGG
Sbjct: 61 IQRESTLHLVLRLRGG 76

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

Iteration: 1
 Score =  147 bits (371), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 72/75 (96%), Positives = 74/75 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 IQKESTLHLVLRLRG 75
          IQKESTLHLVLRLRG
Sbjct: 61 IQKESTLHLVLRLRG 75

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

Iteration: 1
 Score =  147 bits (371), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 72/75 (96%), Positives = 74/75 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 IQKESTLHLVLRLRG 75
          IQKESTLHLVLRLRG
Sbjct: 61 IQKESTLHLVLRLRG 75

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

Iteration: 1
 Score =  147 bits (371), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 72/75 (96%), Positives = 74/75 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 IQKESTLHLVLRLRG 75
          IQKESTLHLVLRLRG
Sbjct: 61 IQKESTLHLVLRLRG 75

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

Iteration: 1
 Score =  147 bits (370), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 72/76 (94%), Positives = 74/76 (97%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPP QQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPQQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76

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

Iteration: 1
 Score =  147 bits (370), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 73/77 (94%), Positives = 75/77 (97%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 2  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 61
Query: 61 IQKESTLHLVLRLRGGA 77
          IQKESTLHLVLRLRG A
Sbjct: 62 IQKESTLHLVLRLRGYA 78

>pdb|1S1Q|B Chain B, Tsg101(Uev) Domain In Complex With Ubiquitin Length = 76

Iteration: 1
 Score =  147 bits (370), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 72/75 (96%), Positives = 74/75 (98%)
Query: 2  QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNI 61
          QIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYNI
Sbjct: 2  QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNI 61
Query: 62 QKESTLHLVLRLRGG 76
          QKESTLHLVLRLRGG
Sbjct: 62 QKESTLHLVLRLRGG 76

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

Iteration: 1
 Score =  146 bits (369), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 72/75 (96%), Positives = 74/75 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 IQKESTLHLVLRLRG 75
          IQKESTLHLVLRLRG
Sbjct: 61 IQKESTLHLVLRLRG 75

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

Iteration: 1
 Score =  146 bits (368), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 71/76 (93%), Positives = 74/76 (97%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAG QLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGXQLEDGRTLSDYN 60
Query: 61 IQKESTLHLVLRLRGG 76
          IQ+ESTLHLVLRLRGG
Sbjct: 61 IQRESTLHLVLRLRGG 76

>pdb|2K25|A Chain A, Automated Nmr Structure Of The Ubb By Fapsy Length = 103

Iteration: 1
 Score =  145 bits (367), Expect = 6e-36,   Method: Compositional matrix adjust.
 Identities = 72/77 (93%), Positives = 75/77 (97%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL++YN
Sbjct: 9  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSEYN 68
Query: 61 IQKESTLHLVLRLRGGA 77
          IQKESTLHLVLRLRG A
Sbjct: 69 IQKESTLHLVLRLRGYA 85

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

Iteration: 1
 Score =  145 bits (365), Expect = 9e-36,   Method: Compositional matrix adjust.
 Identities = 71/76 (93%), Positives = 73/76 (96%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQ EDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQXEDGRTLSDYN 60
Query: 61 IQKESTLHLVLRLRGG 76
          IQKEST HLVLRLRGG
Sbjct: 61 IQKESTXHLVLRLRGG 76

>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 =  145 bits (365), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 71/76 (93%), Positives = 74/76 (97%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          +QIFVKTLTGKTITLEVE SDTI+NVKAKIQDKE IPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  LQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEQIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76

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

Iteration: 1
 Score =  145 bits (365), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 71/76 (93%), Positives = 74/76 (97%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          +QIFVKTLTGKTITLEVE SDTI+NVKAKIQDKE IPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  LQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEXIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76

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

Iteration: 1
 Score =  144 bits (364), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 71/74 (95%), Positives = 73/74 (98%)
Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 234 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 293
Query: 61  IQKESTLHLVLRLR 74
           IQKESTLHLVLRLR
Sbjct: 294 IQKESTLHLVLRLR 307

>pdb|2GBR|A Chain A, Crystal Structure Of The 35-36 Moad Insertion Mutant Of Ubiquitin Length = 81

Iteration: 1
 Score =  144 bits (362), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 73/81 (90%), Positives = 75/81 (92%), Gaps = 5/81 (6%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG-----IPPDQQRLIFAGKQLEDGRT 55
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEG     IPPDQQRLIFAGKQLEDGRT
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGRWALAIPPDQQRLIFAGKQLEDGRT 60
Query: 56 LADYNIQKESTLHLVLRLRGG 76
          L+DYNIQKESTLHLVLRLRGG
Sbjct: 61 LSDYNIQKESTLHLVLRLRGG 81

>pdb|2ZCB|A Chain A, Crystal Structure Of Ubiquitin P37aP38A Length = 76

Iteration: 1
 Score =  144 bits (362), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 71/76 (93%), Positives = 73/76 (96%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGI  DQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIAADQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76

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

Iteration: 1
 Score =  142 bits (359), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 70/73 (95%), Positives = 72/73 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 IQKESTLHLVLRL 73
          IQKESTLHLVLRL
Sbjct: 61 IQKESTLHLVLRL 73

>pdb|2GBK|A Chain A, Crystal Structure Of The 9-10 Moad Insertion Mutant Of Ubiquitin Length = 83

Iteration: 1
 Score =  142 bits (359), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 73/83 (87%), Positives = 75/83 (90%), Gaps = 7/83 (8%)
Query: 1  MQIFVKTLT-------GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 53
          MQIFVKTLT       GKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDG
Sbjct: 1  MQIFVKTLTQVRELVGGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG 60
Query: 54 RTLADYNIQKESTLHLVLRLRGG 76
          RTL+DYNIQKESTLHLVLRLRGG
Sbjct: 61 RTLSDYNIQKESTLHLVLRLRGG 83

>pdb|1UD7|A Chain A, Solution Structure Of The Designed Hydrophobic Core Mutant Of Ubiquitin, 1d7 Length = 76

Iteration: 1
 Score =  142 bits (358), Expect = 6e-35,   Method: Compositional matrix adjust.
 Identities = 66/76 (86%), Positives = 74/76 (97%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQ+F+KTLTGKT+T+EVE SDT++N KAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  MQVFLKTLTGKTVTIEVEPSDTVENFKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 IQKESTLHLVLRLRGG 76
          IQKEST+HLVLRLRGG
Sbjct: 61 IQKESTIHLVLRLRGG 76

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

Iteration: 1
 Score =  141 bits (355), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 69/72 (95%), Positives = 71/72 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 IQKESTLHLVLR 72
          IQKESTLHLVLR
Sbjct: 61 IQKESTLHLVLR 72

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

Iteration: 1
 Score =  141 bits (355), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 67/76 (88%), Positives = 74/76 (97%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE +D+ID +KAKIQ+KEGIPPDQQRLIFAGKQLE+G+TL+DYN
Sbjct: 4  MQIFVKTLTGKTITLEVEPNDSIDAIKAKIQEKEGIPPDQQRLIFAGKQLEEGKTLSDYN 63
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 64 IQKESTLHLVLRLRGG 79

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

Iteration: 1
 Score =  141 bits (355), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 65/76 (85%), Positives = 75/76 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQ+FVKTLTGKT+T+E+E SDT++N+KAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  MQLFVKTLTGKTLTVELEPSDTVENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 IQKESTLHLVLRLRGG 76
          +QKEST+HLVLRLRGG
Sbjct: 61 LQKESTIHLVLRLRGG 76

>pdb|1ZW7|A Chain A, Elimination Of The C-Cap In Ubiquitin Structure, Dynamics And Thermodynamic Consequences Length = 82

Iteration: 1
 Score =  140 bits (354), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 69/76 (90%), Positives = 71/76 (93%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTG TITLEVESSDTIDNVK+KIQ   GIPPDQQ LIFAGKQLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGATITLEVESSDTIDNVKSKIQAAPGIPPDQQELIFAGKQLEDGRTLSDYN 60
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76

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

Iteration: 1
 Score =  140 bits (353), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 66/77 (85%), Positives = 74/77 (96%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          +Q+F+KTLTGKT T+E+E SDTI+N+KAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 10 LQLFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 69
Query: 61 IQKESTLHLVLRLRGGA 77
          IQKESTLHLVLRLRGG 
Sbjct: 70 IQKESTLHLVLRLRGGG 86

>pdb|3V6E|B Chain B, Crystal Structure Of Usp2 And A Mutant Form Of Ubiquitin Length = 91

Iteration: 1
 Score =  140 bits (353), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 68/74 (91%), Positives = 71/74 (95%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFV TL+GK ITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 18 MQIFVNTLSGKHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 77
Query: 61 IQKESTLHLVLRLR 74
          IQKESTLHLVLRLR
Sbjct: 78 IQKESTLHLVLRLR 91

>pdb|2GBJ|A Chain A, Crystal Structure Of The 9-10 8 Glycine Insertion Mutant Of Ubiquitin. Length = 84

Iteration: 1
 Score =  139 bits (350), Expect = 5e-34,   Method: Compositional matrix adjust.
 Identities = 73/84 (86%), Positives = 75/84 (89%), Gaps = 8/84 (9%)
Query: 1  MQIFVKTLTG--------KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLED 52
          MQIFVKTLTG        KTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLED
Sbjct: 1  MQIFVKTLTGGGGGGGGGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLED 60
Query: 53 GRTLADYNIQKESTLHLVLRLRGG 76
          GRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 61 GRTLSDYNIQKESTLHLVLRLRGG 84

>pdb|2GBM|A Chain A, Crystal Structure Of The 35-36 8 Glycine Insertion Mutant Of Ubiquitin Length = 84

Iteration: 1
 Score =  139 bits (350), Expect = 5e-34,   Method: Compositional matrix adjust.
 Identities = 73/84 (86%), Positives = 75/84 (89%), Gaps = 8/84 (9%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG--------IPPDQQRLIFAGKQLED 52
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEG        IPPDQQRLIFAGKQLED
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGGGGGGGGGIPPDQQRLIFAGKQLED 60
Query: 53 GRTLADYNIQKESTLHLVLRLRGG 76
          GRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 61 GRTLSDYNIQKESTLHLVLRLRGG 84

>pdb|3V6C|B Chain B, Crystal Structure Of Usp2 In Complex With Mutated Ubiquitin Length = 91

Iteration: 1
 Score =  139 bits (349), Expect = 7e-34,   Method: Compositional matrix adjust.
 Identities = 68/74 (91%), Positives = 70/74 (94%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFV TLTG  ITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 18 MQIFVNTLTGTHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 77
Query: 61 IQKESTLHLVLRLR 74
          IQKESTLHLVLRLR
Sbjct: 78 IQKESTLHLVLRLR 91

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

Iteration: 1
 Score =  133 bits (335), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 67/76 (88%), Positives = 69/76 (90%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVK LTGKT TLEVE SDTI+NVKAKIQDK G PPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 2  MQIFVKCLTGKTNTLEVEPSDTIENVKAKIQDKIGYPPDQQRLIFAGKQLEDGRTLSDYN 61
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLH V RLRGG
Sbjct: 62 IQKESTLHCVRRLRGG 77

>pdb|4I6L|B Chain B, Crystal Structure Of Otub1 In Complex With Ubiquitin Variant Length = 76

Iteration: 1
 Score =  132 bits (332), Expect = 7e-32,   Method: Compositional matrix adjust.
 Identities = 65/74 (87%), Positives = 70/74 (94%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQ+L+FA KQLEDGRTL+DYN
Sbjct: 3  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQKLLFARKQLEDGRTLSDYN 62
Query: 61 IQKESTLHLVLRLR 74
          I KES L+LVLRLR
Sbjct: 63 IHKESFLYLVLRLR 76

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

Iteration: 1
 Score =  128 bits (321), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 63/67 (94%), Positives = 65/67 (97%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 4  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 61 IQKESTL 67
          IQK STL
Sbjct: 64 IQKWSTL 70

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

Iteration: 1
 Score =  127 bits (320), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 60/77 (77%), Positives = 68/77 (88%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTIT++V+ +DT+  VKAKI DKEGIPPDQQRLIF GKQLED   ++DYN
Sbjct: 6  MQIFVKTLTGKTITIDVDHADTVGAVKAKIYDKEGIPPDQQRLIFGGKQLEDSNAMSDYN 65
Query: 61 IQKESTLHLVLRLRGGA 77
          +QKESTLHLVLRLRGG 
Sbjct: 66 VQKESTLHLVLRLRGGV 82

>pdb|4HK2|A Chain A, U7ub25.2540 Length = 78

Iteration: 1
 Score =  125 bits (315), Expect = 6e-30,   Method: Compositional matrix adjust.
 Identities = 64/76 (84%), Positives = 67/76 (88%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVK  TGKT TLEVE SDTI+NVKAKIQDK GIPPDQQ LIFAGK+LEDGRTL+DYN
Sbjct: 3  MQIFVKFRTGKTYTLEVEPSDTIENVKAKIQDKLGIPPDQQWLIFAGKRLEDGRTLSDYN 62
Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTL  V RLRGG
Sbjct: 63 IQKESTLRGVRRLRGG 78

>pdb|3N3K|B Chain B, The Catalytic Domain Of Usp8 In Complex With A Usp8 Specific Inhibitor Length = 85

Iteration: 1
 Score =  112 bits (281), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 54/65 (83%), Positives = 58/65 (89%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          M+I VKTL G+TI LEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 4  MRIVVKTLMGRTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 61 IQKES 65
          I   S
Sbjct: 64 IHNHS 68

>pdb|1BT0|A Chain A, Structure Of Ubiquitin-Like Protein, Rub1 Length = 76

Iteration: 1
 Score =  100 bits (248), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 48/76 (63%), Positives = 60/76 (78%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          M I VKTLTGK I +++E +DTID +K ++++KEGIPP QQRLI+AGKQL D +T  DYN
Sbjct: 1  MLIKVKTLTGKEIEIDIEPTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLADDKTAKDYN 60
Query: 61 IQKESTLHLVLRLRGG 76
          I+  S LHLVL LRGG
Sbjct: 61 IEGGSVLHLVLALRGG 76

>pdb|1GJZ|A Chain A, Solution Structure Of A Dimeric N-Terminal Fragment Of Human Ubiquitin Length = 53

Iteration: 1
 Score = 99.8 bits (247), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 49/51 (96%), Positives = 50/51 (98%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLE 51
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLE
Sbjct: 3  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLE 53

>pdb|3DBH|I Chain I, Structural Dissection Of A Gating Mechanism Preventing Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1- Uba3arg190ala-Nedd8ala72arg) Length = 88

Iteration: 1
 Score = 96.3 bits (238), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 44/76 (57%), Positives = 59/76 (77%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          M I VKTLTGK I +++E +D ++ +K ++++KEGIPP QQRLI++GKQ+ D +T ADY 
Sbjct: 13 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYK 72
Query: 61 IQKESTLHLVLRLRGG 76
          I   S LHLVLRLRGG
Sbjct: 73 ILGGSVLHLVLRLRGG 88

>pdb|3DBL|I Chain I, Structural Dissection Of A Gating Mechanism Preventing Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1- Uba3arg190wt-Nedd8ala72gln) Length = 88

Iteration: 1
 Score = 94.4 bits (233), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 43/76 (56%), Positives = 59/76 (77%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          M I VKTLTGK I +++E +D ++ +K ++++KEGIPP QQRLI++GKQ+ D +T ADY 
Sbjct: 13 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYK 72
Query: 61 IQKESTLHLVLRLRGG 76
          I   S LHLVL+LRGG
Sbjct: 73 ILGGSVLHLVLQLRGG 88

>pdb|4HCP|B Chain B, Crystal Structure Of Burkholderia Pseudomallei Effector Protein Chbp In Complex With Nedd8 Length = 78

Iteration: 1
 Score = 93.6 bits (231), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 43/76 (56%), Positives = 58/76 (76%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          M I VKTLTGK I +++E +D ++ +K ++++KEGIPP QQRLI++GKQ+ D +T ADY 
Sbjct: 3  MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYK 62
Query: 61 IQKESTLHLVLRLRGG 76
          I   S LHLVL LRGG
Sbjct: 63 ILGGSVLHLVLALRGG 78

>pdb|4F8C|B Chain B, Structure Of The Cif:nedd8 Complex - Yersinia Pseudotuberculosis Cycle Inhibiting Factor In Complex With Human Nedd8 Length = 88

Iteration: 1
 Score = 93.2 bits (230), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 43/77 (55%), Positives = 58/77 (75%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          M I VKTLTGK I +++E +D ++ +K ++++KEGIPP QQRLI++GKQ+ D +T ADY 
Sbjct: 1  MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYK 60
Query: 61 IQKESTLHLVLRLRGGA 77
          I   S LHLVL LRGG 
Sbjct: 61 ILGGSVLHLVLALRGGG 77

>pdb|2NVU|I Chain I, Structure Of Appbp1-Uba3~nedd8-Nedd8-Mgatp-Ubc12(C111a), A Trapped Ubiquitin-Like Protein Activation Complex Length = 81

Iteration: 1
 Score = 93.2 bits (230), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 43/76 (56%), Positives = 58/76 (76%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          M I VKTLTGK I +++E +D ++ +K ++++KEGIPP QQRLI++GKQ+ D +T ADY 
Sbjct: 6  MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYK 65
Query: 61 IQKESTLHLVLRLRGG 76
          I   S LHLVL LRGG
Sbjct: 66 ILGGSVLHLVLALRGG 81

>pdb|2BKR|B Chain B, Nedd8 Nedp1 Complex Length = 77

Iteration: 1
 Score = 93.2 bits (230), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 43/76 (56%), Positives = 58/76 (76%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          M I VKTLTGK I +++E +D ++ +K ++++KEGIPP QQRLI++GKQ+ D +T ADY 
Sbjct: 2  MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYK 61
Query: 61 IQKESTLHLVLRLRGG 76
          I   S LHLVL LRGG
Sbjct: 62 ILGGSVLHLVLALRGG 77

>pdb|1NDD|B Chain B, Structure Of Nedd8 Length = 76

Iteration: 1
 Score = 93.2 bits (230), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 43/76 (56%), Positives = 58/76 (76%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          M I VKTLTGK I +++E +D ++ +K ++++KEGIPP QQRLI++GKQ+ D +T ADY 
Sbjct: 1  MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYK 60
Query: 61 IQKESTLHLVLRLRGG 76
          I   S LHLVL LRGG
Sbjct: 61 ILGGSVLHLVLALRGG 76

>pdb|3GZN|I Chain I, Structure Of Nedd8-Activating Enzyme In Complex With Nedd8 And Mln4924 Length = 82

Iteration: 1
 Score = 93.2 bits (230), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 43/76 (56%), Positives = 58/76 (76%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          M I VKTLTGK I +++E +D ++ +K ++++KEGIPP QQRLI++GKQ+ D +T ADY 
Sbjct: 7  MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYK 66
Query: 61 IQKESTLHLVLRLRGG 76
          I   S LHLVL LRGG
Sbjct: 67 ILGGSVLHLVLALRGG 82

>pdb|3DQV|A Chain A, Structural Insights Into Nedd8 Activation Of Cullin-Ring Ligases: Conformational Control Of Conjugation Length = 81

Iteration: 1
 Score = 90.9 bits (224), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 42/74 (56%), Positives = 56/74 (75%)
Query: 3  IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQ 62
          I VKTLTGK I +++E +D ++ +K ++++KEGIPP QQRLI++GKQ  D +T ADY I 
Sbjct: 8  IKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQXNDEKTAADYKIX 67
Query: 63 KESTLHLVLRLRGG 76
            S LHLVL LRGG
Sbjct: 68 GGSVLHLVLALRGG 81

>pdb|3ZEY|9 Chain 9, High-resolution Cryo-electron Microscopy Structure Of The Trypanosoma Brucei Ribosome Length = 153

Iteration: 1
 Score = 70.5 bits (171), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 48/147 (32%), Positives = 72/147 (48%), Gaps = 10/147 (6%)
Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLADY 59
           MQ+F+++ TG T  +E  ++DT+  ++AK     G         F G  L E+  TLA+ 
Sbjct: 1   MQLFLRSATGATSVVEASAADTVGTLRAKA----GFDDTSSIFFFGGFCLREESATLAEC 56
Query: 60  NIQKESTLHLVLRLRGGAXXXXXXXXXXXXXX-XXXXXXXXLAVLQFYKV----DDSGKV 114
            +Q+ ST+ +++ + GG                        +  L+++KV    D S KV
Sbjct: 57  GLQQGSTVQVMIPVEGGKGKKKKKKVFTKPKKPIHRHKLEKMRALKYFKVTENDDGSFKV 116
Query: 115 QRLRKECPNAECGAGTFMASHFDRHYC 141
           +R R ECPN  CGAG FMA H  R YC
Sbjct: 117 ERTRDECPNPNCGAGVFMAQHKGRKYC 143

>pdb|2DZI|A Chain A, 2dziSOLUTION STRUCTURE OF THE N-Terminal Ubiquitin-Like Domain In Human Ubiquitin-Like Protein 4a (Gdx) Length = 81

Iteration: 1
 Score = 61.6 bits (148), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 29/72 (40%), Positives = 46/72 (63%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQ+ VK L G+  +L+V   + +  +K  + +K  +P  QQRL+F GK L DG+ L+DY+
Sbjct: 8  MQLTVKALQGRECSLQVPEDELVSTLKQLVSEKLNVPVRQQRLLFKGKALADGKRLSDYS 67
Query: 61 IQKESTLHLVLR 72
          I   S L+LV++
Sbjct: 68 IGPNSKLNLVVK 79

>pdb|2XZM|9 Chain 9, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit In Complex With Initiation Factor 1. This File Contains The 40s Subunit And Initiation Factor For Molecule 1 Length = 189

Iteration: 1
 Score = 61.2 bits (147), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 45/141 (31%), Positives = 67/141 (47%), Gaps = 7/141 (4%)
Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQ+ VKTL G+T    +E   ++ ++K++I    G   D   L+  G    +   + D  
Sbjct: 1   MQVQVKTLEGETKIYTLEQGTSVLDLKSQISQDMGFEIDMMTLVNNGFIAPNTELVTD-- 58
Query: 61  IQKESTLHLVLRLRGGAXXXXXXXXXXXXXXXXXXXXXXLAVLQFYKVDDSGKVQRLRKE 120
              + T +L L+L GG                       L  L FYK++++GKV   +K 
Sbjct: 59  ---DVTYYLSLKLLGGKKKKKKKSYTTKKKTKHRHVHTKLGALAFYKLENNGKVSLQQKG 115
Query: 121 CPNAECGAGTFMASHFDRHYC 141
           CP  +CG G FMA H+DRHYC
Sbjct: 116 CP--KCGPGIFMAKHYDRHYC 134

>pdb|2ZEQ|A Chain A, Crystal Structure Of Ubiquitin-Like Domain Of Murine Parkin Length = 78

Iteration: 1
 Score = 53.5 bits (127), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 25/74 (33%), Positives = 48/74 (64%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          M +FV+  +     +EV+S  +I  +K  +  ++G+P DQ R+IFAGK+L +  T+ + +
Sbjct: 3  MIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKRQGVPADQLRVIFAGKELPNHLTVQNCD 62
Query: 61 IQKESTLHLVLRLR 74
          ++++S +H+V R R
Sbjct: 63 LEQQSIVHIVQRPR 76

>pdb|2KNB|A Chain A, Solution Nmr Structure Of The Parkin Ubl Domain In Complex With The Endophilin-A1 Sh3 Domain Length = 81

Iteration: 1
 Score = 53.5 bits (127), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 24/72 (33%), Positives = 48/72 (66%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          M +FV+  +     +EV+S  +I  +K  +  ++G+P DQ R+IFAGK+L++  T+ + +
Sbjct: 6  MIVFVRFNSSYGFPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELQNHLTVQNCD 65
Query: 61 IQKESTLHLVLR 72
          ++++S +H+V R
Sbjct: 66 LEQQSIVHIVQR 77

>pdb|1IYF|A Chain A, Solution Structure Of Ubiquitin-Like Domain Of Human Parkin Length = 81

Iteration: 1
 Score = 52.8 bits (125), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 24/72 (33%), Positives = 46/72 (63%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          M +FV+  +     +EV+S  +I  +K  +  ++G+P DQ R+IFAGK+L +  T+ + +
Sbjct: 6  MIVFVRFNSSHGFPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELRNDWTVQNCD 65
Query: 61 IQKESTLHLVLR 72
          + ++S +H+V R
Sbjct: 66 LDQQSIVHIVQR 77

>pdb|3B1L|X Chain X, Crystal Structure Of Parkin Ubiquitin-Like Domain R33q Mutant Length = 76

Iteration: 1
 Score = 52.8 bits (125), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 25/74 (33%), Positives = 48/74 (64%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          M +FV+  +     +EV+S  +I  +K  +  ++G+P DQ R+IFAGK+L +  T+ + +
Sbjct: 1  MIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKQQGVPADQLRVIFAGKELPNHLTVQNCD 60
Query: 61 IQKESTLHLVLRLR 74
          ++++S +H+V R R
Sbjct: 61 LEQQSIVHIVQRPR 74

>pdb|3SDL|C Chain C, Crystal Structure Of Human Isg15 In Complex With Ns1 N-Terminal Region From Influenza B Virus, Northeast Structural Genomics Consortium Target Ids Hx6481, Hr2873, And Or2 Length = 164

Iteration: 1
 Score = 52.8 bits (125), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 28/76 (36%), Positives = 44/76 (57%)
Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           + I V+   G++ T EV  + T+ ++K ++   EG+  D   L F GK LED   L +Y 
Sbjct: 89  LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYG 148
Query: 61  IQKESTLHLVLRLRGG 76
           ++  ST+ + LRLRGG
Sbjct: 149 LKPLSTVFMNLRLRGG 164

>pdb|3RT3|B Chain B, Complex Of Influenza Virus Protein With Host Anti-Viral Factor Length = 159

Iteration: 1
 Score = 52.8 bits (125), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 28/77 (36%), Positives = 44/77 (57%)
Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           + I V+   G++ T EV  + T+ ++K ++   EG+  D   L F GK LED   L +Y 
Sbjct: 82  LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYG 141
Query: 61  IQKESTLHLVLRLRGGA 77
           ++  ST+ + LRLRGG 
Sbjct: 142 LKPLSTVFMNLRLRGGG 158

>pdb|2HJ8|A Chain A, Solution Nmr Structure Of The C-Terminal Domain Of The Interferon Alpha-Inducible Isg15 Protein From Homo Sapiens. Northeast Structural Genomics Target Hr2873b Length = 88

Iteration: 1
 Score = 52.8 bits (125), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 28/76 (36%), Positives = 44/76 (57%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          + I V+   G++ T EV  + T+ ++K ++   EG+  D   L F GK LED   L +Y 
Sbjct: 5  LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYG 64
Query: 61 IQKESTLHLVLRLRGG 76
          ++  ST+ + LRLRGG
Sbjct: 65 LKPLSTVFMNLRLRGG 80

>pdb|3R66|C Chain C, Crystal Structure Of Human Isg15 In Complex With Ns1 N-Terminal Region From Influenza Virus B, Northeast Structural Genomics Consortium Target Ids Hx6481, Hr2873, And Or2 Length = 164

Iteration: 1
 Score = 52.4 bits (124), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 28/76 (36%), Positives = 44/76 (57%)
Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           + I V+   G++ T EV  + T+ ++K ++   EG+  D   L F GK LED   L +Y 
Sbjct: 89  LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYG 148
Query: 61  IQKESTLHLVLRLRGG 76
           ++  ST+ + LRLRGG
Sbjct: 149 LKPLSTVFMNLRLRGG 164

>pdb|2L7R|A Chain A, Solution Nmr Structure Of N-Terminal Ubiquitin-Like Domain Of Fubi, A Ribosomal Protein S30 Precursor From Homo Sapiens. Northeast Structural Genomics Consortium (Nesg) Target Hr6166 Length = 93

Iteration: 1
 Score = 50.8 bits (120), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 27/76 (35%), Positives = 42/76 (55%), Gaps = 2/76 (2%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQ+FV+    +  T EV   +T+  +KA +   EGI P+ Q ++ AG  LED  TL    
Sbjct: 20 MQLFVRAQ--ELHTFEVTGQETVAQIKAHVASLEGIAPEDQVVLLAGAPLEDEATLGQCG 77
Query: 61 IQKESTLHLVLRLRGG 76
          ++  +TL +  R+ GG
Sbjct: 78 VEALTTLEVAGRMLGG 93

>pdb|3PSE|B Chain B, Structure Of A Viral Otu Domain Protease Bound To Interferon- Stimulated Gene 15 (Isg15) Length = 156

Iteration: 1
 Score = 50.4 bits (119), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 27/75 (36%), Positives = 43/75 (57%)
Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           + I V+   G++ T EV  + T+ ++K ++   EG+  D   L F GK LED   L +Y 
Sbjct: 82  LNILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYG 141
Query: 61  IQKESTLHLVLRLRG 75
           ++  ST+ + LRLRG
Sbjct: 142 LKPLSTVFMNLRLRG 156

>pdb|3PHX|B Chain B, Otu Domain Of Crimean Congo Hemorrhagic Fever Virus In Complex With Isg15 Length = 79

Iteration: 1
 Score = 50.4 bits (119), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 27/75 (36%), Positives = 43/75 (57%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          + I V+   G++ T EV  + T+ ++K ++   EG+  D   L F GK LED   L +Y 
Sbjct: 5  LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYG 64
Query: 61 IQKESTLHLVLRLRG 75
          ++  ST+ + LRLRG
Sbjct: 65 LKPLSTVFMNLRLRG 79

>pdb|2FAZ|A Chain A, Ubiquitin-Like Domain Of Human Nuclear Zinc Finger Protein Np95 Length = 78

Iteration: 1
 Score = 50.4 bits (119), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 29/74 (39%), Positives = 47/74 (63%), Gaps = 2/74 (2%)
Query: 1  MQIFVKTLTGK-TITLEVESSDT-IDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLAD 58
          M I V+T+ G+ T T++  S  T ++ ++ KIQ+   + P  QRL + GKQ+EDG TL D
Sbjct: 3  MWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFD 62
Query: 59 YNIQKESTLHLVLR 72
          Y ++   T+ L++R
Sbjct: 63 YEVRLNDTIQLLVR 76

>pdb|1ZKH|A Chain A, Solution Structure Of A Human Ubiquitin-Like Domain In Sf3a1 Length = 86

Iteration: 1
 Score = 48.5 bits (114), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 21/68 (30%), Positives = 39/68 (57%)
Query: 8  LTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTL 67
          L G+ +   +  +D +  +K KI +  G+P  +Q+L + G  ++D  +LA YN+   + +
Sbjct: 19 LNGQVLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMANGAVI 78
Query: 68 HLVLRLRG 75
          HL L+ RG
Sbjct: 79 HLALKERG 86

>pdb|1WY8|A Chain A, Solution Structure Of The N-Terminal Ubiquitin-Like Domain In Human Np95ICBP90-Like Ring Finger Protein (Nirf) Length = 89

Iteration: 1
 Score = 48.5 bits (114), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 28/74 (37%), Positives = 45/74 (60%), Gaps = 2/74 (2%)
Query: 1  MQIFVKTLTG-KTITLE-VESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLAD 58
          M I V+T+ G KT T+E V    TI+ ++ ++     + P+ QRL + GKQLE+G TL D
Sbjct: 8  MWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFD 67
Query: 59 YNIQKESTLHLVLR 72
          Y++     + L++R
Sbjct: 68 YDVGLNDIIQLLVR 81

>pdb|1Z2M|A Chain A, Crystal Structure Of Isg15, The Interferon-Induced Ubiquitin Cross Reactive Protein Length = 155

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 26/74 (35%), Positives = 42/74 (56%)
Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           + I V+   G++ T EV  + T+ ++K ++   EG+  D   L F GK LED   L +Y 
Sbjct: 82  LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYG 141
Query: 61  IQKESTLHLVLRLR 74
           ++  ST+ + LRLR
Sbjct: 142 LKPLSTVFMNLRLR 155

>pdb|1WH3|A Chain A, Solution Structure Of C-Terminal Ubiquitin Like Domain Of Human 2'-5'-Oligoadenylate Synthetase-Like Protain (P59 Oasl) Length = 87

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          +Q+FVK   G +    +  +  I  +K +I+D++G+P  QQ+L F G+ L+D   L  Y 
Sbjct: 8  IQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIYG 67
Query: 61 IQKESTLHL 69
          IQ   TL L
Sbjct: 68 IQDSDTLIL 76

>pdb|1WE7|A Chain A, Solution Structure Of Ubiquitin-Like Domain In Sf3a120 Length = 115

Iteration: 1
 Score = 46.6 bits (109), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 21/69 (30%), Positives = 39/69 (56%)
Query: 8   LTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTL 67
           L G+ +   +  +D +  +K KI +  G+P  +Q+L + G  ++D  +LA YN+   + +
Sbjct: 43  LNGQGLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMASGAVI 102
Query: 68  HLVLRLRGG 76
           HL L+ R G
Sbjct: 103 HLALKERSG 111

>pdb|1WX9|A Chain A, Solution Structure Of The N-Terminal Ubiquitin-Like Domain In The Human Bat3 Protein Length = 86

Iteration: 1
 Score = 46.6 bits (109), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 26/76 (34%), Positives = 42/76 (55%), Gaps = 1/76 (1%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          +++ VKTL  +T T  V +   +   K  I     IP ++QRLI+ G+ L+D + L +YN
Sbjct: 8  LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYN 67
Query: 61 IQKESTLHLVLRLRGG 76
          +  +  +HLV R   G
Sbjct: 68 VGGK-VIHLVERAPSG 82

>pdb|4DWF|A Chain A, Crystal Structure Of A Hla-B Associated Transcript 3 (Bat3) From Homo Sapiens At 1.80 A Resolution Length = 90

Iteration: 1
 Score = 46.2 bits (108), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 25/72 (34%), Positives = 41/72 (56%), Gaps = 1/72 (1%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          +++ VKTL  +T T  V +   +   K  I     IP ++QRLI+ G+ L+D + L +YN
Sbjct: 6  LEVLVKTLDSQTRTFIVGAQXNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYN 65
Query: 61 IQKESTLHLVLR 72
          +  +  +HLV R
Sbjct: 66 VGGK-VIHLVER 76

>pdb|4EEW|A Chain A, Crystal Structure Of The Ubl Domain Of Bag6 Length = 88

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 25/72 (34%), Positives = 41/72 (56%), Gaps = 1/72 (1%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          +++ VKTL  +T T  V +   +   K  I     IP ++QRLI+ G+ L+D + L +YN
Sbjct: 18 LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYN 77
Query: 61 IQKESTLHLVLR 72
          +  +  +HLV R
Sbjct: 78 VGGK-VIHLVER 88

>pdb|1TTN|A Chain A, Solution Structure Of The Ubiquitin-Like Domain Of Human Dc- Ubp From Dendritic Cells Length = 106

Iteration: 1
 Score = 44.7 bits (104), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 21/70 (30%), Positives = 40/70 (57%)
Query: 2  QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNI 61
          Q+ ++  TGK + L V S+DT+ ++K ++   EG+ P  QR  F+G+ L D     +  I
Sbjct: 25 QLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELKI 84
Query: 62 QKESTLHLVL 71
           K+  + +++
Sbjct: 85 PKDYVVQVIV 94

>pdb|3M63|B Chain B, Crystal Structure Of Ufd2 In Complex With The Ubiquitin-Like (Ubl) Domain Of Dsk2 Length = 101

Iteration: 1
 Score = 43.5 bits (101), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 22/56 (39%), Positives = 32/56 (57%)
Query: 15 LEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV 70
          + V    T+   K  I    GIP   QRLI++GK L+D +T+  Y+IQ   ++HLV
Sbjct: 42 VNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLV 97

>pdb|2BWE|S Chain S, The Crystal Structure Of The Complex Between The Uba And Ubl Domains Of Dsk2 Length = 77

Iteration: 1
 Score = 43.5 bits (101), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 22/56 (39%), Positives = 32/56 (57%)
Query: 15 LEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV 70
          + V    T+   K  I    GIP   QRLI++GK L+D +T+  Y+IQ   ++HLV
Sbjct: 18 VNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLV 73

>pdb|1P1A|A Chain A, Nmr Structure Of Ubiquitin-Like Domain Of Hhr23b Length = 85

Iteration: 1
 Score = 43.1 bits (100), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 23/64 (35%), Positives = 39/64 (60%), Gaps = 3/64 (4%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLA 57
          MQ+ +KTL  +T  ++++  +T+  +K KI+ ++G    P   Q+LI+AGK L D   L 
Sbjct: 4  MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALK 63
Query: 58 DYNI 61
          +Y I
Sbjct: 64 EYKI 67

>pdb|1UEL|A Chain A, Solution Structure Of Ubiquitin-Like Domain Of Hhr23b Complexed With Ubiquitin-Interacting Motif Of Proteasome Subunit S5a Length = 95

Iteration: 1
 Score = 43.1 bits (100), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 23/64 (35%), Positives = 39/64 (60%), Gaps = 3/64 (4%)
Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLA 57
          MQ+ +KTL  +T  ++++  +T+  +K KI+ ++G    P   Q+LI+AGK L D   L 
Sbjct: 1  MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALK 60
Query: 58 DYNI 61
          +Y I
Sbjct: 61 EYKI 64

>pdb|2WYQ|A Chain A, The Crystal Structure Of The Ubiquitin-Like (Ubl) Domain Of Hhr23a (Human Homologue A Of Rad23) Length = 85

Iteration: 1
 Score = 39.7 bits (91), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 26/78 (33%), Positives = 44/78 (56%), Gaps = 4/78 (5%)
Query: 3  IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLADY 59
          I +KTL  +T  + +E  +T+  +K KI+ ++G    P   Q+LI+AGK L D   + DY
Sbjct: 8  ITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDY 67
Query: 60 NI-QKESTLHLVLRLRGG 76
           I +K   + +V + + G
Sbjct: 68 RIDEKNFVVVMVTKTKAG 85

>pdb|1OQY|A Chain A, Structure Of The Dna Repair Protein Hhr23a Length = 368

Iteration: 1
 Score = 39.7 bits (91), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 26/78 (33%), Positives = 44/78 (56%), Gaps = 4/78 (5%)
Query: 3  IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLADY 59
          I +KTL  +T  + +E  +T+  +K KI+ ++G    P   Q+LI+AGK L D   + DY
Sbjct: 10 ITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDY 69
Query: 60 NI-QKESTLHLVLRLRGG 76
           I +K   + +V + + G
Sbjct: 70 RIDEKNFVVVMVTKTKAG 87

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	145
3u5c_F	225	RP14, S2, YS8, 40S ribosomal protein S5; translati	7e-82
2xzm_9	189	RPS31E; ribosome, translation; 3.93A {Tetrahymena	1e-68
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	2e-55
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	3e-54
1yx5_B	98	Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo s	3e-54
3mtn_B	85	UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquit	1e-52
3k9o_B	96	Ubiquitin, UBB+1; E2-25K, complex structure, ATP-b	3e-52
3n3k_B	85	Ubiquitin; hydrolase, protease, thiol protease, DU	3e-52
1sif_A	88	Ubiquitin; hydrophobic mutants, folding, stability	1e-51
3a9j_A	76	Ubiquitin; protein complex, cytoplasm, isopeptide	1e-51
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	2e-51
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	3e-51
2ojr_A	111	Ubiquitin; lanthide-binding TAG, terbium, TB, SAD	4e-51
2kdi_A	114	Ubiquitin, vacuolar protein sorting-associated pro	1e-50
1wh3_A	87	59 kDa 2'-5'-oligoadenylate synthetase like protei	1e-50
3b1l_X	76	E3 ubiquitin-protein ligase parkin; proteasome, AL	7e-50
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	3e-49
2hj8_A	88	Interferon-induced 17 kDa protein; HR2873B, human	6e-49
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	2e-48
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	5e-17
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	2e-48
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	2e-48
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	6e-48
1wy8_A	89	NP95-like ring finger protein, isoform A; ubiquiti	7e-48
3phx_B	79	Ubiquitin-like protein ISG15; OTU domain, DE-ubiqu	2e-47
1we7_A	115	SF3A1 protein; structural genomics, ubiquitin-like	5e-46
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	9e-46
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	2e-45
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	1e-04
2kk8_A	84	Uncharacterized protein AT4G05270; solution arabid	2e-45
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	3e-45
1uel_A	95	HHR23B, UV excision repair protein RAD23 homolog B	1e-44
2faz_A	78	Ubiquitin-like containing PHD and ring finger DOM	6e-44
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	1e-43
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	8e-43
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	1e-42
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	2e-42
1j8c_A	125	Ubiquitin-like protein hplic-2; ubiquitin-like dom	2e-42
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	1e-40
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	9e-36
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	4e-40
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	2e-18
3ai5_A	307	Yeast enhanced green fluorescent protein, ubiquit;	7e-40
3ai5_A	307	Yeast enhanced green fluorescent protein, ubiquit;	5e-07
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	1e-39
3u5e_m	128	60S ribosomal protein L40; translation, ribosome,	5e-39
1we6_A	111	Splicing factor, putative; structural genomics, ub	4e-38
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	2e-37
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	2e-36
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	3e-37
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	7e-37
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	4e-37
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	7e-36
2kd0_A	85	LRR repeats and ubiquitin-like domain-containing p	7e-31
1v5o_A	102	1700011N24RIK protein; hypothetical protein, ubiqu	2e-27
2dzm_A	100	FAS-associated factor 1; ubiquitin-like domain, HF	1e-23
4dbg_A	105	Ranbp-type and C3HC4-type zinc finger-containing;	1e-19
2fnj_B	118	Transcription elongation factor B polypeptide 2; b	5e-18
1wgd_A	93	Homocysteine-responsive endoplasmic reticulum- res	1e-15
2k4x_A	55	30S ribosomal protein S27AE; metal-binding, ribonu	2e-15
1v86_A	95	DNA segment, CHR 7, wayne state university 128, ex	3e-15
2gow_A	125	HCG-1 protein, ubiquitin-like protein 3; BC059385,	3e-15
1wgg_A	96	Ubiquitin carboxyl-terminal hydrolase 14; ubiquiti	2e-14
1wgh_A	116	Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fo	3e-14
3plu_A	93	Ubiquitin-like modifier HUB1; ubiquitin-like, HUB-	2e-13
1t0y_A	122	Tubulin folding cofactor B; ubiquitin-like, cytosk	3e-13
1x1m_A	107	Ubiquitin-like protein SB132; structural genomics,	5e-13
1wia_A	95	Hypothetical ubiquitin-like protein (riken cDNA 20	2e-12
2kdb_A	99	Homocysteine-responsive endoplasmic reticulum- res	2e-12
1uh6_A	100	Ubiquitin-like 5; beta-grAsp fold, structural geno	2e-12
1v5t_A	90	8430435I17RIK protein; hypothetical protein, ubiqu	9e-09
2kzr_A	86	Ubiquitin thioesterase OTU1; structural genomics,	6e-08
2kj6_A	97	Tubulin folding cofactor B; methods development, N	3e-07
2k8h_A	110	Small ubiquitin protein; SUMO, post-translational	6e-07
1v2y_A	105	3300001G02RIK protein; hypothetical protein, ubiqu	7e-07
3shq_A	320	UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila	2e-06
1se9_A	126	Ubiquitin family; ubiquitin-like, cell-free, wheat	2e-06
2io0_B	91	Small ubiquitin-related modifier 2 precursor; SUMO	1e-05
1wxv_A	92	BAG-family molecular chaperone regulator-1; struct	1e-05
1v6e_A	95	Cytoskeleton-associated protein 1; tubulin-specifi	1e-05
1wyw_B	97	Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Ho	3e-05
1wz0_A	104	Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-li	7e-05
2io1_B	94	Small ubiquitin-related modifier 3 precursor; SUMO	7e-05
2kjr_A	95	CG11242; UBL, ubiquitin, ubiquitin-like, structura	2e-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 =  236 bits (604), Expect = 7e-82
 Identities = 7/141 (4%), Positives = 31/141 (21%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           M      +  +     VE    +       ++ +    + +       +  + +  +  +
Sbjct: 1   MSDTEAPVEVQEDFEVVEEFTPVVLATPIPEEVQQAQTEIKLFNKWSFEEVEVKDASLVD 60

Query: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE 120
             +      V    G    ++ +    P   +     +        K+     ++     
Sbjct: 61  YVQVRQPIFVAHTAGRYANKRFRKAQCPIIERLTNSLMMNGRNNGKKLKAVRIIKHTLDI 120

Query: 121 CPNAECGAGTFMASHFDRHYC 141
                      +      +  
Sbjct: 121 INVLTDQNPIQVVVDAITNTG 141

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

 Score =  204 bits (520), Expect = 1e-68
 Identities = 57/141 (40%), Positives = 81/141 (57%), Gaps = 7/141 (4%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQ+ VKTL G+T    +E   ++ ++K++I    G   D   L+  G    +   + D  
Sbjct: 1   MQVQVKTLEGETKIYTLEQGTSVLDLKSQISQDMGFEIDMMTLVNNGFIAPNTELVTDD- 59

Query: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKE 120
                T +L L+L GG KK+KKK+YT  KK KH+    KL  L FYK++++GKV   +K 
Sbjct: 60  ----VTYYLSLKLLGGKKKKKKKSYTTKKKTKHRHVHTKLGALAFYKLENNGKVSLQQKG 115

Query: 121 CPNAECGAGTFMASHFDRHYC 141
           CP  +CG G FMA H+DRHYC
Sbjct: 116 CP--KCGPGIFMAKHYDRHYC 134

>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 =  167 bits (426), Expect = 2e-55
 Identities = 45/85 (52%), Positives = 62/85 (72%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          M I VKTLTGK I +++E +D ++ +K ++++KEGIPP QQRLI++GKQ+ D +T ADY 
Sbjct: 1  MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYK 60

Query: 61 IQKESTLHLVLRLRGGAKKRKKKTY 85
          I   S LHLVL LRGG   R+K  +
Sbjct: 61 ILGGSVLHLVLALRGGGGLRQKHHH 85

>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 =  164 bits (417), Expect = 3e-54
 Identities = 43/76 (56%), Positives = 58/76 (76%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          M I VKTLTGK I +++E +D ++ +K ++++KEGIPP QQRLI++GKQ+ D +T ADY 
Sbjct: 1  MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYK 60

Query: 61 IQKESTLHLVLRLRGG 76
          I   S LHLVL LRGG
Sbjct: 61 ILGGSVLHLVLALRGG 76

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

 Score =  164 bits (418), Expect = 3e-54
 Identities = 74/97 (76%), Positives = 78/97 (80%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query: 61 IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKK 97
          IQKESTLHLVLRLRGG              ++H    
Sbjct: 61 IQKESTLHLVLRLRGGRDPNSSSVDKLAAALEHHHHH 97

>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 =  160 bits (407), Expect = 1e-52
 Identities = 70/77 (90%), Positives = 73/77 (94%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 4  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63

Query: 61 IQKESTLHLVLRLRGGA 77
          IQK STL L+LRLRGG 
Sbjct: 64 IQKWSTLFLLLRLRGGG 80

>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 =  159 bits (405), Expect = 3e-52
 Identities = 74/88 (84%), Positives = 77/88 (87%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 2  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 61

Query: 61 IQKESTLHLVLRLRGGAKKRKKKTYTKP 88
          IQKESTLHLVLRLRG A  R+       
Sbjct: 62 IQKESTLHLVLRLRGYADLREDPDRQDH 89

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

 Score =  159 bits (404), Expect = 3e-52
 Identities = 61/77 (79%), Positives = 68/77 (88%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          M+I VKTL G+TI LEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 4  MRIVVKTLMGRTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63

Query: 61 IQKESTLHLVLRLRGGA 77
          I   S L+L+L+LRGG 
Sbjct: 64 IHNHSALYLLLKLRGGG 80

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

 Score =  158 bits (401), Expect = 1e-51
 Identities = 66/77 (85%), Positives = 74/77 (96%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          +Q+F+KTLTGKT T+E+E SDTI+N+KAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 10 LQLFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 69

Query: 61 IQKESTLHLVLRLRGGA 77
          IQKESTLHLVLRLRGG 
Sbjct: 70 IQKESTLHLVLRLRGGG 86

>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 =  157 bits (399), Expect = 1e-51
 Identities = 72/76 (94%), Positives = 75/76 (98%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query: 61 IQKESTLHLVLRLRGG 76
          IQ+ESTLHLVLRLRGG
Sbjct: 61 IQRESTLHLVLRLRGG 76

>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 =  157 bits (399), Expect = 2e-51
 Identities = 44/76 (57%), Positives = 59/76 (77%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          M I VKTLTGK I +++E +D ++ +K ++++KEGIPP QQRLI++GKQ+ D +T ADY 
Sbjct: 13 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYK 72

Query: 61 IQKESTLHLVLRLRGG 76
          I   S LHLVLRLRGG
Sbjct: 73 ILGGSVLHLVLRLRGG 88

>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 =  157 bits (399), Expect = 3e-51
 Identities = 21/77 (27%), Positives = 40/77 (51%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
            Q+ ++  TGK + L V S+DT+ ++K ++   EG+ P  QR  F+G+ L D     +  
Sbjct: 24  CQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELK 83

Query: 61  IQKESTLHLVLRLRGGA 77
           I K+  + +++      
Sbjct: 84  IPKDYVVQVIVSQPVQN 100

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

 Score =  157 bits (399), Expect = 4e-51
 Identities = 73/76 (96%), Positives = 75/76 (98%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 36  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 95

Query: 61  IQKESTLHLVLRLRGG 76
           IQKESTLHLVLRLRGG
Sbjct: 96  IQKESTLHLVLRLRGG 111

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

 Score =  156 bits (396), Expect = 1e-50
 Identities = 71/91 (78%), Positives = 77/91 (84%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
            QIF KTLTGKTITLEVESSDTIDNVK+KIQDKEGIPPDQQRLI+AGKQLEDGRTL+DYN
Sbjct: 10  FQIFAKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSDYN 69

Query: 61  IQKESTLHLVLRLRGGAKKRKKKTYTKPKKI 91
           IQ+ESTLHLVLRLRGG+           +K 
Sbjct: 70  IQRESTLHLVLRLRGGSMGGAADEEELIRKA 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 =  155 bits (393), Expect = 1e-50
 Identities = 26/77 (33%), Positives = 41/77 (53%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          +Q+FVK   G +    +  +  I  +K +I+D++G+P  QQ+L F G+ L+D   L  Y 
Sbjct: 8  IQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIYG 67

Query: 61 IQKESTLHLVLRLRGGA 77
          IQ   TL L  +   G 
Sbjct: 68 IQDSDTLILSKKKGSGP 84

>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 =  153 bits (388), Expect = 7e-50
 Identities = 25/75 (33%), Positives = 48/75 (64%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          M +FV+  +     +EV+S  +I  +K  +  ++G+P DQ R+IFAGK+L +  T+ + +
Sbjct: 1  MIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKQQGVPADQLRVIFAGKELPNHLTVQNCD 60

Query: 61 IQKESTLHLVLRLRG 75
          ++++S +H+V R R 
Sbjct: 61 LEQQSIVHIVQRPRR 75

>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 =  152 bits (385), Expect = 3e-49
 Identities = 25/77 (32%), Positives = 41/77 (53%), Gaps = 1/77 (1%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          +++ VKTL  +T T  V +   +   K  I     IP ++QRLI+ G+ L+D + L +YN
Sbjct: 6  LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYN 65

Query: 61 IQKESTLHLVLRLRGGA 77
          +  +  +HLV R     
Sbjct: 66 VGGK-VIHLVERAPPQT 81

>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 =  151 bits (383), Expect = 6e-49
 Identities = 28/76 (36%), Positives = 44/76 (57%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          + I V+   G++ T EV  + T+ ++K ++   EG+  D   L F GK LED   L +Y 
Sbjct: 5  LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYG 64

Query: 61 IQKESTLHLVLRLRGG 76
          ++  ST+ + LRLRGG
Sbjct: 65 LKPLSTVFMNLRLRGG 80

>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 =  152 bits (386), Expect = 2e-48
 Identities = 75/93 (80%), Positives = 78/93 (83%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVESSDTIDNVK+KIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query: 61 IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKH 93
          IQKESTLHLVLRLRGG  +  K           
Sbjct: 61 IQKESTLHLVLRLRGGGGETIKFVADGDIGSGS 93

>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 = 72.3 bits (177), Expect = 5e-17
 Identities = 16/82 (19%), Positives = 32/82 (39%), Gaps = 9/82 (10%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLED---GRTLA 57
              FV      + ++ ++    +++ +  I+ +   P D   L F  K L D   G +L+
Sbjct: 80  TIKFVADGDIGSGSVIIKPFVDMEHPETSIKLEMDQPVD---LTFGAKYLLDIIKGSSLS 136

Query: 58  D---YNIQKESTLHLVLRLRGG 76
           D     +  E+       L+ G
Sbjct: 137 DRVGIRLSSEAPALFQFDLKSG 158

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

 Score =  149 bits (379), Expect = 2e-48
 Identities = 25/72 (34%), Positives = 41/72 (56%), Gaps = 1/72 (1%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          +++ VKTL  +T T  V +   +   K  I     IP ++QRLI+ G+ L+D + L +YN
Sbjct: 18 LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYN 77

Query: 61 IQKESTLHLVLR 72
          +  +  +HLV R
Sbjct: 78 VGGK-VIHLVER 88

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

 Score =  149 bits (378), Expect = 2e-48
 Identities = 29/73 (39%), Positives = 46/73 (63%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQ+ VK L G+  +L+V   + +  +K  + +K  +P  QQRL+F GK L DG+ L+DY+
Sbjct: 8  MQLTVKALQGRECSLQVPEDELVSTLKQLVSEKLNVPVRQQRLLFKGKALADGKRLSDYS 67

Query: 61 IQKESTLHLVLRL 73
          I   S L+LV++ 
Sbjct: 68 IGPNSKLNLVVKP 80

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

 Score =  148 bits (376), Expect = 6e-48
 Identities = 27/76 (35%), Positives = 42/76 (55%), Gaps = 2/76 (2%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQ+FV+    +  T EV   +T+  +KA +   EGI P+ Q ++ AG  LED  TL    
Sbjct: 20 MQLFVRA--QELHTFEVTGQETVAQIKAHVASLEGIAPEDQVVLLAGAPLEDEATLGQCG 77

Query: 61 IQKESTLHLVLRLRGG 76
          ++  +TL +  R+ GG
Sbjct: 78 VEALTTLEVAGRMLGG 93

>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 =  148 bits (375), Expect = 7e-48
 Identities = 29/79 (36%), Positives = 46/79 (58%), Gaps = 2/79 (2%)

Query: 1  MQIFVKTLTG-KTITLE-VESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLAD 58
          M I V+T+ G KT T+E V    TI+ ++ ++     + P+ QRL + GKQLE+G TL D
Sbjct: 8  MWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFD 67

Query: 59 YNIQKESTLHLVLRLRGGA 77
          Y++     + L++R   G 
Sbjct: 68 YDVGLNDIIQLLVRPDSGP 86

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

 Score =  146 bits (371), Expect = 2e-47
 Identities = 27/75 (36%), Positives = 43/75 (57%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          + I V+   G++ T EV  + T+ ++K ++   EG+  D   L F GK LED   L +Y 
Sbjct: 5  LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYG 64

Query: 61 IQKESTLHLVLRLRG 75
          ++  ST+ + LRLRG
Sbjct: 65 LKPLSTVFMNLRLRG 79

>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 =  144 bits (366), Expect = 5e-46
 Identities = 21/77 (27%), Positives = 39/77 (50%)

Query: 2   QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNI 61
                 L G+ +   +  +D +  +K KI +  G+P  +Q+L + G  ++D  +LA YN+
Sbjct: 37  DKTEWKLNGQGLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNM 96

Query: 62  QKESTLHLVLRLRGGAK 78
              + +HL L+ R G  
Sbjct: 97  ASGAVIHLALKERSGPS 113

>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 =  142 bits (361), Expect = 9e-46
 Identities = 24/73 (32%), Positives = 38/73 (52%), Gaps = 1/73 (1%)

Query: 1  MQIFVKTLTGK-TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADY 59
          M + +   +G+    + V    T+   K  I    GIP   QRLI++GK L+D +T+  Y
Sbjct: 3  MSLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESY 62

Query: 60 NIQKESTLHLVLR 72
          +IQ   ++HLV  
Sbjct: 63 HIQDGHSVHLVKS 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 =  142 bits (360), Expect = 2e-45
 Identities = 24/73 (32%), Positives = 38/73 (52%), Gaps = 1/73 (1%)

Query: 1  MQIFVKTLTGK-TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADY 59
          M + +   +G+    + V    T+   K  I    GIP   QRLI++GK L+D +T+  Y
Sbjct: 27 MSLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESY 86

Query: 60 NIQKESTLHLVLR 72
          +IQ   ++HLV  
Sbjct: 87 HIQDGHSVHLVKS 99

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

 Score = 38.1 bits (89), Expect = 1e-04
 Identities = 5/22 (22%), Positives = 9/22 (40%)

Query: 48 KQLEDGRTLADYNIQKESTLHL 69
          K       ++DY+I     L+ 
Sbjct: 2  KHHHHHHPMSDYDIPTTENLYF 23

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

 Score =  141 bits (359), Expect = 2e-45
 Identities = 24/72 (33%), Positives = 36/72 (50%), Gaps = 1/72 (1%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQ-LEDGRTLADY 59
          M+  V+ L G +  LEV+  DT+  VK KI+  + IP  +Q LI  G   L +  T+   
Sbjct: 11 MKFLVENLNGSSFELEVDYRDTLLVVKQKIERSQHIPVSKQTLIVDGIVILREDLTVEQC 70

Query: 60 NIQKESTLHLVL 71
           I   S + L +
Sbjct: 71 QIVPTSDIQLEV 82

>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 =  142 bits (360), Expect = 3e-45
 Identities = 27/78 (34%), Positives = 42/78 (53%), Gaps = 1/78 (1%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          +++ VKT   K     V  + TI  +K +I  +    PDQ  LIFAGK L+D  +LA   
Sbjct: 18 IKVTVKTPKDKE-DFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCG 76

Query: 61 IQKESTLHLVLRLRGGAK 78
          ++   T+HLV++ +  A 
Sbjct: 77 VRDGLTVHLVIKRQHRAM 94

>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 =  140 bits (355), Expect = 1e-44
 Identities = 23/81 (28%), Positives = 46/81 (56%), Gaps = 3/81 (3%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLA 57
          MQ+ +KTL  +T  ++++  +T+  +K KI+ ++G    P   Q+LI+AGK L D   L 
Sbjct: 1  MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALK 60

Query: 58 DYNIQKESTLHLVLRLRGGAK 78
          +Y I +++ + +++       
Sbjct: 61 EYKIDEKNFVVVMVTKPKAVS 81

>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 =  138 bits (349), Expect = 6e-44
 Identities = 25/75 (33%), Positives = 42/75 (56%), Gaps = 2/75 (2%)

Query: 1  MQIFVKTLTGKTIT--LEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLAD 58
          M I V+T+ G+       +     ++ ++ KIQ+   + P  QRL + GKQ+EDG TL D
Sbjct: 3  MWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFD 62

Query: 59 YNIQKESTLHLVLRL 73
          Y ++   T+ L++R 
Sbjct: 63 YEVRLNDTIQLLVRQ 77

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

 Score =  138 bits (349), Expect = 1e-43
 Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 1/72 (1%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          M++ VKT   K     V  + ++   K +I  +     DQ  LIFAGK L+D  TL+ + 
Sbjct: 26 MKVTVKTPKEK-EEFAVPENSSVQQFKEEISKRFKSHTDQLVLIFAGKILKDQDTLSQHG 84

Query: 61 IQKESTLHLVLR 72
          I    T+HLV++
Sbjct: 85 IHDGLTVHLVIK 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 =  135 bits (343), Expect = 8e-43
 Identities = 27/77 (35%), Positives = 42/77 (54%), Gaps = 1/77 (1%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          +++ VKT   K     V  + TI  +K +I  +    PDQ  LIFAGK L+D  +LA   
Sbjct: 23 IKVTVKTPKDK-EDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCG 81

Query: 61 IQKESTLHLVLRLRGGA 77
          ++   T+HLV++ +  A
Sbjct: 82 VRDGLTVHLVIKRQHRA 98

>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 =  135 bits (341), Expect = 1e-42
 Identities = 24/80 (30%), Positives = 47/80 (58%), Gaps = 4/80 (5%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLA 57
          + I +KTL  +T  + +E  +T+  +K KI+ ++G    P   Q+LI+AGK L D   + 
Sbjct: 6  VTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIR 65

Query: 58 DYNIQKESTLHLVL-RLRGG 76
          DY I +++ + +++ + + G
Sbjct: 66 DYRIDEKNFVVVMVTKTKAG 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 =  135 bits (341), Expect = 2e-42
 Identities = 21/77 (27%), Positives = 33/77 (42%), Gaps = 1/77 (1%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          +++ VKT         +  +  +   K +I        D+  LIF GK L D   L+   
Sbjct: 18 IRVSVKTPQDCH-EFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDILSQRG 76

Query: 61 IQKESTLHLVLRLRGGA 77
          I   ST+H+V+R   G 
Sbjct: 77 ILDGSTVHVVVRSHSGP 93

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

 Score =  135 bits (342), Expect = 2e-42
 Identities = 24/78 (30%), Positives = 37/78 (47%), Gaps = 1/78 (1%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           +++ VKT   K     V  + ++   K  I  +     DQ  LIFAGK L+D  TL  + 
Sbjct: 33  IKVTVKTPKEK-EEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQHG 91

Query: 61  IQKESTLHLVLRLRGGAK 78
           I    T+HLV++    + 
Sbjct: 92  IHDGLTVHLVIKRDPNSS 109

>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 =  132 bits (333), Expect = 1e-40
 Identities = 28/78 (35%), Positives = 45/78 (57%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           + I V+   G++ T EV  + T+ ++K ++   EG+  D   L F GK LED   L +Y 
Sbjct: 82  LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYG 141

Query: 61  IQKESTLHLVLRLRGGAK 78
           ++  ST+ + LRLRGG +
Sbjct: 142 LKPLSTVFMNLRLRGGGR 159

>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 =  120 bits (301), Expect = 9e-36
 Identities = 24/72 (33%), Positives = 36/72 (50%), Gaps = 2/72 (2%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF--AGKQLEDGRTLAD 58
            + VK L G    + + SS ++  +KA+I  K G+   QQRL    +G  L+D   LA 
Sbjct: 3  WDLTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLAS 62

Query: 59 YNIQKESTLHLV 70
            +   ST+ LV
Sbjct: 63 QGLGPGSTVLLV 74

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

 Score =  132 bits (333), Expect = 4e-40
 Identities = 73/82 (89%), Positives = 76/82 (92%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
            QIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 106 GQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 165

Query: 61  IQKESTLHLVLRLRGGAKKRKK 82
           IQKESTLHLVLRLRGG +   K
Sbjct: 166 IQKESTLHLVLRLRGGGQTFTK 187

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

 Score = 76.2 bits (187), Expect = 2e-18
 Identities = 13/70 (18%), Positives = 22/70 (31%), Gaps = 7/70 (10%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLA--D 58
                    GK+I       D   N + K+  K G    +  + +        R L   D
Sbjct: 40  KGNLADVAPGKSIG-----GDIFSNREGKLPGKSGRTWREADINYTSGFRNSDRILYSSD 94

Query: 59  YNIQKESTLH 68
           + I K +  +
Sbjct: 95  WLIYKTTDHY 104

>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 =  134 bits (339), Expect = 7e-40
 Identities = 71/74 (95%), Positives = 73/74 (98%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 234 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 293

Query: 61  IQKESTLHLVLRLR 74
           IQKESTLHLVLRLR
Sbjct: 294 IQKESTLHLVLRLR 307

>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 = 46.7 bits (110), Expect = 5e-07
 Identities = 9/63 (14%), Positives = 19/63 (30%), Gaps = 3/63 (4%)

Query: 30  IQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAKKRKKKTYTKPK 89
               +G    +  + F G  L +   L   + +++     +L  +          Y    
Sbjct: 100 FFKDDGNYKTRAEVKFEGDTLVNRIELKGIDFKEDGN---ILGHKLEYNYNSHNVYIMAD 156

Query: 90  KIK 92
           K K
Sbjct: 157 KQK 159

>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 =  128 bits (323), Expect = 1e-39
 Identities = 17/88 (19%), Positives = 41/88 (46%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          + +  K    + + L++E S+TI   K K+         Q +LI++GK L+D +T+++  
Sbjct: 2  VSLTFKNFKKEKVPLDLEPSNTILETKTKLAQSISCEESQIKLIYSGKVLQDSKTVSECG 61

Query: 61 IQKESTLHLVLRLRGGAKKRKKKTYTKP 88
          ++    +  ++  +   K +  +     
Sbjct: 62 LKDGDQVVFMVSQKKSTKTKVTERDPNS 89

>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 =  127 bits (320), Expect = 5e-39
 Identities = 75/94 (79%), Positives = 78/94 (82%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVESSDTIDNVK+KIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query: 61 IQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHK 94
          IQKESTLHLVLRLRGG  +   K           
Sbjct: 61 IQKESTLHLVLRLRGGIIEPSLKALASKYNCDKS 94

>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 =  124 bits (313), Expect = 4e-38
 Identities = 23/78 (29%), Positives = 41/78 (52%), Gaps = 2/78 (2%)

Query: 1   MQIFVKT-LTGKTITLEVES-SDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLAD 58
           +++       G+ + + V+S S+ + ++K KI  +  IP ++Q+L      L+D  +LA 
Sbjct: 30  IRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMSLAH 89

Query: 59  YNIQKESTLHLVLRLRGG 76
           YN+     L L LR R G
Sbjct: 90  YNVGAGEILTLSLRERSG 107

>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 =  123 bits (311), Expect = 2e-37
 Identities = 73/76 (96%), Positives = 75/76 (98%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76

>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 =  121 bits (305), Expect = 2e-36
 Identities = 73/76 (96%), Positives = 75/76 (98%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 77  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 136

Query: 61  IQKESTLHLVLRLRGG 76
           IQKESTLHLVLRLRGG
Sbjct: 137 IQKESTLHLVLRLRGG 152

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

 Score =  124 bits (312), Expect = 3e-37
 Identities = 73/76 (96%), Positives = 75/76 (98%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 97  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 156

Query: 61  IQKESTLHLVLRLRGG 76
           IQKESTLHLVLRLRGG
Sbjct: 157 IQKESTLHLVLRLRGG 172

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

 Score =  123 bits (309), Expect = 7e-37
 Identities = 73/76 (96%), Positives = 75/76 (98%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 21 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 80

Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 81 IQKESTLHLVLRLRGG 96

>2kan_A Uncharacterized protein AR3433A; ubiquitin fold, alpha+beta, structural genomics, protein structure initiative; NMR {Arabidopsis thaliana} Length = 94

 Score =  121 bits (306), Expect = 4e-37
 Identities = 24/79 (30%), Positives = 44/79 (55%), Gaps = 2/79 (2%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLADY 59
          + + VK    K  T+EV+ ++T+ ++K KI   E  P  + +L ++G +L +D R L +Y
Sbjct: 16 IHVTVKFP-SKQFTVEVDRTETVSSLKDKIHIVENTPIKRMQLYYSGIELADDYRNLNEY 74

Query: 60 NIQKESTLHLVLRLRGGAK 78
           I + S + + L+    AK
Sbjct: 75 GITEFSEIVVFLKSINRAK 93

>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 =  125 bits (315), Expect = 7e-36
 Identities = 24/93 (25%), Positives = 46/93 (49%), Gaps = 3/93 (3%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLA 57
           + I +KTL  +T  + +E  +T+  +K KI+ ++G    P   Q+LI+AGK L D   + 
Sbjct: 8   VTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIR 67

Query: 58  DYNIQKESTLHLVLRLRGGAKKRKKKTYTKPKK 90
           DY I +++ + +++      +         P  
Sbjct: 68  DYRIDEKNFVVVMVTKTKAGQGTSAPPEASPTA 100

>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 =  105 bits (264), Expect = 7e-31
 Identities = 22/70 (31%), Positives = 39/70 (55%), Gaps = 1/70 (1%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          +++ VK   GK+I L V    T+ ++K+++Q    + P  Q+LIF GK L +  TL   +
Sbjct: 13 IKLTVK-FGGKSIPLSVSPDCTVKDLKSQLQPITNVLPRGQKLIFKGKVLVETSTLKQSD 71

Query: 61 IQKESTLHLV 70
          +   + L L+
Sbjct: 72 VGSGAKLMLM 81

>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 Length = 102

 Score = 97.4 bits (242), Expect = 2e-27
 Identities = 17/83 (20%), Positives = 39/83 (46%), Gaps = 5/83 (6%)

Query: 1  MQIFVKT----LTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRT 55
          M I V      LT  T +L+V     + N +   + + G+P ++ ++++  + L +D  +
Sbjct: 8  MLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCS 67

Query: 56 LADYNIQKESTLHLVLRLRGGAK 78
          L  Y ++    + L+ +   G +
Sbjct: 68 LGSYGLKDGDMVVLLQKDNVGLR 90

>2dzm_A FAS-associated factor 1; ubiquitin-like domain, HFAF1, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 100

 Score = 87.5 bits (216), Expect = 1e-23
 Identities = 13/83 (15%), Positives = 34/83 (40%), Gaps = 1/83 (1%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI-FAGKQLEDGRTLADY 59
          M  F      + + + +E + T+  +K  ++++  IP  +  L  +    +ED   L   
Sbjct: 9  MLDFRVEYRDRNVDVVLEDTCTVGEIKQILENELQIPVSKMLLKGWKTGDVEDSTVLKSL 68

Query: 60 NIQKESTLHLVLRLRGGAKKRKK 82
          ++ K ++L+++            
Sbjct: 69 HLPKNNSLYVLTPDLPPPSSSSH 91

>4dbg_A Ranbp-type and C3HC4-type zinc finger-containing; ubiquitin fold, ubiquitination, ligase; 2.71A {Homo sapiens} PDB: 2lgy_A Length = 105

 Score = 77.4 bits (190), Expect = 1e-19
 Identities = 15/72 (20%), Positives = 31/72 (43%), Gaps = 1/72 (1%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          + +    +   TI L V    T+ ++K  +    G PP  Q+ +   +   D  TL  + 
Sbjct: 27 VSVEDAQMHTVTIWLTVRPDMTVASLKDMVFLDYGFPPVLQQWVIGQRLARDQETLHSHG 86

Query: 61 IQKE-STLHLVL 71
          +++   + +L L
Sbjct: 87 VRQNGDSAYLYL 98

>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 Length = 118

 Score = 73.5 bits (180), Expect = 5e-18
 Identities = 24/104 (23%), Positives = 47/104 (45%), Gaps = 8/104 (7%)

Query: 1   MQIFVKTLTGK-TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADY 59
           M +F+     K TI  + + S T+  +K  ++     PP++QRL    + L+DG+TL + 
Sbjct: 1   MDVFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPEEQRLYKDDQLLDDGKTLGEC 60

Query: 60  NI-------QKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKK 96
                    Q  +T+ L  R     +  + + ++ P ++    K
Sbjct: 61  GFTSQTARPQAPATVGLAFRADDTFEALRIEPFSSPPELPDVMK 104

>1wgd_A Homocysteine-responsive endoplasmic reticulum- resident ubiquitin-like domain member...; ENDPLASMIC reticulum stress, UBL domain; NMR {Homo sapiens} SCOP: d.15.1.1 Length = 93

 Score = 66.5 bits (162), Expect = 1e-15
 Identities = 23/84 (27%), Positives = 42/84 (50%), Gaps = 6/84 (7%)

Query: 1  MQIFVKT--LTGKTITLEVESSDTIDNVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTL 56
          + + VK+     + + L  +   ++ ++KA +     E   P+ QRLI++GK L D + L
Sbjct: 8  VTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCL 67

Query: 57 ADYNIQKES--TLHLVLRLRGGAK 78
           D   ++E    LHLV  ++ G  
Sbjct: 68 RDLLPKQEKRHVLHLVCNVKSGPS 91

>2k4x_A 30S ribosomal protein S27AE; metal-binding, ribonucleoprotein, zinc, zinc-finger, structural genomics, PSI-2; NMR {Thermoplasma acidophilum} SCOP: g.41.8.8 Length = 55

 Score = 64.8 bits (158), Expect = 2e-15
 Identities = 16/42 (38%), Positives = 24/42 (57%), Gaps = 3/42 (7%)

Query: 100 LAVLQFYKVDDSGKVQRLRKECPNAECGAGTFMASHFDRHYC 141
           +   + Y++ D GK+ R  + CP   CG G F+A H DR+ C
Sbjct: 1   MQKRELYEIAD-GKLVRKHRFCPR--CGPGVFLAEHADRYSC 39

>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 Length = 95

 Score = 66.0 bits (161), Expect = 3e-15
 Identities = 13/70 (18%), Positives = 32/70 (45%), Gaps = 2/70 (2%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          + + +         ++V    T   +K KI    G+PP  Q++++ G  + + +TL +  
Sbjct: 18 VDLKIIW-NKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGL-VPEDKTLREIK 75

Query: 61 IQKESTLHLV 70
          +   + + +V
Sbjct: 76 VTSGAKIMVV 85

>2gow_A HCG-1 protein, ubiquitin-like protein 3; BC059385, structural genomics, protein structure initiative, PSI; NMR {Homo sapiens} Length = 125

 Score = 66.6 bits (162), Expect = 3e-15
 Identities = 17/100 (17%), Positives = 39/100 (39%), Gaps = 10/100 (10%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKI--------QDKEGIPPDQQRLIFAGKQLED 52
           + + +  ++GKT       +D+  ++   +        ++++   P+  RLI+ G+ L  
Sbjct: 18  INLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHG 77

Query: 53  GRTLADYNIQKEST--LHLVLRLRGGAKKRKKKTYTKPKK 90
             TL    +    T  +HLV R        + +   +   
Sbjct: 78  NVTLGALKLPFGKTTVMHLVARETLPEPNSQGQRNREKTG 117

>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 Length = 96

 Score = 63.3 bits (154), Expect = 2e-14
 Identities = 15/84 (17%), Positives = 36/84 (42%), Gaps = 1/84 (1%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
            + VK    K   +E+ + +     KA++    G+ P +Q+++  G  L+D     +  
Sbjct: 8  YSVTVKWGKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDD-DWGNIK 66

Query: 61 IQKESTLHLVLRLRGGAKKRKKKT 84
          ++   T+ ++       ++   KT
Sbjct: 67 MKNGMTVLMMGSADALPEEPSAKT 90

>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 Length = 116

 Score = 63.5 bits (154), Expect = 3e-14
 Identities = 19/93 (20%), Positives = 39/93 (41%), Gaps = 10/93 (10%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQD-------KEGIP-PDQQRLIFAGKQLED 52
           + + +  ++GKT       +D+  ++   + D       +E +  P+  RLI+ G+ L  
Sbjct: 17  INLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHG 76

Query: 53  GRTLADYNIQ--KESTLHLVLRLRGGAKKRKKK 83
             TL    +   K + +HLV R        + +
Sbjct: 77  NVTLGALKLPFGKTTVMHLVARETLPEPNSQGQ 109

>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 Length = 93

 Score = 61.1 bits (148), Expect = 2e-13
 Identities = 16/69 (23%), Positives = 34/69 (49%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          +++ V    GK + ++    D++ + K  +  + G  P++  L   G  L+D  +L DY 
Sbjct: 22 IEVVVNDRLGKKVRVKCLGEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKDHISLEDYE 81

Query: 61 IQKESTLHL 69
          +  ++ L L
Sbjct: 82 VHDQTNLEL 90

>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 Length = 122

 Score = 61.5 bits (149), Expect = 3e-13
 Identities = 13/82 (15%), Positives = 30/82 (36%), Gaps = 12/82 (14%)

Query: 1  MQIFVK---TLTGKTITLE--VESSDTIDNVKAKIQDKEGIPPDQQRLI-------FAGK 48
          M        T       +E    +  +++++K K++   G   D  R+          G+
Sbjct: 3  MTEVYDLEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGE 62

Query: 49 QLEDGRTLADYNIQKESTLHLV 70
            +  ++L D  ++    +H V
Sbjct: 63 LTDGAKSLKDLGVRDGYRIHAV 84

>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 Length = 107

 Score = 60.6 bits (146), Expect = 5e-13
 Identities = 22/83 (26%), Positives = 39/83 (46%), Gaps = 11/83 (13%)

Query: 1  MQIFVKTLTGKTITLEVE--------SSDTIDNVKAKIQDKEGI---PPDQQRLIFAGKQ 49
          +++  + L  K+I    E           +I  +K  I  K       P+   LI+ G++
Sbjct: 17 VKLADQPLAPKSILQLPETELGEYSLGGYSISFLKQLIAGKLQESVPDPELIDLIYCGRK 76

Query: 50 LEDGRTLADYNIQKESTLHLVLR 72
          L+D +TL  Y IQ  ST+H++ +
Sbjct: 77 LKDDQTLDFYGIQPGSTVHVLRK 99

>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 Length = 95

 Score = 58.5 bits (141), Expect = 2e-12
 Identities = 17/73 (23%), Positives = 30/73 (41%), Gaps = 4/73 (5%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLADY 59
          + + +K L            DT+  +K+K    +     Q +LI+ G+ L +  RTL+  
Sbjct: 8  INVRLKFLNDTEELAVARPEDTVGTLKSKYFPGQ---ESQMKLIYQGRLLQDPARTLSSL 64

Query: 60 NIQKESTLHLVLR 72
          NI     +H    
Sbjct: 65 NITNNCVIHCHRS 77

>2kdb_A Homocysteine-responsive endoplasmic reticulum- resident ubiquitin-like domain member...; UBL domain, membrane, polymorphism, transmembrane; NMR {Homo sapiens} Length = 99

 Score = 58.4 bits (141), Expect = 2e-12
 Identities = 16/76 (21%), Positives = 31/76 (40%), Gaps = 6/76 (7%)

Query: 1  MQIFVKTLTGK--TITLEVESSDTIDNVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTL 56
          + + +K    K    T+    + T+  +K  + +          QRL+++G+ L D   L
Sbjct: 24 VTLIIKAPNQKYSDQTISCFLNWTVGKLKTHLSNVYPSKPLTKDQRLVYSGRLLPDHLQL 83

Query: 57 AD--YNIQKESTLHLV 70
           D      +   +HLV
Sbjct: 84 KDILRKQDEYHMVHLV 99

>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 Length = 100

 Score = 58.6 bits (141), Expect = 2e-12
 Identities = 16/69 (23%), Positives = 30/69 (43%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          +++      GK + ++  + DTI ++K  I  + G   ++  L       +D  +L DY 
Sbjct: 29 IEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHVSLGDYE 88

Query: 61 IQKESTLHL 69
          I     L L
Sbjct: 89 IHDGMNLEL 97

>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 Length = 90

 Score = 48.7 bits (116), Expect = 9e-09
 Identities = 15/74 (20%), Positives = 37/74 (50%), Gaps = 5/74 (6%)

Query: 1  MQIFVKTLTGKTITLE-VESSDTIDNVKAKIQDKEGIPPDQQRLI---FAGKQLEDGRTL 56
          + I VK   G+  ++  +   DT+ ++K  ++   G+ P++Q+L+     GK  E+   L
Sbjct: 8  LPIIVKW-GGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKL 66

Query: 57 ADYNIQKESTLHLV 70
              ++  + + ++
Sbjct: 67 GALKLKPNTKIMMM 80

>2kzr_A Ubiquitin thioesterase OTU1; structural genomics, northeast structural genomics consortiu PSI-2, protein structure initiative, hydrolase; NMR {Mus musculus} Length = 86

 Score = 46.4 bits (110), Expect = 6e-08
 Identities = 16/71 (22%), Positives = 29/71 (40%), Gaps = 5/71 (7%)

Query: 2  QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLE---DGRTL 56
          ++  K   G  +   + S   +  ++ +I    GI P  QR++  +  + L+      TL
Sbjct: 2  RVRCKAKGGTHLLQGLSSRTRLRELQGQIAAITGIAPGSQRILVGYPPECLDLSDRDITL 61

Query: 57 ADYNIQKESTL 67
           D  IQ    L
Sbjct: 62 GDLPIQSGDML 72

>2kj6_A Tubulin folding cofactor B; methods development, NESG, solution PSI-2, structural genomics, protein structure initiative; NMR {Arabidopsis thaliana} Length = 97

 Score = 45.3 bits (107), Expect = 3e-07
 Identities = 12/72 (16%), Positives = 23/72 (31%), Gaps = 7/72 (9%)

Query: 6  KTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI-------FAGKQLEDGRTLAD 58
            L   +         +++ VK K+  K G   +   L              +D R L  
Sbjct: 22 ANLKSFSADARFSPQMSVEAVKEKLWKKCGTSVNSMALELYDDSGSKVAVLSDDSRPLGF 81

Query: 59 YNIQKESTLHLV 70
          ++      LH++
Sbjct: 82 FSPFDGFRLHII 93

>2k8h_A Small ubiquitin protein; SUMO, post-translational modifier, signaling protein; NMR {Trypanosoma brucei} Length = 110

 Score = 44.6 bits (105), Expect = 6e-07
 Identities = 12/80 (15%), Positives = 34/80 (42%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           + + V    G  +   ++S   +  +      K+GI  +  R +F G  +++ +T  +  
Sbjct: 27  VAVKVVNADGAEMFFRIKSRTALKKLIDTYCKKQGISRNSVRFLFDGTPIDETKTPEELG 86

Query: 61  IQKESTLHLVLRLRGGAKKR 80
           ++ +  +  ++   GG +  
Sbjct: 87  MEDDDVIDAMVEQTGGLEHH 106

>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 Length = 105

 Score = 44.2 bits (104), Expect = 7e-07
 Identities = 19/91 (20%), Positives = 39/91 (42%), Gaps = 16/91 (17%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQR---------------LIF 45
          M + V  + G+ + + V  + T+ ++K  IQ    +  +++                L  
Sbjct: 8  MTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTS 67

Query: 46 AGKQL-EDGRTLADYNIQKESTLHLVLRLRG 75
          AG++L ED + L DY I+    +  + +L  
Sbjct: 68 AGEKLTEDRKKLRDYGIRNRDEVSFIKKLGQ 98

>3shq_A UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila melanogaster} Length = 320

 Score = 44.8 bits (105), Expect = 2e-06
 Identities = 19/119 (15%), Positives = 45/119 (37%), Gaps = 3/119 (2%)

Query: 10  GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI---FAGKQLEDGRTLADYNIQKEST 66
           GK   +++   DT++ ++ +I  K  + P++Q+L+   + GK   D   ++   ++    
Sbjct: 14  GKEYPVDLTDQDTVEVLRHEIFRKTQVRPERQKLLNLKYKGKTAADNVKISALELKPNFK 73

Query: 67  LHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKECPNAE 125
           L +V       +          + +       +      +      KVQR  ++    E
Sbjct: 74  LMMVGSTEADIEDACSLPDNIGEVVDDFDDADEREESVAHSAVYLAKVQRRVRDYKIKE 132

>1se9_A Ubiquitin family; ubiquitin-like, cell-free, wheat GERM, structural genomics, protein structure initiative, CESG; NMR {Arabidopsis thaliana} SCOP: d.15.1.1 Length = 126

 Score = 43.1 bits (101), Expect = 2e-06
 Identities = 22/85 (25%), Positives = 41/85 (48%), Gaps = 13/85 (15%)

Query: 19  SSDTIDNVKAKI-----QDKEGIP--PDQQRLIFAGKQLEDGRTLADYNIQ------KES 65
            + T+  +K  +     ++KE  P    + +LI AGK LE+ +T+ DY           +
Sbjct: 36  DATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKTVKDYRSPVSNLAGAVT 95

Query: 66  TLHLVLRLRGGAKKRKKKTYTKPKK 90
           T+H++++     K++K K   K  K
Sbjct: 96  TMHVIIQAPVTEKEKKPKGDPKMNK 120

>2io0_B Small ubiquitin-related modifier 2 precursor; SUMO, SENP, ULP, complex, protein binding, hydrolase; 2.30A {Homo sapiens} SCOP: d.15.1.1 Length = 91

 Score = 40.5 bits (95), Expect = 1e-05
 Identities = 13/76 (17%), Positives = 33/76 (43%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          + + V    G  +  +++    +  +     +++G+   Q R  F G+ + +  T A   
Sbjct: 6  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 65

Query: 61 IQKESTLHLVLRLRGG 76
          ++ E T+ +  +  GG
Sbjct: 66 MEDEDTIDVFQQQTGG 81

>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 Length = 92

 Score = 40.5 bits (94), Expect = 1e-05
 Identities = 15/53 (28%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 19 SSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLADYNIQKESTLHLV 70
          S   + ++   +++  G+P   Q+LIF GK L E    L+   IQ    + L+
Sbjct: 30 SEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETPLSALGIQDGCRVMLI 82

>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 Length = 95

 Score = 40.6 bits (95), Expect = 1e-05
 Identities = 13/58 (22%), Positives = 21/58 (36%), Gaps = 7/58 (12%)

Query: 20 SDTIDNVKAKIQDKEGIPPDQQRLI-------FAGKQLEDGRTLADYNIQKESTLHLV 70
          S TI   K K++   G P     L        F  K  ++   L  Y +     +H++
Sbjct: 28 SLTIAEFKCKLELVVGSPASCMELELYGADDKFYSKLDQEDALLGSYPVDDGCRIHVI 85

>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 Length = 97

 Score = 39.5 bits (92), Expect = 3e-05
 Identities = 14/76 (18%), Positives = 36/76 (47%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          +++ V       I  +V+ +  +  +K     ++G+P +  R +F G+++ D  T  +  
Sbjct: 22 IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELG 81

Query: 61 IQKESTLHLVLRLRGG 76
          +++E  + +     GG
Sbjct: 82 MEEEDVIEVYQEQTGG 97

>1wz0_A Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-like molecule, structural genomics, sentrin2, NPPFSA; NMR {Homo sapiens} SCOP: d.15.1.1 Length = 104

 Score = 38.7 bits (90), Expect = 7e-05
 Identities = 12/77 (15%), Positives = 32/77 (41%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           + + V    G  +  +++    +  +     +++G+   Q R  F G+ + +  T A   
Sbjct: 25  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 84

Query: 61  IQKESTLHLVLRLRGGA 77
           ++ E T+ +  +   G 
Sbjct: 85  MEDEDTIDVFQQQTSGP 101

>2io1_B Small ubiquitin-related modifier 3 precursor; SUMO, SENP, ULP, complex, protein binding, hydrolase; 2.60A {Homo sapiens} SCOP: d.15.1.1 Length = 94

 Score = 38.3 bits (89), Expect = 7e-05
 Identities = 13/80 (16%), Positives = 34/80 (42%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          + + V    G  +  +++    +  +     +++G+   Q R  F G+ + +  T A   
Sbjct: 8  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 67

Query: 61 IQKESTLHLVLRLRGGAKKR 80
          ++ E T+ +  +  GG  + 
Sbjct: 68 MEDEDTIDVFQQQTGGVPES 87

>2kjr_A CG11242; UBL, ubiquitin, ubiquitin-like, structural genomics, PSI-2, protein structure initiative; NMR {Drosophila melanogaster} Length = 95

 Score = 37.2 bits (86), Expect = 2e-04
 Identities = 11/55 (20%), Positives = 20/55 (36%), Gaps = 6/55 (10%)

Query: 22 TIDNVKAKIQDKEGIPPDQQRL-IFAGKQL-----EDGRTLADYNIQKESTLHLV 70
          T+  +K K++   G      ++ +F G         +   L  Y       LH+V
Sbjct: 39 TVAQLKTKLEILTGGCAGTMKVQVFKGDTCVSTMDNNDAQLGYYANSDGLRLHVV 93

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	145
3u5c_f	152	40S ribosomal protein S31; translation, ribosome,	100.0
2xzm_9	189	RPS31E; ribosome, translation; 3.93A {Tetrahymena	100.0
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	99.9
3phx_B	79	Ubiquitin-like protein ISG15; OTU domain, DE-ubiqu	99.89
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	99.89
3k9o_B	96	Ubiquitin, UBB+1; E2-25K, complex structure, ATP-b	99.88
3n3k_B	85	Ubiquitin; hydrolase, protease, thiol protease, DU	99.88
3a9j_A	76	Ubiquitin; protein complex, cytoplasm, isopeptide	99.88
1se9_A	126	Ubiquitin family; ubiquitin-like, cell-free, wheat	99.88
1sif_A	88	Ubiquitin; hydrophobic mutants, folding, stability	99.88
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	99.88
4hcn_B	98	Polyubiquitin, ubiquitin; ubiquitin/NEDD8 deamidas	99.88
3mtn_B	85	UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquit	99.87
1wh3_A	87	59 kDa 2'-5'-oligoadenylate synthetase like protei	99.87
2uyz_B	79	Small ubiquitin-related modifier 1; sumoylation, c	99.87
2hj8_A	88	Interferon-induced 17 kDa protein; HR2873B, human	99.87
3plu_A	93	Ubiquitin-like modifier HUB1; ubiquitin-like, HUB-	99.87
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	99.86
1wy8_A	89	NP95-like ring finger protein, isoform A; ubiquiti	99.86
2kk8_A	84	Uncharacterized protein AT4G05270; solution arabid	99.86
3vdz_A	111	Ubiquitin-40S ribosomal protein S27A; gadolinium,	99.86
1yx5_B	98	Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo s	99.86
3v6c_B	91	Ubiquitin; structural genomics, structural genomic	99.86
1wyw_B	97	Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Ho	99.85
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	99.85
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	99.85
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	99.85
2faz_A	78	Ubiquitin-like containing PHD and ring finger DOM	99.84
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	99.84
1wgd_A	93	Homocysteine-responsive endoplasmic reticulum- res	99.84
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	99.84
1uel_A	95	HHR23B, UV excision repair protein RAD23 homolog B	99.84
1uh6_A	100	Ubiquitin-like 5; beta-grAsp fold, structural geno	99.84
2lxa_A	87	Ubiquitin-like protein MDY2; ubiquitin-like domain	99.83
3b1l_X	76	E3 ubiquitin-protein ligase parkin; proteasome, AL	99.73
2ojr_A	111	Ubiquitin; lanthide-binding TAG, terbium, TB, SAD	99.83
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	99.83
2kdi_A	114	Ubiquitin, vacuolar protein sorting-associated pro	99.83
1we6_A	111	Splicing factor, putative; structural genomics, ub	99.83
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	99.83
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	99.83
3u5e_m	128	60S ribosomal protein L40; translation, ribosome,	99.82
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	99.82
2gow_A	125	HCG-1 protein, ubiquitin-like protein 3; BC059385,	99.82
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	99.82
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	99.82
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	99.82
1we7_A	115	SF3A1 protein; structural genomics, ubiquitin-like	99.81
2fnj_B	118	Transcription elongation factor B polypeptide 2; b	99.81
4a20_A	98	Ubiquitin-like protein MDY2; protein binding, GET-	99.81
1j8c_A	125	Ubiquitin-like protein hplic-2; ubiquitin-like dom	99.81
1v2y_A	105	3300001G02RIK protein; hypothetical protein, ubiqu	99.81
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	99.8
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	99.8
4ajy_B	118	Transcription elongation factor B polypeptide 2; E	99.8
1v5o_A	102	1700011N24RIK protein; hypothetical protein, ubiqu	99.8
1wju_A	100	NEDD8 ultimate buster-1; ubiquitin-like domain, st	99.8
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	99.8
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	99.79
1wgh_A	116	Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fo	99.79
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	99.79
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	99.79
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	99.77
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	99.77
4dbg_A	105	Ranbp-type and C3HC4-type zinc finger-containing;	99.77
2kdb_A	99	Homocysteine-responsive endoplasmic reticulum- res	99.75
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	99.75
2kd0_A	85	LRR repeats and ubiquitin-like domain-containing p	99.75
1v5t_A	90	8430435I17RIK protein; hypothetical protein, ubiqu	99.74
1wgg_A	96	Ubiquitin carboxyl-terminal hydrolase 14; ubiquiti	99.73
1wia_A	95	Hypothetical ubiquitin-like protein (riken cDNA 20	99.73
1x1m_A	107	Ubiquitin-like protein SB132; structural genomics,	99.73
2k4x_A	55	30S ribosomal protein S27AE; metal-binding, ribonu	99.71
2daf_A	118	FLJ35834 protein; hypothetical protein FLJ35834, u	99.71
1wxv_A	92	BAG-family molecular chaperone regulator-1; struct	99.71
1v86_A	95	DNA segment, CHR 7, wayne state university 128, ex	99.71
3ai5_A	307	Yeast enhanced green fluorescent protein, ubiquit;	99.7
3j20_Y	50	30S ribosomal protein S27AE; archaea, archaeal, KI	99.7
2dzj_A	88	Synaptic glycoprotein SC2; ubiquitin-like fold, st	99.7
2dzm_A	100	FAS-associated factor 1; ubiquitin-like domain, HF	99.69
2kjr_A	95	CG11242; UBL, ubiquitin, ubiquitin-like, structura	99.69
4b6w_A	86	Tubulin-specific chaperone; CAP-Gly, ubiquitin-lik	99.66
2io1_B	94	Small ubiquitin-related modifier 3 precursor; SUMO	99.66
2kj6_A	97	Tubulin folding cofactor B; methods development, N	99.64
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	99.64
1wf9_A	107	NPL4 family protein; beta-grAsp fold like domain,	99.63
1v6e_A	95	Cytoskeleton-associated protein 1; tubulin-specifi	99.62
2io0_B	91	Small ubiquitin-related modifier 2 precursor; SUMO	99.61
1t0y_A	122	Tubulin folding cofactor B; ubiquitin-like, cytosk	99.59
2d07_B	93	Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Ho	99.58
2kzr_A	86	Ubiquitin thioesterase OTU1; structural genomics,	99.57
1wz0_A	104	Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-li	99.55
1wm3_A	72	Ubiquitin-like protein SMT3B; ubiquitin fold, half	99.53
3shq_A	320	UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila	99.53
2eke_C	106	Ubiquitin-like protein SMT3; UBC9, SUMO binding mo	99.52
2k8h_A	110	Small ubiquitin protein; SUMO, post-translational	99.51
3a4r_A	79	Nfatc2-interacting protein; ubiquitin fold, coiled	99.47
1wjn_A	97	Tubulin-folding protein TBCE; ubiquitin-like domai	99.39
3kyd_D	115	Small ubiquitin-related modifier 1; SUMO, thioeste	99.25
3pge_A	200	SUMO-modified proliferating cell nuclear antigen;	99.17
3tix_A	207	Ubiquitin-like protein SMT3, RNA-induced transcri	99.12
3goe_A	82	DNA repair protein RAD60; SUMO-like domain, sumoyl	99.06
2pjh_A	80	Protein NPL4, nuclear protein localization protein	99.0
3v7o_A	227	Minor nucleoprotein VP30; ssgcid, seattle structur	98.93
2jxx_A	97	Nfatc2-interacting protein; nuclear factor of acti	98.76
3uf8_A	209	Ubiquitin-like protein SMT3, peptidyl-prolyl CIS-	98.59
3ix6_A	360	TS, tsase, thymidylate synthase; niaid, ssgcid, se	98.54
4efo_A	94	Serine/threonine-protein kinase TBK1; ubiquitin li	98.5
2l76_A	95	Nfatc2-interacting protein; ubiquitin-like domain,	98.46
2al3_A	90	TUG long isoform; TUG UBL1 insulin, endocytosis/ex	98.35
2kc2_A	128	Talin-1, F1; FERM, adhesion, cell membrane, cell p	98.34
4da1_A	389	Protein phosphatase 1K, mitochondrial; metal-ION-a	98.29
2bps_A	81	YUKD protein; ubiquitin-like protein, ubiquitin; 2	98.26
3qx1_A	84	FAS-associated factor 1; UBX, protein binding, P97	98.09
2dzk_A	109	UBX domain-containing protein 2; ubiquitin-like fo	97.79
1wj4_A	124	KIAA0794 protein; UBX domain, beta-grAsp fold, str	97.67
2cr5_A	109	Reproduction 8; UBX domain, D0H8S2298E protein, st	97.3
1s3s_G	127	P47 protein; AAA ATPase, protein-protein complex,	97.18
2l32_A	74	Small archaeal modifier protein 2; protein BIN; NM	97.05
1ryj_A	70	Unknown; beta/alpha protein, structural genomics,	97.05
2daj_A	91	KIAA0977 protein, COBL-like 1; ubiquitin-like doma	96.79
4a3p_A	217	Ubiquitin carboxyl-terminal hydrolase 15; 1.40A {H	96.78
2zkr_2	97	60S ribosomal protein L37E; protein-RNA complex, 6	96.71
3jyu_A	231	Ubiquitin carboxyl-terminal hydrolase; domain in u	96.6
1vjk_A	98	Molybdopterin converting factor, subunit 1; struct	96.48
4e71_A	111	Plexin-B2, MM1; transmembrane, signaling, RBD, str	96.44
1tyg_B	87	YJBS; alpha beta barrel, protein-protein complex,	96.37
3rpf_C	74	Molybdopterin converting factor, subunit 1 (MOAD);	96.36
2juo_A	89	GA-binding protein alpha chain; OST, ubiquitin, tr	96.03
3ivf_A	371	Talin-1; FERM domain, cell membrane, cell projecti	96.01
1oey_A	83	P67-PHOX, neutrophil cytosol factor 2; immune syst	95.89
2k5p_A	78	THis protein, thiamine-biosynthesis protein; NESG,	95.88
3po0_A	89	Small archaeal modifier protein 1; ubiquitin-like	95.74
3h6n_A	127	Plexin-D1; structural genomics consortium, SGC, me	95.73
3dwg_C	93	9.5 kDa culture filtrate antigen CFP10A; sulfur ca	95.68
1f0z_A	66	THis protein; ubiquitin fold, transport protein; N	95.62
2r2o_A	138	Plexin-B1; effector domain, structural genomics, s	95.59
2kl0_A	73	Putative thiamin biosynthesis THis; structural gen	95.49
4e74_A	117	Plexin-A4; RBD, structural genomics, structural ge	94.83
1wgk_A	114	Riken cDNA 2900073H19 protein; THis domain, ubiqut	94.47
2kvr_A	130	Ubiquitin carboxyl-terminal hydrolase 7; USP7, ubi	94.33
2qjl_A	99	URM1, ubiquitin-related modifier 1; ubiquitin-like	94.23
1vd2_A	89	Protein kinase C, IOTA type; PB1 domain, OPCA moti	93.68
2q5w_D	77	Molybdopterin converting factor, subunit 1; MOCO,	93.6
1fm0_D	81	Molybdopterin convertin factor, subunit 1; molybde	93.58
2cu3_A	64	Unknown function protein; thermus thermophilus HB8	93.42
1h4r_A	314	Merlin; FERM, neurofibromatosis, NF2, structural p	93.16
1ef1_A	294	Moesin; membrane, FERM domain, tail domain, membra	93.07
3kuz_A	126	Plexin-C1; structural genomics, structural genomic	92.96
2kmc_A	102	Fermitin family homolog 1; kindlin, cytoskeleton,	92.28
2l52_A	99	Methanosarcina acetivorans SAMP1 homolog; beta-grA	92.26
2k9x_A	110	Tburm1, uncharacterized protein; unknown function;	92.14
3ig3_A	627	Plxna3 protein; plexin intracellular GAP RBD inact	91.73
2g1e_A	90	Hypothetical protein TA0895; MOAD, molybdopterin,	91.58
3ivf_A	371	Talin-1; FERM domain, cell membrane, cell projecti	91.36
1rws_A	77	Hypothetical protein PF1061; residual dipolar coup	91.35
1y8x_B	98	Ubiquitin-activating enzyme E1C; ubiquitin-conjuga	90.99
2kmm_A	73	Guanosine-3',5'-BIS(diphosphate) 3'- pyrophosphohy	90.92
2i1j_A	575	Moesin; FERM, coiled-coil, C-ermad, ERM, radixin,	90.27
4eut_A	396	Serine/threonine-protein kinase TBK1; ATP binding,	90.23
3qij_A	296	Protein 4.1; cytoskeleton, structural genomics, st	89.39
1ip9_A	85	BEM1 protein; ubiquitin alpha/beta roll, signaling	89.29
3hm6_X	644	Plexin-B1; structural genomics consortium, SGC, me	88.93
3onh_A	127	Ubiquitin-activating enzyme E1-like; ligase, SUMO	88.76
2ylm_A	530	Ubiquitin carboxyl-terminal hydrolase 7; UBL; 2.70	88.07
2c7h_A	86	RBBP6, retinoblastoma-binding protein 6, isoform 3	87.17
1j0g_A	92	Hypothetical protein 1810045K17; ubiquitin-like fo	86.06
1wgr_A	100	Growth factor receptor-bound protein 7; RA domain,	85.67
3u52_E	119	Phenol hydroxylase component PHO; 4-helix bundle,	85.25
3qa8_A	676	MGC80376 protein; kinase ubiquitin-like domain, ph	84.71
1wgy_A	104	RAP guanine nucleotide exchange factor 5; ubiquiti	83.58
2inc_C	83	TOUB protein; DIIRON, 4-helix bundle, carboxylate	81.99
3ge3_C	84	Toluene-4-monooxygenase system protein B; DIIRON h	80.92
3u5c_e	63	40S ribosomal protein S30-A, 40S ribosomal protein	80.32
1wfl_A	74	Zinc finger protein 216; ZF-AN1 domain, zinc bindi	80.25

>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=100.00  E-value=5.4e-61  Score=345.86  Aligned_cols=144  Identities=72%  Similarity=1.033  Sum_probs=62.1

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCcccc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAKKR   80 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~~k~   80 (145)
                      |+|+|++++|+++.|+|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|+++++|+|+++++||++++
T Consensus         1 MqI~VK~l~G~~~~l~V~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~dygI~~gstL~Lvlrl~GGgKkr   80 (152)
T 3u5c_f            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGGKKR   80 (152)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEEccccCcHHHcCCCCCCEEEEEeeccCCCcCc
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccCCcccccccceeeeeeeeeEEEcCCCcEEEecccCCCCCCCccEEeceeCCcccccCC
Q 032224           81 KKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKECPNAECGAGTFMASHFDRHYCEFV  144 (145)
Q Consensus        81 ~k~~~~~pk~~k~~~kk~k~~v~k~~~v~~~~~~~~l~~~c~~~~c~~g~~ma~h~~~~~c~~~  144 (145)
                      +|+.|++||+++|++||+++++|+||+||+||+|+|++++||++.||+|||||.|+||||||||
T Consensus        81 kKk~~t~Pkk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~cg~g~fma~h~~r~~cgkc  144 (152)
T 3u5c_f           81 KXXXXXXXXXXXXXXXXXXXXVLSYYKVDAEGKVTKLRRECSNPTCGAGVFLANHKDRLYCGKC  144 (152)
T ss_dssp             -CCCCCCCSCCCCCCCCCCCCCCCCSEECSSSCEECCSCBCCSTTSCSSSBEEECSSCEEESSS
T ss_pred             ccccccccccccccccccccceeeEEEEccCCeEEECcCcCCCccCCCceEecccCCCcccCCC
Confidence            9999999999999999999999999999999999999999998889999999999999999998

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

Probab=100.00  E-value=1.1e-52  Score=310.56  Aligned_cols=137  Identities=41%  Similarity=0.696  Sum_probs=64.5

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCcccc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAKKR   80 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~~k~   80 (145)
                      |+|+|++++|++++|+|++++||.+||++|++.+|||+++|+|+|+|++|+|+.+|+     ++++|+|+++++||++++
T Consensus         1 MqI~VKtL~GktitLeV~~sdTV~~LK~kI~~keGIP~~qQRLIf~GK~LeD~~TLs-----~~STLhLvlRLrGG~~kr   75 (189)
T 2xzm_9            1 MQVQVKTLEGETKIYTLEQGTSVLDLKSQISQDMGFEIDMMTLVNNGFIAPNTELVT-----DDVTYYLSLKLLGGKKKK   75 (189)
T ss_dssp             ----------------------------------------------------------------------------CCCC
T ss_pred             CEEEEEcCCCCEEEEEECCcChHHHHHHHHHHHhCcChhHEEEEecCeECCCCCccc-----CCCEEEEEEecCCCcccc
Confidence            899999999999999999999999999999999999999999999999999999998     899999999999999988


Q ss_pred             ccccccCCcccccccceeeeeeeeeEEEcCCCcEEEecccCCCCCCCccEEeceeCCcccccCC
Q 032224           81 KKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKECPNAECGAGTFMASHFDRHYCEFV  144 (145)
Q Consensus        81 ~k~~~~~pk~~k~~~kk~k~~v~k~~~v~~~~~~~~l~~~c~~~~c~~g~~ma~h~~~~~c~~~  144 (145)
                      +|+.|+|||+++|++|++++++|+||+||+||+|+|++++||  +||+|+|||.|+||||||+|
T Consensus        76 kK~~~~tPK~~k~~kKkvkl~~Lk~y~Vd~~Gkv~~~~~~Cp--~Cg~g~fma~h~dR~~CGkC  137 (189)
T 2xzm_9           76 KKKSYTTKKKTKHRHVHTKLGALAFYKLENNGKVSLQQKGCP--KCGPGIFMAKHYDRHYCGKC  137 (189)
T ss_dssp             CCCCCCSSSCCCCCCCCCCCSCCCCEEEETTTEEEECSEECS--TTCSSCEEEECSSCEEETTT
T ss_pred             cccccCCCccccccccccCCceeeEEEECCCceEEEccccCC--ccCCCccccCccCCCccCCc
Confidence            899999999999999999999999999999999999999999  69999999999999999998

>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=99.90  E-value=1.7e-23  Score=137.22  Aligned_cols=79  Identities=54%  Similarity=0.904  Sum_probs=73.2

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCccc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAKK   79 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~~k   79 (145)
                      |+|+|++++|+++.++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|++|++|+|+++++||+..
T Consensus         1 M~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~l~l~~rl~Gg~~~   79 (88)
T 4fbj_B            1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLALRGGGGL   79 (88)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBTTTTTCCTTCEEEEECBCC-----
T ss_pred             CEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcChhHEEEEECCeECCCCCcHHHcCCCCCCEEEEEEECCCCCCC
Confidence            8999999999999999999999999999999999999999999999999999999999999999999999999999753

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

Probab=99.89  E-value=4.7e-23  Score=132.07  Aligned_cols=75  Identities=36%  Similarity=0.595  Sum_probs=73.4

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG   75 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~g   75 (145)
                      |+|+|++.+|+++.++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||++|++|+++++++|
T Consensus         5 m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~l~l~~rl~G   79 (79)
T 3phx_B            5 LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRLRG   79 (79)
T ss_dssp             EEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEECCBC
T ss_pred             EEEEEEeCCCCEEEEEECCcChHHHHHHHHHhhcCCCHHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEecCC
Confidence            799999999999999999999999999999999999999999999999999999999999999999999999887

>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=99.89  E-value=1.4e-22  Score=128.15  Aligned_cols=76  Identities=57%  Similarity=0.952  Sum_probs=72.8

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|+..+|+++.++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||.+|++|+++++++||
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 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLALRGG   76 (76)
T ss_dssp             CEEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEECCC--
T ss_pred             CEEEEECCCCCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEeCCCC
Confidence            8999999999999999999999999999999999999999999999999999999999999999999999999987

>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=99.88  E-value=1.4e-22  Score=134.34  Aligned_cols=80  Identities=93%  Similarity=1.235  Sum_probs=74.1

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCcccc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAKKR   80 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~~k~   80 (145)
                      |+|+|+..+|+++.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|.++++|+|+++++||...+
T Consensus         2 m~i~vk~~~g~~~~~~v~~~~TV~~LK~~i~~~~gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~i~l~~r~~gG~~~~   81 (96)
T 3k9o_B            2 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGYADLR   81 (96)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECCCC-----
T ss_pred             cEEEEEeCCCCEEEEEECCCCCHHHHHHHHHhhhCCChhHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEEcCCCCccc
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999998654

>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=99.88  E-value=1.3e-22  Score=131.25  Aligned_cols=78  Identities=78%  Similarity=1.134  Sum_probs=72.9

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCcc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAK   78 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~~   78 (145)
                      |+|+|+..+|+++.++|++++||.+||++|++.+++|+++|+|+|+|+.|+|+.+|++|+|+++++|+++++++||+-
T Consensus         4 m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~~ip~~~qrL~~~g~~L~d~~tL~~~~i~~~~~i~l~~rl~GG~g   81 (85)
T 3n3k_B            4 MRIVVKTLMGRTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIHNHSALYLLLKLRGGGG   81 (85)
T ss_dssp             CEEEEECGGGCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETBEECCTTCBTTTTTCCTTCEEEEEECCC----
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCeECCCCCCHHHCCCCCCCEEEEEEeccCCCC
Confidence            899999999999999999999999999999999999999999999999999999999999999999999999999863

>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=99.88  E-value=3.1e-22  Score=126.60  Aligned_cols=76  Identities=95%  Similarity=1.320  Sum_probs=74.5

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|+..+|+++.+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||.+|++|+++++++||
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 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQRESTLHLVLRLRGG   76 (76)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTGGGTCCTTCEEEEEECCCCC
T ss_pred             CEEEEEcCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEEeCCCC
Confidence            8999999999999999999999999999999999999999999999999999999999999999999999999997

>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=99.88  E-value=1.1e-22  Score=141.29  Aligned_cols=90  Identities=29%  Similarity=0.441  Sum_probs=73.2

Q ss_pred             CEEEEEeCCCCEE-EEEEcCCCcHHHHHHHHH-----HHhCCCc--CceeeeeCCeeccCCCccccccccCC------CE
Q 032224            1 MQIFVKTLTGKTI-TLEVESSDTIDNVKAKIQ-----DKEGIPP--DQQRLIFAGKQLEDGRTLADYNIQKE------ST   66 (145)
Q Consensus         1 M~I~Vk~~~g~~~-~l~V~~~~TV~~LK~~I~-----~~~gip~--~~q~L~~~G~~L~d~~tL~~~gi~~~------st   66 (145)
                      |+|+|++.+|+.+ ++++++++||.+||++|+     +.+++|+  ++|+|+|+|+.|+|+.+|++|+|+++      ++
T Consensus        17 ~~i~~kt~~G~~i~~l~v~psdTV~~lK~kI~~~~p~dkegiP~~~~qQrLIy~GK~LeD~~TLsdy~I~~~~~~~~v~t   96 (126)
T 1se9_A           17 LEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKTVKDYRSPVSNLAGAVTT   96 (126)
T ss_dssp             EEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTSBGGGGSCCTTSCTTCCEE
T ss_pred             EEEEEEECCCCEEEeeecCccCHHHHHHHHHHhhcccccccCCCChhhEEEEECCeECcCCCcHHHcCCCcCCccCCcEE
Confidence            6899999999988 799999999999999994     5567886  89999999999999999999999988      68


Q ss_pred             EEEEEEecCCccccccccccCCcccc
Q 032224           67 LHLVLRLRGGAKKRKKKTYTKPKKIK   92 (145)
Q Consensus        67 i~l~~~~~gg~~k~~k~~~~~pk~~k   92 (145)
                      ++|+++++||+++  |+.|++|+++.
T Consensus        97 mhlVlrl~g~~kk--kk~~~~pkk~~  120 (126)
T 1se9_A           97 MHVIIQAPVTEKE--KKPKGDPKMNK  120 (126)
T ss_dssp             EEEEECCCSSCCC--C----------
T ss_pred             EEEEeccCCcccc--ccCCCCCCCCC
Confidence            9999999998775  78899988754

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

Probab=99.88  E-value=2.2e-22  Score=131.93  Aligned_cols=77  Identities=86%  Similarity=1.257  Sum_probs=70.2

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGA   77 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~   77 (145)
                      |+|+|++++|+++.++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||.++++|+|+++++||+
T Consensus        10 ~~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           10 LQLFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGG   86 (88)
T ss_dssp             CEEEEEETTSCEEEEECCTTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBSGGGTCCTTCEEEEEC------
T ss_pred             eEEEEEeCCCCEEEEEECCCChHHHHHHHHHHHHCcChhhEEEEECCEECCCCCcHHHcCCCCCCEEEEEEeCCCCC
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999985

>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=99.88  E-value=1.5e-22  Score=131.85  Aligned_cols=76  Identities=58%  Similarity=0.975  Sum_probs=74.5

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|+..+|+++.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|+++++|+|+++++||
T Consensus        13 m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~i~l~~rl~GG   88 (88)
T 3dbh_I           13 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLRLRGG   88 (88)
T ss_dssp             EEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTSBGGGGTCCTTCEEEECCCCCCC
T ss_pred             EEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcCHHHEEEEECCeECCCCCcHHHcCCCCCCEEEEEEeCCCC
Confidence            7999999999999999999999999999999999999999999999999999999999999999999999999997

>4hcn_B Polyubiquitin, ubiquitin; ubiquitin/NEDD8 deamidase, NEDD8, protein binding; 2.60A {Saccharomyces cerevisiae}

Probab=99.88  E-value=2.8e-22  Score=133.88  Aligned_cols=76  Identities=97%  Similarity=1.333  Sum_probs=74.7

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|+..+|+++.++|++++||.+||++|++.+++|+++|+|+|+|+.|+|+.+|++|+|+++++|+|+++++||
T Consensus        23 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           23 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG   98 (98)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTCBSGGGTCCTTEEEEEECBCSCC
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEecCCC
Confidence            8999999999999999999999999999999999999999999999999999999999999999999999999997

>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=99.87  E-value=3.2e-22  Score=129.34  Aligned_cols=77  Identities=91%  Similarity=1.240  Sum_probs=74.7

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGA   77 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~   77 (145)
                      |+|+|+..+|+++.+++++++||.+||++|++.+++|+++|+|+|+|+.|+|+.+|++|+|+++++|+|+++++||+
T Consensus         4 m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~~i~~~~qrL~~~g~~L~d~~tL~~~~i~~~~~l~l~~r~~GG~   80 (85)
T 3mtn_B            4 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKWSTLFLLLRLRGGG   80 (85)
T ss_dssp             EEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBTGGGTCCTTCEEEEECCCCCC-
T ss_pred             EEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcChHHEEEEECCEECCCCCCHHHcCCCCCCEEEEEEECcCCC
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999986

>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=99.87  E-value=4.6e-22  Score=129.53  Aligned_cols=77  Identities=34%  Similarity=0.526  Sum_probs=75.1

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGA   77 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~   77 (145)
                      |+|+|++.+|+++.++|++++||.+||++|++.+++|+++|+|+|+|+.|+|+.+|++|+|.++++|+++++++||+
T Consensus         8 m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~qrL~~~Gk~L~d~~tL~~~~i~~g~~i~l~~~~~GG~   84 (87)
T 1wh3_A            8 IQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIYGIQDSDTLILSKKKGSGP   84 (87)
T ss_dssp             EEEEEEETTTEEEEEEECSSSBHHHHHHHHHHHTCCCTTTEEEEETTEECCSSSBHHHHTCCTTEEEEEEECSCCCS
T ss_pred             EEEEEEcCCCCEEEEEeCCCChHHHHHHHHHHHhCCChHHEEEEECCEEccCCCCHHHCCCCCCCEEEEEEeccCCC
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999986

>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=99.87  E-value=3.9e-22  Score=127.76  Aligned_cols=76  Identities=18%  Similarity=0.448  Sum_probs=73.6

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|++.+|+++.++|.+++||.+||++|++..|+|+++|+|+|+|+.|+|+.+|++|+|+++++|+++++++||
T Consensus         4 m~i~vk~~~g~~~~~~v~~~~tv~~lk~~i~~~~gi~~~~qrL~~~G~~L~d~~tl~~~~i~~~~~i~l~~~~~GG   79 (79)
T 2uyz_B            4 IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQTGG   79 (79)
T ss_dssp             EEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCHHHHTCCTTEEEEEEECCCC-
T ss_pred             EEEEEECCCCCEEEEEECCCChHHHHHHHHHHHHCCCcccEEEEECCEEeCCCCCHHHcCCCCCCEEEEEEeccCC
Confidence            7899999999999999999999999999999999999999999999999999999999999999999999999997

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

Probab=99.87  E-value=3.7e-22  Score=130.79  Aligned_cols=77  Identities=36%  Similarity=0.603  Sum_probs=70.7

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGA   77 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~   77 (145)
                      |+|+|++++|+++.++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||++|++|+|++++.||+
T Consensus         5 m~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~~I~~g~~i~l~~~~~gg~   81 (88)
T 2hj8_A            5 LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRLRGGL   81 (88)
T ss_dssp             EEEEEEETTSCEEEEEEESSSBHHHHHHHHHHHTCSCTTTEEEESSSSCCCTTSBHHHHHCSTTCEEEEEEC-----
T ss_pred             EEEEEECCCCCEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEEcCCCc
Confidence            78999999999999999999999999999999999999999999999999999999999999999999999999987

>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=99.87  E-value=9.9e-22  Score=129.60  Aligned_cols=70  Identities=23%  Similarity=0.433  Sum_probs=68.6

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV   70 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~   70 (145)
                      |+|+|+++.|+++.++++|++||.+||++|++++|+|+++|+|+|+|++|+|+.+|++|+|++|++|+|.
T Consensus        22 IqI~Vk~~~Gkk~~v~v~p~DTI~~LK~~I~~k~Gip~~qQrLif~Gk~LkD~~TL~dY~I~dgstLhL~   91 (93)
T 3plu_A           22 IEVVVNDRLGKKVRVKCLGEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKDHISLEDYEVHDQTNLELY   91 (93)
T ss_dssp             EEEEEECTTSCEEEEEEETTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEE
T ss_pred             EEEEEECCCCCEEEEEECCcCHHHHHHHHHHHHhCCCHHHEEEEeCCEEccCcCCHHHcCCCCCCEEEEE
Confidence            6899999999999999999999999999999999999999999999999999999999999999999986

>2kan_A Uncharacterized protein AR3433A; ubiquitin fold, alpha+beta, structural genomics, protein structure initiative; NMR {Arabidopsis thaliana}

Probab=99.86  E-value=8.3e-22  Score=130.83  Aligned_cols=77  Identities=30%  Similarity=0.474  Sum_probs=73.9

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCC-CccccccccCCCEEEEEEEecCCcc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLADYNIQKESTLHLVLRLRGGAK   78 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~-~tL~~~gi~~~sti~l~~~~~gg~~   78 (145)
                      |+|+|++.++ ++.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+ .+|++|||+++++|+|+++++||++
T Consensus        16 ~~I~Vk~~~~-~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~~tL~~ygI~~gstl~lv~r~~gg~~   93 (94)
T 2kan_A           16 IHVTVKFPSK-QFTVEVDRTETVSSLKDKIHIVENTPIKRMQLYYSGIELADDYRNLNEYGITEFSEIVVFLKSINRAK   93 (94)
T ss_dssp             EEEEEECSSC-EEEEEECTTCBHHHHHHHHHHHSSSCTTTEEEEETTEEECCTTSBHHHHTCCTTEEEEEEECCCSSCC
T ss_pred             EEEEEEcCCc-EEEEEECCCCcHHHHHHHHHHHHCcCHHHEEEEECCEECCCCcccHHHCCCCCCCEEEEEEeCCCCCC
Confidence            6899999877 899999999999999999999999999999999999999999 9999999999999999999999863

>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=99.86  E-value=1.7e-21  Score=127.37  Aligned_cols=77  Identities=36%  Similarity=0.620  Sum_probs=74.2

Q ss_pred             CEEEEEeCCC-CEEEE-EEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCc
Q 032224            1 MQIFVKTLTG-KTITL-EVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGA   77 (145)
Q Consensus         1 M~I~Vk~~~g-~~~~l-~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~   77 (145)
                      |+|+|+.++| +++.+ +|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|.++++|+|+++++||+
T Consensus         8 m~i~Vk~~~g~~~~~l~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~~~~gG~   86 (89)
T 1wy8_A            8 MWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFDYDVGLNDIIQLLVRPDSGP   86 (89)
T ss_dssp             EEEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHSCCCTTTEEEEETTEECCSSSBHHHHTCCTTCEEEEEECCCCSS
T ss_pred             EEEEEEECCCCceEEEEecCCCCCHHHHHHHHHHHHCcChhhEEEEECCeECCCCCCHHHCCCCCCCEEEEEEeCCCCC
Confidence            7999999999 69999 59999999999999999999999999999999999999999999999999999999999985

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

Probab=99.86  E-value=1.4e-21  Score=127.29  Aligned_cols=73  Identities=33%  Similarity=0.473  Sum_probs=70.7

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCee-ccCCCccccccccCCCEEEEEEEe
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQ-LEDGRTLADYNIQKESTLHLVLRL   73 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~-L~d~~tL~~~gi~~~sti~l~~~~   73 (145)
                      |+|+|+.++|+++.++|++++||++||++|++.+|+|+++|+|+|+|+. |+|+.+|++|||++|++|+|++++
T Consensus        11 ~~i~vk~l~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~lL~D~~tL~~y~I~~gs~i~lv~~p   84 (84)
T 2kk8_A           11 MKFLVENLNGSSFELEVDYRDTLLVVKQKIERSQHIPVSKQTLIVDGIVILREDLTVEQCQIVPTSDIQLEVSS   84 (84)
T ss_dssp             EEEEEEETTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCCSSSBHHHHTCCTTSCEEEEECC
T ss_pred             eEEEEEecCCcEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCEEecCCcCCHHHcCCCCCCEEEEEEcC
Confidence            8999999999999999999999999999999999999999999999999 999999999999999999998753

>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=99.86  E-value=2.4e-21  Score=132.20  Aligned_cols=76  Identities=96%  Similarity=1.322  Sum_probs=73.8

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|+.++|+++.++|++++||.+||++|++.+++|+++|+|+|+|+.|+|+.+|++|+|+++++|+|+++++||
T Consensus        36 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           36 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG  111 (111)
T ss_dssp             EEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTTTTTCCTTCEEEEEECCCC-
T ss_pred             EEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCChHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEecCCC
Confidence            7999999999999999999999999999999999999999999999999999999999999999999999999997

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

Probab=99.86  E-value=3.5e-21  Score=128.33  Aligned_cols=79  Identities=92%  Similarity=1.269  Sum_probs=74.7

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCccc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAKK   79 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~~k   79 (145)
                      |+|+|+..+|+++.++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||.+|++|+++++++||..-
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 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGRDP   79 (98)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHTCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECCCCC---
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEEeCCCCCcC
Confidence            8999999999999999999999999999999999999999999999999999999999999999999999999998753

>3v6c_B Ubiquitin; structural genomics, structural genomics consortium, SGC, UB protease, hydrolase-signaling protein complex; 1.70A {Homo sapiens} PDB: 3v6e_B

Probab=99.86  E-value=2.1e-21  Score=127.78  Aligned_cols=74  Identities=92%  Similarity=1.261  Sum_probs=71.7

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEec
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR   74 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~   74 (145)
                      |+|+|+..+|+++.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||++|++|+|+++++
T Consensus        18 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           18 MQIFVNTLTGTHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR   91 (91)
T ss_dssp             EEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTCBTGGGTCCTTCEEEEECCCC
T ss_pred             EEEEEEeCCCCEEEEEECCCCCHHHHHHHHHhhhCCChhhEEEEECCeECCCcCcHHHCCCCCCCEEEEEEecC
Confidence            79999999999999999999999999999999999999999999999999999999999999999999998764

>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=99.85  E-value=1.4e-21  Score=130.26  Aligned_cols=76  Identities=18%  Similarity=0.448  Sum_probs=74.4

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|++++|+++.++|.+++||.+||++|++..|+|+++|+|+|+|+.|+|+.+|++|+|+++++|+|+++++||
T Consensus        22 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           22 IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQTGG   97 (97)
T ss_dssp             EEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCHHHHTCCTTCEEEEEESSSCC
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCChhhEEEEECCeEcCCCCCHHHCCCCCCCEEEEEEecCCC
Confidence            7899999999999999999999999999999999999999999999999999999999999999999999999997

>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=99.85  E-value=3.4e-21  Score=126.26  Aligned_cols=77  Identities=32%  Similarity=0.563  Sum_probs=72.2

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCcc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAK   78 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~~   78 (145)
                      |+|+|+.++|+++.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+| +|++|+|++++.++..
T Consensus         6 m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~d~~tL~~~~i-~g~~i~l~~~~~~~~~   82 (90)
T 4dwf_A            6 LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYNV-GGKVIHLVERAPPQTH   82 (90)
T ss_dssp             EEEEEEETTCCEEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTC-TTEEEEEEECCCC---
T ss_pred             EEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCeECCCCCCHHHcCC-CCcEEEEEecCCCCCC
Confidence            7999999999999999999999999999999999999999999999999999999999999 8999999999877654

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

Probab=99.85  E-value=2.1e-21  Score=128.49  Aligned_cols=74  Identities=36%  Similarity=0.620  Sum_probs=72.1

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|++  |+++.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|.++++|+|+++++||
T Consensus        20 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           20 MQLFVRA--QELHTFEVTGQETVAQIKAHVASLEGIAPEDQVVLLAGAPLEDEATLGQCGVEALTTLEVAGRMLGG   93 (93)
T ss_dssp             CEEEEES--SSEEEEECCSSCBHHHHHHHHHHHHTCCGGGCEEEETTEECCTTSBHHHHTCCSSCEEEEECCCCCC
T ss_pred             EEEEEEC--CCEEEEEeCCCCcHHHHHHHHHHHhCcChhHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEecCCC
Confidence            7999997  8999999999999999999999999999999999999999999999999999999999999999997

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

Probab=99.85  E-value=5.7e-21  Score=139.29  Aligned_cols=78  Identities=95%  Similarity=1.296  Sum_probs=74.2

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCcc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAK   78 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~~   78 (145)
                      |+|+|++++|+++.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|++|++|+|+++++||++
T Consensus         1 MqI~Vk~~~Gk~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~y~I~~gstI~Lvlrl~GG~k   78 (169)
T 3l0w_B            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGGG   78 (169)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCTTTEEEEETTEECCTTSBGGGGTCCTTCEEEEEECCCC---
T ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHHCcCHHHEEEEECCccccCcCcHHHcCCCCCCEEEEEEEeccccc
Confidence            899999999999999999999999999999999999999999999999999999999999999999999999999875

>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=99.84  E-value=7.9e-21  Score=121.25  Aligned_cols=73  Identities=36%  Similarity=0.643  Sum_probs=70.1

Q ss_pred             CEEEEEeCCCCEE-EEE-EcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEe
Q 032224            1 MQIFVKTLTGKTI-TLE-VESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRL   73 (145)
Q Consensus         1 M~I~Vk~~~g~~~-~l~-V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~   73 (145)
                      |+|+|++.+|+++ .++ |++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||.+|++|++++++
T Consensus         3 m~i~Vk~~~g~~~~~l~~v~~~~tv~~lK~~i~~~~gip~~~qrL~~~g~~L~d~~tL~~~~i~~g~~i~l~~r~   77 (78)
T 2faz_A            3 MWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFDYEVRLNDTIQLLVRQ   77 (78)
T ss_dssp             EEEEEEETTSSCEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTTTTTCCTTCEEEEEECC
T ss_pred             EEEEEEECCCCEEEEEeccCCCCCHHHHHHHHHHHHCcChhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEEeC
Confidence            8999999999985 999 999999999999999999999999999999999999999999999999999999875

>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=99.84  E-value=9.5e-21  Score=136.03  Aligned_cols=77  Identities=36%  Similarity=0.610  Sum_probs=72.8

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGA   77 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~   77 (145)
                      |+|+|++.+|+++.++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|++|++|+++++++||+
T Consensus        82 m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~y~i~~g~~l~l~~rl~GG~  158 (159)
T 3rt3_B           82 LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRLRGGG  158 (159)
T ss_dssp             EEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEECCC---
T ss_pred             EEEEEECCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCHHHEEEEECCeecCCCCCHHHcCCCCCCEEEEEEecCCCC
Confidence            78999999999999999999999999999999999999999999999999999999999999999999999999996

>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=99.84  E-value=4.9e-21  Score=126.54  Aligned_cols=77  Identities=29%  Similarity=0.477  Sum_probs=73.0

Q ss_pred             CEEEEEeCCCC--EEEEEEcCCCcHHHHHHHHHHHh--CCCcCceeeeeCCeeccCCCccccc--cccCCCEEEEEEEec
Q 032224            1 MQIFVKTLTGK--TITLEVESSDTIDNVKAKIQDKE--GIPPDQQRLIFAGKQLEDGRTLADY--NIQKESTLHLVLRLR   74 (145)
Q Consensus         1 M~I~Vk~~~g~--~~~l~V~~~~TV~~LK~~I~~~~--gip~~~q~L~~~G~~L~d~~tL~~~--gi~~~sti~l~~~~~   74 (145)
                      |+|+|++.+++  ++.+++++++||.+||++|++.+  ++|+++|+|+|+|+.|+|+.+|++|  +|+++++|||+++++
T Consensus         8 m~i~Vk~~~~~~~~~~v~v~~~~TV~~lK~~I~~~~~~~i~~~~QrLi~~Gk~L~D~~tL~~~~~~i~~~~~i~lv~~~~   87 (93)
T 1wgd_A            8 VTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCLRDLLPKQEKRHVLHLVCNVK   87 (93)
T ss_dssp             CEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHSTTCCCTTTCEEEETTEECCSSSCHHHHSCSSSCSEEEEEECCCC
T ss_pred             EEEEEEeCCCCeEEEEEecCCCCcHHHHHHHHHHHhcCCCChHHeEEEECCEECcCcCCHHHHhcCCCCCCEEEEEeCCC
Confidence            79999999888  67778889999999999999998  9999999999999999999999999  999999999999999


Q ss_pred             CCc
Q 032224           75 GGA   77 (145)
Q Consensus        75 gg~   77 (145)
                      ||+
T Consensus        88 gg~   90 (93)
T 1wgd_A           88 SGP   90 (93)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            985

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

Probab=99.84  E-value=1.6e-20  Score=122.64  Aligned_cols=71  Identities=35%  Similarity=0.627  Sum_probs=68.7

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      |+|+|+..+|+++.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++||| +|++|||++|
T Consensus        18 m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i-~g~~i~lv~R   88 (88)
T 4eew_A           18 LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYNV-GGKVIHLVER   88 (88)
T ss_dssp             EEEEEEETTSCEEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTC-TTEEEEEEEC
T ss_pred             EEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEECCCCCcHHHcCC-CCcEEEEEEC
Confidence            7899999999999999999999999999999999999999999999999999999999999 8999999874

>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=99.84  E-value=2.5e-20  Score=123.72  Aligned_cols=77  Identities=29%  Similarity=0.560  Sum_probs=72.6

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHH---hCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDK---EGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGA   77 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~---~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~   77 (145)
                      |+|+|++.+|+.+.++|++++||.+||++|++.   +|+|+++|+|+|+|+.|+|+.+|++|||.+|++|+|+++...+.
T Consensus         1 M~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~g~~i~l~~~~~~~~   80 (95)
T 1uel_A            1 MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEYKIDEKNFVVVMVTKPKAV   80 (95)
T ss_dssp             CEEEEEETTCCEEEEECCTTSBHHHHHHHHHHHHCTTTCCTTTEEEEETTEECCTTSBGGGGTCCSSSEEEEEESSCCCC
T ss_pred             CEEEEEeCCCCEEEEEECCCCHHHHHHHHHHhhcccCCCChhhEEEEECCEECCCcCcHHHCCCCCCCEEEEEEeCCCCC
Confidence            899999999999999999999999999999999   78999999999999999999999999999999999998755444

>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=99.84  E-value=6.9e-21  Score=127.53  Aligned_cols=71  Identities=23%  Similarity=0.324  Sum_probs=68.7

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~   71 (145)
                      |+|+|+++.|+++.|+|++++||.+||++|++.+|+|+++|+|+|+|++|+|+.+|++|+|+++++|+|+.
T Consensus        29 m~I~VKtl~Gk~i~lev~p~dTV~~lK~~Ia~k~Gip~~qQrLi~~Gk~L~D~~TL~dygI~~gstlhL~~   99 (100)
T 1uh6_A           29 IEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHVSLGDYEIHDGMNLELYY   99 (100)
T ss_dssp             EEEEEECSSSSCEEEEEETTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCSSCBHHHHTCCTTEEEEEEC
T ss_pred             EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCHHHEEEEECCEECCCCCCHHHcCCCCCCEEEEEe
Confidence            78999999999999999999999999999999999999999999999999999999999999999999863

>2lxa_A Ubiquitin-like protein MDY2; ubiquitin-like domain, protein-protein interaction, SGT2 BIN domain, GET pathway, protein binding; NMR {Saccharomyces cerevisiae}

Probab=99.83  E-value=4.5e-21  Score=125.70  Aligned_cols=73  Identities=22%  Similarity=0.429  Sum_probs=68.7

Q ss_pred             CEEEEEeCCCCEEEEEEc--CCCcHHHHHHHH-HHHhCCCcCceeeeeCCeeccCCCccccccc-cCCCEEEEEEEe
Q 032224            1 MQIFVKTLTGKTITLEVE--SSDTIDNVKAKI-QDKEGIPPDQQRLIFAGKQLEDGRTLADYNI-QKESTLHLVLRL   73 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~--~~~TV~~LK~~I-~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi-~~~sti~l~~~~   73 (145)
                      |+|+|++++|+++.++|+  +++||.+||++| ++..|+|+++|+|+|+|+.|+|+.+|++|+| ++|++|+|++++
T Consensus         2 mqI~VKtl~g~~~~i~v~v~~~~TV~~lK~~I~~~~~gip~~~QrLi~~Gk~L~D~~tL~~y~I~~~~stl~v~~~~   78 (87)
T 2lxa_A            2 VHLTLKKIQAPKFSIEHDFSPSDTILQIKQHLISEEKASHISEIKLLLKGKVLHDNLFLSDLKVTPANSTITVMIKP   78 (87)
T ss_dssp             CEEEEEECSSSCEECCEECCTTCBHHHHHHHHHHTTSCSSSTTEEEEETTEECCTTCBHHHHCCCGGGCEEEEEECC
T ss_pred             EEEEEEcCCCCEEEEEEcCCCCCcHHHHHHHHHHHhcCCChHHEEEEECCEECcCcCCHHHcCCCCCCCEEEEEcCC
Confidence            899999999998888755  999999999999 9999999999999999999999999999999 799999998864

>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=99.73  E-value=1.8e-22  Score=128.20  Aligned_cols=75  Identities=33%  Similarity=0.588  Sum_probs=73.2

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG   75 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~g   75 (145)
                      |+|+|++.+|+++.++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||.+|++|+++++++|
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 MIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKQQGVPADQLRVIFAGKELPNHLTVQNCDLEQQSIVHIVQRPRR   75 (76)
Confidence            899999999999999999999999999999999999999999999999999999999999999999999999887

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

Probab=99.83  E-value=1.9e-20  Score=127.67  Aligned_cols=76  Identities=96%  Similarity=1.322  Sum_probs=73.4

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|+..+|+++.++|++++||.+||++|++.+++|+++|+|+|+|+.|+|+.+|++|+|.++++|+|+++++||
T Consensus        36 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           36 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG  111 (111)
T ss_dssp             EEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHCCCTTTEEEEETTEECCSSCBTTTTTCCTTCEEEEEECCCC-
T ss_pred             EEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHHHCcCcccEEEEECCEECCCCCcHHHcCCCCCCEEEEEEeCCCC
Confidence            7899999999999999999999999999999999999999999999999999999999999999999999999997

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

Probab=99.83  E-value=1.7e-20  Score=120.24  Aligned_cols=73  Identities=40%  Similarity=0.690  Sum_probs=70.5

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEe
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRL   73 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~   73 (145)
                      |+|+|+..+|+++.++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||.+|++|++++++
T Consensus         8 m~i~vk~~~g~~~~~~v~~~~tV~~LK~~i~~~~~i~~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~~~   80 (81)
T 2dzi_A            8 MQLTVKALQGRECSLQVPEDELVSTLKQLVSEKLNVPVRQQRLLFKGKALADGKRLSDYSIGPNSKLNLVVKP   80 (81)
T ss_dssp             EEEEEEETTSCEEEEEECSSCBHHHHHHHHHHHTCCCTTTCEEEETTEECCTTSBGGGGTCCSSBCCEEECCC
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHEEEEECCeECCCCCcHHHcCCCCCCEEEEEEeC
Confidence            7899999999999999999999999999999999999999999999999999999999999999999999875

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

Probab=99.83  E-value=3.5e-20  Score=127.00  Aligned_cols=78  Identities=90%  Similarity=1.256  Sum_probs=75.3

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCcc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAK   78 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~~   78 (145)
                      ++|+|+.++|+++.++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||.++++|+|+++++||..
T Consensus        10 ~~i~vk~l~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~~~~GG~~   87 (114)
T 2kdi_A           10 FQIFAKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSDYNIQRESTLHLVLRLRGGSM   87 (114)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTTTTTCCSSCEEEEEECCCSSCC
T ss_pred             EEEEEEeCCCcEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEEcCCCce
Confidence            489999999999999999999999999999999999999999999999999999999999999999999999999863

>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=99.83  E-value=8.7e-21  Score=129.29  Aligned_cols=78  Identities=32%  Similarity=0.458  Sum_probs=74.7

Q ss_pred             CEEEEEeC---CCCEEEEEEcC-CCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTL---TGKTITLEVES-SDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~---~g~~~~l~V~~-~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|+.+   +|+++.++|++ ++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|.+|++|+|+++++||
T Consensus        28 i~i~Vk~~~~~~g~~~~l~v~~l~~TV~~LK~~I~~~~gip~~~QrL~~~Gk~L~D~~tL~~y~I~~g~~l~l~~r~~GG  107 (111)
T 1we6_A           28 ATIRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMSLAHYNVGAGEILTLSLRERSG  107 (111)
T ss_dssp             EEEEECCTTCSSSCCEEEEESCSSSBHHHHHHHHHHHTTCCTTTSEEECSSSBCCTTSBTTTTTCSSSCEEEEECSSCCS
T ss_pred             EEEEEEecccCCCcEEEEEecCCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCCcHHHCCCCCCCEEEEEEEcCCC
Confidence            68999998   78999999998 999999999999999999999999999999999999999999999999999999999


Q ss_pred             cc
Q 032224           77 AK   78 (145)
Q Consensus        77 ~~   78 (145)
                      ++
T Consensus       108 k~  109 (111)
T 1we6_A          108 PS  109 (111)
T ss_dssp             SC
T ss_pred             CC
Confidence            63

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

Probab=99.83  E-value=1.6e-20  Score=138.96  Aligned_cols=79  Identities=91%  Similarity=1.248  Sum_probs=76.6

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCccc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAKK   79 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~~k   79 (145)
                      |+|+|++++|+++.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|+++++|+|+++++||++-
T Consensus       106 MqI~VKtl~Gkt~~l~V~~s~TV~~LK~kI~~~~gIp~~~QrLi~~Gk~L~D~~tL~dygI~~gstI~LvlrlrGG~~~  184 (189)
T 3q3f_A          106 GQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGGQT  184 (189)
T ss_dssp             EEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTCBGGGGTCCTTCEEEECCCCCCCCCC
T ss_pred             eeeeeecCCCCEEEEEeCCCCcHHHHHHHHHhccCCCHHHEEEEECCEECCCCCCHHHCCCCCCCEEEEEEEcCCCCcc
Confidence            8999999999999999999999999999999999999999999999999999999999999999999999999999753

>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=99.83  E-value=5.3e-20  Score=119.09  Aligned_cols=72  Identities=31%  Similarity=0.557  Sum_probs=69.4

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHH---hCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDK---EGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~---~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      |+|+|++.+|+.+.++|++++||++||++|++.   +|+|+++|+|+|+|+.|+|+.+|++|||.+|++|+|+++
T Consensus         6 m~i~vk~~~g~~~~~~v~~~~TV~~lK~~i~~~~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~i~l~~~   80 (85)
T 2wyq_A            6 VTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMVT   80 (85)
T ss_dssp             EEEEEEETTSCEEEEEECTTSBHHHHHHHHHHHHCTTTCCGGGEEEEETTEECCTTSBGGGGCCCTTSEEEEEEC
T ss_pred             EEEEEEECCCCEEEEEECCCCCHHHHHHHHHhhccccCCCHHHeEEEECCEECcCCCCHHHcCCCCCCEEEEEEc
Confidence            789999999999999999999999999999998   899999999999999999999999999999999999875

>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=99.82  E-value=5.2e-22  Score=138.65  Aligned_cols=78  Identities=95%  Similarity=1.287  Sum_probs=1.2

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCcc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAK   78 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~~   78 (145)
                      |+|+|++.+|+++.++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||++|++|+|+++++||..
T Consensus         1 M~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~~I~~gsti~l~~rl~GG~~   78 (128)
T 3u5e_m            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGII   78 (128)
T ss_dssp             ----------------------------------------------------------------------------CC
T ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCcChHHEEEEECCEECCCCCchhhhccCCCCEEEEEEEcCCCCC
Confidence            899999999999999999999999999999999999999999999999999999999999999999999999999974

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

Probab=99.82  E-value=1.9e-20  Score=126.73  Aligned_cols=73  Identities=22%  Similarity=0.431  Sum_probs=70.0

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEe
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRL   73 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~   73 (145)
                      |+|+|+.++|+++.|+|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||++|++|+|+++.
T Consensus         2 m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~~i~~g~~i~lv~~~   74 (106)
T 3m62_B            2 VSLTFKNFKKEKVPLDLEPSNTILETKTKLAQSISCEESQIKLIYSGKVLQDSKTVSECGLKDGDQVVFMVSQ   74 (106)
T ss_dssp             -CEEEECTTCCEEEECCCTTSBHHHHHHHHHHTTTSCGGGCEEEETTEECCTTSBTTTTTCCTTCEEEEECCC
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCChhhEEEEECCEECCCcCCHHHcCCCCCCEEEEEEcC
Confidence            8999999999999999999999999999999999999999999999999999999999999999999999874

>2gow_A HCG-1 protein, ubiquitin-like protein 3; BC059385, structural genomics, protein structure initiative, PSI; NMR {Homo sapiens}

Probab=99.82  E-value=4.2e-20  Score=128.49  Aligned_cols=79  Identities=23%  Similarity=0.353  Sum_probs=72.1

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHH------HhCCC--cCceeeeeCCeeccCCCccccccccCCC--EEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQD------KEGIP--PDQQRLIFAGKQLEDGRTLADYNIQKES--TLHLV   70 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~------~~gip--~~~q~L~~~G~~L~d~~tL~~~gi~~~s--ti~l~   70 (145)
                      |+|+|++++|++++++|++++||++||++|++      .+++|  +++|+|+|+|++|+|+.+|++|+|++++  +|+|+
T Consensus        18 m~I~vktl~G~~~~lev~~s~TV~~lK~~I~~~~p~dwke~ip~~~~~qrLIy~GK~LeD~~TL~~y~I~~~~~~tlhlv   97 (125)
T 2gow_A           18 INLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTTVMHLV   97 (125)
T ss_dssp             EEEEEECTTSCEEEEEECTTSBHHHHHHHHHSSCCCSCCCCTTCCGGGEEEESSSSEEESSCBTGGGCCCTTSEEEEEEE
T ss_pred             EEEEEEeCCCCEEEEEeCCccHHHHHHHHHHHHCCcccccCCCCChHHEEEEECCcCCCCCCcHHHcCCCCCCceEEEEE
Confidence            68999999999999999999999999999998      67884  8999999999999999999999999776  78999


Q ss_pred             EEecCCccc
Q 032224           71 LRLRGGAKK   79 (145)
Q Consensus        71 ~~~~gg~~k   79 (145)
                      +++.++.+.
T Consensus        98 ~r~~~~~~~  106 (125)
T 2gow_A           98 ARETLPEPN  106 (125)
T ss_dssp             ECSCCSSSS
T ss_pred             ecCCCCccc
Confidence            999887654

>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=99.82  E-value=1.6e-20  Score=124.59  Aligned_cols=76  Identities=28%  Similarity=0.370  Sum_probs=73.4

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGA   77 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~   77 (145)
                      |+|+|+.. |+++.++|++++||.+||++|++.+++|+++|+|+|+|+.|+|+.+|++|+|.++++|+|++++.||+
T Consensus        18 m~i~Vk~~-g~~~~~~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~~~~~g~   93 (96)
T 1wx8_A           18 IRVSVKTP-QDCHEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDILSQRGILDGSTVHVVVRSHSGP   93 (96)
T ss_dssp             EEEEEECS-SSEEEEEEETTCCHHHHHHHHHHHTCSCTTTBCCEETTEECCTTSCHHHHTCCTTEEEECCBCCSSCS
T ss_pred             EEEEEEEC-CeEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEECCCcCCHHHCCCCCCCEEEEEEeCCCCC
Confidence            78999998 89999999999999999999999999999999999999999999999999999999999999999875

>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=99.82  E-value=4.9e-20  Score=123.55  Aligned_cols=76  Identities=36%  Similarity=0.483  Sum_probs=72.3

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGA   77 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~   77 (145)
                      |+|+|+..+|+ +.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||+++++|+|++++.++.
T Consensus        23 m~I~Vk~~~g~-~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~~~p   98 (100)
T 1yqb_A           23 IKVTVKTPKDK-EDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIKRQHRA   98 (100)
T ss_dssp             EEEEEECSSCE-EEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBHHHHTCCTTCEEEEEECCCCSC
T ss_pred             EEEEEEcCCCc-EEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCcCcHHHCCCCCCCEEEEEEcCCCCC
Confidence            78999998886 79999999999999999999999999999999999999999999999999999999999988864

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

Probab=99.82  E-value=1e-19  Score=115.52  Aligned_cols=71  Identities=34%  Similarity=0.574  Sum_probs=68.0

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      |+|+|+. +|+.+.+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||++|++|++..+
T Consensus         5 m~i~vk~-~g~~~~~~v~~~~tV~~LK~~i~~~~~i~~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~~   75 (77)
T 2bwf_A            5 LNIHIKS-GQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLVKS   75 (77)
T ss_dssp             EEEEEEE-TTEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEEC
T ss_pred             EEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCCCHHHcCCCCCCEEEEEEc
Confidence            6899999 8999999999999999999999999999999999999999999999999999999999998764

>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=99.81  E-value=5.5e-20  Score=126.10  Aligned_cols=79  Identities=28%  Similarity=0.558  Sum_probs=72.9

Q ss_pred             CEEEEEeCC----------CCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEE
Q 032224            1 MQIFVKTLT----------GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV   70 (145)
Q Consensus         1 M~I~Vk~~~----------g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~   70 (145)
                      ++|.|+.++          |+++.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|.++++|+|+
T Consensus        26 i~l~V~~p~~~~~~~~~L~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrL~~~Gk~L~D~~tL~~y~i~~g~~i~lv  105 (115)
T 1we7_A           26 VSIKVQVPNMQDKTEWKLNGQGLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMASGAVIHLA  105 (115)
T ss_dssp             EEEEEEECCCSSSCSSCCSSEEEEEEECSCSBTHHHHHHHHHHSSCCTTTEEEEETTEEECTTSBHHHHTCCSSCEEEEE
T ss_pred             EEEEEEcCCCccccccccCCeEEEEEECCCCCHHHHHHHHHHHHCCChHHEEEEECCEECCCCCCHHHCCCCCCCEEEEE
Confidence            367777753          6789999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCccc
Q 032224           71 LRLRGGAKK   79 (145)
Q Consensus        71 ~~~~gg~~k   79 (145)
                      ++++||+++
T Consensus       106 ~rl~GGk~~  114 (115)
T 1we7_A          106 LKERSGPSS  114 (115)
T ss_dssp             ECCCSCCSC
T ss_pred             EEcCCCCCC
Confidence            999999753

>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=99.81  E-value=5.5e-20  Score=126.43  Aligned_cols=76  Identities=28%  Similarity=0.428  Sum_probs=70.8

Q ss_pred             CEEEEEeCCCC-EEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCcccccccc-------CCCEEEEEEE
Q 032224            1 MQIFVKTLTGK-TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQ-------KESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g~-~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~-------~~sti~l~~~   72 (145)
                      |+++|+...++ ++.++|.+++||.+||++|++.+|||+++|+|+|+|+.|+|+.+|++|||+       ++++|+|+++
T Consensus         1 M~mfl~ir~~ktti~lev~~sdTV~~lK~kI~~~egIP~~qQrLi~~Gk~LeD~~TLsdy~I~~~~a~~q~~stL~L~lr   80 (118)
T 2fnj_B            1 MDVFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPEEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATVGLAFR   80 (118)
T ss_dssp             CEEEEEEEEBTEEEEEEEETTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBHHHHTCCTTTSBTTBCEEEEEEEB
T ss_pred             CcEEEEEecCCEEEEEEeCCcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCCCCHHHcCcccccccCCCCCEEEEEec
Confidence            78888888776 599999999999999999999999999999999999999999999999999       7999999999


Q ss_pred             ecCCc
Q 032224           73 LRGGA   77 (145)
Q Consensus        73 ~~gg~   77 (145)
                       .||.
T Consensus        81 -~~g~   84 (118)
T 2fnj_B           81 -ADDT   84 (118)
T ss_dssp             -SSSC
T ss_pred             -CCCc
Confidence             6664

>4a20_A Ubiquitin-like protein MDY2; protein binding, GET-pathway, tail-anchored proteins; 1.78A {Saccharomyces cerevisiae} PDB: 2lxc_A 4goc_A

Probab=99.81  E-value=6.5e-20  Score=122.61  Aligned_cols=72  Identities=21%  Similarity=0.440  Sum_probs=67.5

Q ss_pred             CEEEEEeCCCCEEEE--EEcCCCcHHHHHHHH-HHHhCCCcCceeeeeCCeeccCCCccccccc-cCCCEEEEEEE
Q 032224            1 MQIFVKTLTGKTITL--EVESSDTIDNVKAKI-QDKEGIPPDQQRLIFAGKQLEDGRTLADYNI-QKESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l--~V~~~~TV~~LK~~I-~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi-~~~sti~l~~~   72 (145)
                      |+|+|++++|+.|.+  +|++++||.+||++| ++..|+|+++|+|+|+|+.|+|+.+|++|+| ++|++|+|+++
T Consensus        20 m~I~VKtl~g~~~~i~v~v~~~~TV~~lK~~I~~~~~gip~~~QrLi~~Gk~L~D~~tL~dy~I~~~g~ti~lmvs   95 (98)
T 4a20_A           20 VHLTLKKIQAPKFSIEHDFSPSDTILQIKQHLISEEKASHISEIKLLLKGKVLHDNLFLSDLKVTPANSTITVMIK   95 (98)
T ss_dssp             EEEEEEECSSSCEEEEEEECTTCBHHHHHHHHHHTTSCSCGGGEEEEETTEEECTTCBGGGSCCBTTBCEEEEEEC
T ss_pred             EEEEEEcCCCCEEEEEEecCCCChHHHHHHHHHHHhcCCChhhEEEEECCEECcCcCCHHHcCcCCCCCEEEEEEe
Confidence            789999999997766  666999999999999 8888999999999999999999999999999 99999999985

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

Probab=99.81  E-value=1.3e-19  Score=126.18  Aligned_cols=78  Identities=29%  Similarity=0.391  Sum_probs=69.4

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCccc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAKK   79 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~~k   79 (145)
                      |+|+|+.. |+++.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||++|++|+|++++.||+..
T Consensus        33 m~I~Vk~~-g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~dygI~~gstI~lv~~~~gg~~~  110 (125)
T 1j8c_A           33 IKVTVKTP-KEKEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQHGIHDGLTVHLVIKRDPNSSS  110 (125)
T ss_dssp             EEEEEECS-SCEEEEEECTTCCHHHHHHHHHHHHCSCSSSEEEEETTEEESTTSCGGGTTCSSSEEEEEEEC-------
T ss_pred             EEEEEEeC-CeEEEEEECCCCcHHHHHHHHHHHHCcCcceEEEEECCEEcCCCCCHHHcCCCCCCEEEEEeccCCCCCC
Confidence            78999998 8999999999999999999999999999999999999999999999999999999999999999998753

>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=99.81  E-value=3e-20  Score=125.62  Aligned_cols=76  Identities=24%  Similarity=0.385  Sum_probs=71.2

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcC---------------ceeeeeCCeecc-CCCccccccccCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPD---------------QQRLIFAGKQLE-DGRTLADYNIQKE   64 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~---------------~q~L~~~G~~L~-d~~tL~~~gi~~~   64 (145)
                      |+|+|+.++|++++|+|++++||.+||++|++.+++|++               +|+|+|+|+.|. |+.+|++|||++|
T Consensus         8 M~I~Vk~l~g~~~~v~V~~~~TV~dLK~~I~~~~~i~~~~q~g~~~isw~~~w~q~~Li~~Gk~L~dD~~tL~dygI~~g   87 (105)
T 1v2y_A            8 MTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKKLRDYGIRNR   87 (105)
T ss_dssp             EEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHTTEEEESSSCEECCSSSBHHHHTCCSS
T ss_pred             EEEEEEecCCCEEEEEECCCChHHHHHHHHHHHhCCCcccccCcceeeeeecceeEEEEeCCcCccCCcCCHHHcCCCCC
Confidence            899999999999999999999999999999999999884               569999999996 6799999999999


Q ss_pred             CEEEEEEEecCC
Q 032224           65 STLHLVLRLRGG   76 (145)
Q Consensus        65 sti~l~~~~~gg   76 (145)
                      ++|+++.+++|.
T Consensus        88 ~~l~lv~~lr~~   99 (105)
T 1v2y_A           88 DEVSFIKKLGQK   99 (105)
T ss_dssp             EEEEEEECSCSC
T ss_pred             CEEEEEehhccC
Confidence            999999999875

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

Probab=99.80  E-value=2.8e-19  Score=120.01  Aligned_cols=74  Identities=32%  Similarity=0.446  Sum_probs=70.5

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG   75 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~g   75 (145)
                      |+|+|+.. |+.+.++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||.+|++|+|++++.+
T Consensus        26 m~I~Vk~~-g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~gI~~g~~I~l~~~~~~   99 (101)
T 2klc_A           26 MKVTVKTP-KEKEEFAVPENSSVQQFKEEISKRFKSHTDQLVLIFAGKILKDQDTLSQHGIHDGLTVHLVIKTQN   99 (101)
T ss_dssp             EEEEEECS-SCEEEEEECSCCCHHHHHHHHHHHHTCCGGGEEEEETTEEECTTCCTGGGTCCTTCEEEEEECCSS
T ss_pred             EEEEEEeC-CcEEEEEECCCCCHHHHHHHHHHHHCcChhhEEEEECCEECCCcCcHHHcCCCCCCEEEEEEcCCC
Confidence            78999998 889999999999999999999999999999999999999999999999999999999999987654

>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=99.80  E-value=1.5e-19  Score=122.11  Aligned_cols=77  Identities=35%  Similarity=0.471  Sum_probs=73.1

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCcc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAK   78 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~~   78 (145)
                      |+|+|+..+|+ +.++|++++||.+||++|++.+++|+++|+|+|+|+.|+|+.+|++|+|.++++|+|++++.||..
T Consensus        18 m~I~Vk~~~g~-~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~gi~~g~~i~l~~~~~~~~~   94 (106)
T 1wx7_A           18 IKVTVKTPKDK-EDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIKRQHRAM   94 (106)
T ss_dssp             EEEEEECSSCE-EEEEEETTCCHHHHHHHHHHHHTCCTTTEEEEETTEECCTTSCHHHHTCCTTEEEEEEECCCCCSC
T ss_pred             EEEEEEeCCCc-EEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCcCcHHHcCCCCCCEEEEEEcCCCCCC
Confidence            78999998875 789999999999999999999999999999999999999999999999999999999999988864

>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=99.80  E-value=2e-19  Score=123.38  Aligned_cols=73  Identities=30%  Similarity=0.450  Sum_probs=70.2

Q ss_pred             CEEEEEeCCCC-EEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccC-------CCEEEEEEE
Q 032224            1 MQIFVKTLTGK-TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQK-------ESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g~-~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~-------~sti~l~~~   72 (145)
                      |.|||+...++ ++.+++.+++||.+||++|+..+|+|+++|+|+|+|+.|+|+.+|++|||++       +++|+|+++
T Consensus         1 m~vFl~Ikr~ktTI~ldve~sdTV~~lK~kI~~~~giPp~qQrLI~~Gk~LeD~kTL~dy~I~~~ta~~q~~atl~Lvlr   80 (118)
T 4ajy_B            1 MDVFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATVGLAFR   80 (118)
T ss_dssp             CEEEEEEEEBTEEEEEEEETTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTTTTTCCGGGSBTTBCEEEEEEEC
T ss_pred             CceEEEEecCCEEEEEEcCCCChHHHHHHHHHHHHCCCHHHeEEEeCCeECCCcCCHHHcCCCcCcccCCCCCEEEEEEe
Confidence            88999988777 7899999999999999999999999999999999999999999999999999       999999999


Q ss_pred             e
Q 032224           73 L   73 (145)
Q Consensus        73 ~   73 (145)
                      .
T Consensus        81 ~   81 (118)
T 4ajy_B           81 A   81 (118)
T ss_dssp             C
T ss_pred             c
Confidence            7

>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=99.80  E-value=1.1e-19  Score=122.03  Aligned_cols=78  Identities=19%  Similarity=0.373  Sum_probs=72.8

Q ss_pred             CEEEEEeCCC----CEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCC-CccccccccCCCEEEEEEEecC
Q 032224            1 MQIFVKTLTG----KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLADYNIQKESTLHLVLRLRG   75 (145)
Q Consensus         1 M~I~Vk~~~g----~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~-~tL~~~gi~~~sti~l~~~~~g   75 (145)
                      |+|+|+..++    +++.++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+ .+|++|+|+++++|+|+.+.+|
T Consensus         8 m~I~Vk~~~~~~~~~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~gk~L~D~~~tL~~ygI~~g~~l~l~~~~~g   87 (102)
T 1v5o_A            8 MLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVVLLQKDNV   87 (102)
T ss_dssp             EEEEEEECCCCCCCCEEEEEECTTCBHHHHHHHHHHHTCCCGGGBCEEETTEEECCSSSBHHHHTCCTTEEEEECBCCCC
T ss_pred             EEEEEEECCCCcCceEEEEEcCCCCCHHHHHHHHHHHHCcChHHeEEEECCEECCCCcccHHHCCCCCCCEEEEEECCCC
Confidence            7899999754    6999999999999999999999999999999999999999887 6999999999999999999988


Q ss_pred             Ccc
Q 032224           76 GAK   78 (145)
Q Consensus        76 g~~   78 (145)
                      |.-
T Consensus        88 g~~   90 (102)
T 1v5o_A           88 GLR   90 (102)
T ss_dssp             CCS
T ss_pred             CCC
Confidence            864

>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=99.80  E-value=1.6e-19  Score=120.84  Aligned_cols=74  Identities=23%  Similarity=0.307  Sum_probs=67.7

Q ss_pred             EEEEeCC----CCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCc
Q 032224            3 IFVKTLT----GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGA   77 (145)
Q Consensus         3 I~Vk~~~----g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~   77 (145)
                      |.|+..+    ++.+.++|++++||.+||++|++.+|+|+++|+|+|+|++|+|+.+|++|+|+++++| ++++++|..
T Consensus        18 i~V~~~~~~~~~~~~~lev~~~~TV~~lK~kI~~k~gip~~qQrLI~~GKiL~D~~TL~~y~I~~gsti-~vl~lrg~~   95 (100)
T 1wju_A           18 IEVFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQLGKTLEEQGVAHNVKA-MVLELKQSS   95 (100)
T ss_dssp             EEEECCTTTCCSSSEEEEEESSSBHHHHHHHHHHHTTCCSTTCEEEETTEECCTTSBHHHHTCCSSEEE-EEECCCCCC
T ss_pred             EEEEecCCCCCCcEEEEEeCCcCHHHHHHHHHHHHHCcCHHHeEEEeCCeECCCCCcHHHcCCCCCCEE-EEEEECCCC
Confidence            5666666    6789999999999999999999999999999999999999999999999999999999 777777754

>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=99.80  E-value=1.6e-19  Score=122.10  Aligned_cols=76  Identities=28%  Similarity=0.492  Sum_probs=72.0

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|++++|+++.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||.+|++|+|+++...+
T Consensus        24 m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~g~ti~lv~~~~~~   99 (106)
T 1ttn_A           24 CQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELKIPKDYVVQVIVSQPVQ   99 (106)
T ss_dssp             EEEEEEETTTEEEEEEECTTSHHHHHHHHHHHTTCCCSTTCEEEETTEECCTTSHHHHCCCSSSCEEEEECCCSSC
T ss_pred             EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHHCcCcccEEEEECCEECCCCCcHHHcCCCCCCEEEEEEeCCCC
Confidence            7899999999999999999999999999999999999999999999999999999999999999999999875443

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

Probab=99.79  E-value=2.3e-19  Score=130.59  Aligned_cols=76  Identities=96%  Similarity=1.322  Sum_probs=69.6

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|+..+|+++.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|++|++|+|+++++||
T Consensus        97 ~~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           97 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG  172 (172)
T ss_dssp             EEEEEEESSCCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTSBSGGGTCCTTCEEEECC-----
T ss_pred             ccceeecccCcceeEEecCCCCHHHHHHHHHHHhCCCceeEEEEECCccCCCCCcHHHhCCCCCCEEEEEEecCCC
Confidence            5799999999999999999999999999999999999999999999999999999999999999999999999997

>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=99.79  E-value=4.5e-19  Score=121.78  Aligned_cols=77  Identities=23%  Similarity=0.377  Sum_probs=69.0

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHH------HhCC--CcCceeeeeCCeeccCCCccccccccCC--CEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQD------KEGI--PPDQQRLIFAGKQLEDGRTLADYNIQKE--STLHLV   70 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~------~~gi--p~~~q~L~~~G~~L~d~~tL~~~gi~~~--sti~l~   70 (145)
                      |+|+|++++|++++|+|++++||.+||++|++      .+++  |+++|+|+|+|++|+|+.+|++|+|..+  ++|||+
T Consensus        17 m~I~vKtl~G~t~~lev~~s~TV~~lK~kI~~~~p~dwke~~p~p~~qqrLIy~GK~LeD~~TL~~y~I~~~~~~tlhLv   96 (116)
T 1wgh_A           17 INLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTTVMHLV   96 (116)
T ss_dssp             EEEEEECSSSCEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSSCBTTTTTCCSSCEEEEEEE
T ss_pred             EEEEEEeCCCCEEEEEECCcCHHHHHHHHHHHhcccccccCCCCChHHEEEEECCcCCCCCCcHHHcCCCCCCceEEEEE
Confidence            78999999999999999999999999999999      5575  6999999999999999999999999766  568888


Q ss_pred             EEecCCc
Q 032224           71 LRLRGGA   77 (145)
Q Consensus        71 ~~~~gg~   77 (145)
                      +++.+..
T Consensus        97 lr~~~~~  103 (116)
T 1wgh_A           97 ARETLPE  103 (116)
T ss_dssp             ECSSCSS
T ss_pred             ccCCCCC
Confidence            8776554

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

Probab=99.79  E-value=4.3e-19  Score=129.13  Aligned_cols=77  Identities=95%  Similarity=1.302  Sum_probs=74.9

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGA   77 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~   77 (145)
                      |+|+|+.++|+++.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|.++++|+|++++.||.
T Consensus        21 m~i~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~QrL~~~g~~L~d~~tL~~~~i~~~~~l~l~~~~~gg~   97 (172)
T 3u30_A           21 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGM   97 (172)
T ss_dssp             EEEEEEETTTEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTGGGTCCTTCEEEEEECCCCCE
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCccccccCCHhHcCCcccceeeeeecccccc
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999998875

>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=99.79  E-value=7.3e-19  Score=124.57  Aligned_cols=76  Identities=96%  Similarity=1.322  Sum_probs=73.3

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|+..+|+++.+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||.+|++|+++++++||
T Consensus        77 ~~i~Vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~qrL~~~g~~L~d~~tL~~~~i~~~~~i~l~~r~~GG  152 (152)
T 3b08_A           77 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG  152 (152)
T ss_dssp             EEEEEEESSSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECCCC-
T ss_pred             cceeeeecCCCEEEEEeCCCCcHHHHHHHHHHHhCcChhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEEecCCC
Confidence            6899999999999999999999999999999999999999999999999999999999999999999999999997

>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=99.77  E-value=1.6e-18  Score=124.31  Aligned_cols=76  Identities=32%  Similarity=0.399  Sum_probs=72.4

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee-e-CCeeccCCCccccccccCCCEEEEEEE-ecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI-F-AGKQLEDGRTLADYNIQKESTLHLVLR-LRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~-~-~G~~L~d~~tL~~~gi~~~sti~l~~~-~~gg   76 (145)
                      |+|+|++++|+++.++|++++||++||++|++.+|+|+++|+|+ | +|+.|+|+.+|++|+|.+|++|+++++ +.++
T Consensus         3 m~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~QrL~~~~~g~~L~d~~tL~~y~i~~~~~l~l~~~~~~~~   81 (159)
T 3rt3_B            3 WDLTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVVDKSDEP   81 (159)
T ss_dssp             CEEEEEETTSCEEEEECCTTCCHHHHHHHHHHHHCCCGGGEEEEEETTCCBCCTTSCGGGGTCCTTCEEEEEECCCCCC
T ss_pred             eEEEEEECCCCEEEEEeCCCCcHHHHHHHHHHHhCCCHHHEEEEEcCCCCCCCCCCCHHHcCCCCCCEEEEEccCCCCc
Confidence            79999999999999999999999999999999999999999999 9 799999999999999999999999998 3554

>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=99.77  E-value=2.3e-18  Score=122.00  Aligned_cols=77  Identities=95%  Similarity=1.302  Sum_probs=74.1

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGA   77 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~   77 (145)
                      |+|+|++++|+++.++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||.++++|+++.+..++.
T Consensus         1 M~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gip~~~q~L~~~g~~L~d~~tL~~~~i~~~~~l~l~~~~~~~~   77 (152)
T 3b08_A            1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGM   77 (152)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECCTTCE
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHHHHHCcChHHeEEEECCeECcCcccHHHhccCCCCeeEEEeeccccc
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999887763

>4dbg_A Ranbp-type and C3HC4-type zinc finger-containing; ubiquitin fold, ubiquitination, ligase; 2.71A {Homo sapiens} PDB: 2lgy_A

Probab=99.77  E-value=3.1e-18  Score=115.53  Aligned_cols=72  Identities=24%  Similarity=0.253  Sum_probs=67.5

Q ss_pred             CEEEEEeCCC--CEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccc-cCCCEEEEEEE
Q 032224            1 MQIFVKTLTG--KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNI-QKESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g--~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi-~~~sti~l~~~   72 (145)
                      |+|+|+...+  .+++++|+|++||++||++|++.+|||++.|||+|+|+.++|+.+|++||| ++|++++|++-
T Consensus        25 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           25 LWVSVEDAQMHTVTIWLTVRPDMTVASLKDMVFLDYGFPPVLQQWVIGQRLARDQETLHSHGVRQNGDSAYLYLL   99 (105)
T ss_dssp             EEEEEEESSSCCEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEEECTTCBTGGGTCCSTTCEEEEEEC
T ss_pred             EEEEEEccCCCCceEEEEECCcChHHHHHHHHHHHhCCCHHHEEEeccCeEccCcCcHHHcCCCCCCCEEEEEEE
Confidence            6899999875  589999999999999999999999999999999999999999999999999 69999999874

>2kdb_A Homocysteine-responsive endoplasmic reticulum- resident ubiquitin-like domain member...; UBL domain, membrane, polymorphism, transmembrane; NMR {Homo sapiens}

Probab=99.75  E-value=1.5e-18  Score=116.24  Aligned_cols=70  Identities=24%  Similarity=0.394  Sum_probs=64.2

Q ss_pred             CEEEEEeCCCC--EEEEEEcCCCcHHHHHHHHHHH-hCCC-cCceeeeeCCeeccCCCccccc--cccCCCEEEEE
Q 032224            1 MQIFVKTLTGK--TITLEVESSDTIDNVKAKIQDK-EGIP-PDQQRLIFAGKQLEDGRTLADY--NIQKESTLHLV   70 (145)
Q Consensus         1 M~I~Vk~~~g~--~~~l~V~~~~TV~~LK~~I~~~-~gip-~~~q~L~~~G~~L~d~~tL~~~--gi~~~sti~l~   70 (145)
                      |+|+|++++|+  ++.|+|++++||.+||++|++. .|+| +++|+|+|+|+.|+|+.+|++|  +|+++++|+|+
T Consensus        24 m~I~VK~~~g~~~~i~l~v~~~~TV~~LK~~I~~~~~g~pp~~~QrLIy~Gk~L~D~~tL~~y~~~I~~~~tihLv   99 (99)
T 2kdb_A           24 VTLIIKAPNQKYSDQTISCFLNWTVGKLKTHLSNVYPSKPLTKDQRLVYSGRLLPDHLQLKDILRKQDEYHMVHLV   99 (99)
T ss_dssp             EEEEEECTTSSSCCEEEEECTTSBHHHHHHHHHHHSTTCCCTTTCCEEETTEEECTTSBTHHHHTTTCSEEEEEEC
T ss_pred             EEEEEEcCCCCEEEEEEEcCCCCHHHHHHHHHHHHhcCCCChhhEEEEECCEECCCCCCHHHHhcCCCCCCEEEeC
Confidence            78999999888  6789999999999999999986 5666 4999999999999999999999  99999999974

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

Probab=99.75  E-value=6e-19  Score=118.44  Aligned_cols=71  Identities=34%  Similarity=0.574  Sum_probs=66.7

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      |+|+|++ +|+++.++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||++|++|+|+.+
T Consensus        29 i~I~Vk~-~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~gI~~g~tI~lv~~   99 (101)
T 3m63_B           29 LNIHIKS-GQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLVKS   99 (101)
T ss_dssp             CCEEEEC-SSCCCCBCCCTTSBHHHHHHHHHHHHSCCSTTCCEEETTEECCTTSBTTTTTCCTTEEEEECCC
T ss_pred             EEEEEEE-CCEEEEEEeCCCCCHHHHHHHHHHHHCcChHHEEEEECCEECCCcCcHHHCCCCCCCEEEEEeC
Confidence            4678886 8889999999999999999999999999999999999999999999999999999999999754

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

Probab=99.75  E-value=4.9e-18  Score=110.51  Aligned_cols=70  Identities=29%  Similarity=0.452  Sum_probs=65.4

Q ss_pred             EEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEE
Q 032224            3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         3 I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      ++++.++|+.+.++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||++|++|+|+.+
T Consensus        14 ~~~~~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~l~l~~s   83 (85)
T 2kd0_A           14 KLTVKFGGKSIPLSVSPDCTVKDLKSQLQPITNVLPRGQKLIFKGKVLVETSTLKQSDVGSGAKLMLMAS   83 (85)
T ss_dssp             EEEEEETTEEEEEEECTTSBHHHHHHHHHHHHCCCTTTCEEEETTEECCTTCBTTTTTCCTTEEEEEECC
T ss_pred             EEEEEECCEEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCeECCCcCCHHHCCCCCCCEEEEEEe
Confidence            4566778999999999999999999999999999999999999999999999999999999999998753

>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=99.74  E-value=3.9e-18  Score=112.04  Aligned_cols=71  Identities=21%  Similarity=0.428  Sum_probs=67.1

Q ss_pred             CEEEEEeCCCCEEEE-EEcCCCcHHHHHHHHHHHhCCCcCceeee---eCCeeccCCCccccccccCCCEEEEEEE
Q 032224            1 MQIFVKTLTGKTITL-EVESSDTIDNVKAKIQDKEGIPPDQQRLI---FAGKQLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l-~V~~~~TV~~LK~~I~~~~gip~~~q~L~---~~G~~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      |+|+|+. .|+++.| +|++++||.+||++|++.+|+|+++|+|+   |+|+.|+|+.+|++|+|+++++|+|+..
T Consensus         8 m~i~Vk~-~g~~~~i~~v~~~~TV~~lK~~I~~~~gip~~~QkLi~~k~~Gk~L~D~~~L~~~~i~~g~~l~l~~~   82 (90)
T 1v5t_A            8 LPIIVKW-GGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKLGALKLKPNTKIMMMGT   82 (90)
T ss_dssp             CCEEEEE-TTEEEEECSCCSSSBHHHHHHHHHHHTCCCTTTCEEESCEETTEECCTTSBHHHHTCCTTEEEEEECC
T ss_pred             EEEEEEE-CCEEEEEEEeCCCCCHHHHHHHHHHHHCcCHHHeEEEeeccCCcCcCCCCCHHHcCCCCCCEEEEEec
Confidence            7899996 7889999 99999999999999999999999999999   9999999999999999999999998754

>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=99.73  E-value=4.8e-18  Score=113.04  Aligned_cols=70  Identities=17%  Similarity=0.302  Sum_probs=65.6

Q ss_pred             CEEEEEeCCCCEE-EEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEE
Q 032224            1 MQIFVKTLTGKTI-TLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g~~~-~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      |+|+|+. .|+++ .|+|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+ +|++|+|+++++|+|+..
T Consensus         8 m~i~Vk~-~g~~~~~l~v~~~~TV~~lK~~I~~~tgip~~~QkLi~~Gk~L~D~-tL~~~~I~~g~~i~l~~~   78 (96)
T 1wgg_A            8 YSVTVKW-GKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDD-DWGNIKMKNGMTVLMMGS   78 (96)
T ss_dssp             EEEEEEE-TTEEEEEEEEESSSCHHHHHHHHHHHTCCCTTTSCCEETTEECCSS-CCCSCCCCSSCEEECCCC
T ss_pred             EEEEEEE-CCEEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCcCCCCC-CHHHCCCCCCCEEEEEec
Confidence            6899995 68899 6999999999999999999999999999999999999999 999999999999998754

>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=99.73  E-value=7.1e-18  Score=111.58  Aligned_cols=73  Identities=26%  Similarity=0.386  Sum_probs=68.3

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCC-CccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~-~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|+..+|+.+.++|++++||.+||++|++.+   +++|+|+|+|+.|+|+ .+|++|+|.+|++|+|+++..+.
T Consensus         8 m~i~Vk~~~g~~~~~~v~~~~TV~~LK~~i~~~~---~~~qrLi~~Gk~L~D~~~tL~~y~i~~g~~i~l~~~~~~~   81 (95)
T 1wia_A            8 INVRLKFLNDTEELAVARPEDTVGTLKSKYFPGQ---ESQMKLIYQGRLLQDPARTLSSLNITNNCVIHCHRSPPGA   81 (95)
T ss_dssp             EEEEEEETTTEEEEEEECSSSBHHHHHHHHSSST---TTTCEEEETTEECCCSSCBTTTTTCCTTEEEEEECCCCCC
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHhhC---cCcEEEEECCEEccCCcCCHHHcCCCCCCEEEEEECCCCC
Confidence            7899999999999999999999999999999987   8999999999999999 99999999999999999876544

>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=99.73  E-value=9.9e-18  Score=113.46  Aligned_cols=74  Identities=28%  Similarity=0.401  Sum_probs=68.2

Q ss_pred             CEEEEEeCCC---CEEEEEEcC---------CCcHHHHHHHHHHHh--CCCcCc-eeeeeCCeeccCCCccccccccCCC
Q 032224            1 MQIFVKTLTG---KTITLEVES---------SDTIDNVKAKIQDKE--GIPPDQ-QRLIFAGKQLEDGRTLADYNIQKES   65 (145)
Q Consensus         1 M~I~Vk~~~g---~~~~l~V~~---------~~TV~~LK~~I~~~~--gip~~~-q~L~~~G~~L~d~~tL~~~gi~~~s   65 (145)
                      |+|+|+..++   +.+.|+|++         ++||.+||++|++.+  |+|+++ |+|+|+|+.|+|+.+|++|+|++++
T Consensus        13 ~~i~Vk~~~~~~~~~~~l~v~~~~~~~v~~~~~TV~~LK~~i~~~~~~gip~~~~qrLi~~Gk~L~D~~tL~~y~i~~g~   92 (107)
T 1x1m_A           13 WHLAVKLADQPLAPKSILQLPETELGEYSLGGYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLKDDQTLDFYGIQPGS   92 (107)
T ss_dssp             CCEEEEETTCTTSCCEEECCCCCSSCSSCCCCCBHHHHHHHHHHHCTTTCCCSSSEEEEETTEECCTTCBHHHHTCCTTC
T ss_pred             eEEEEEeCCCCCccEEEEEecCccccccCcccCCHHHHHHHHHHHhccCCChhhcEEEEECCeECCCCCcHHHcCCCCCC
Confidence            7899999988   789999554         599999999999999  999999 9999999999999999999999999


Q ss_pred             EEEEEEEec
Q 032224           66 TLHLVLRLR   74 (145)
Q Consensus        66 ti~l~~~~~   74 (145)
                      +|+|+++..
T Consensus        93 ~i~lv~~~~  101 (107)
T 1x1m_A           93 TVHVLRKSW  101 (107)
T ss_dssp             EEEEEESSC
T ss_pred             EEEEEeCCC
Confidence            999988653

>2k4x_A 30S ribosomal protein S27AE; metal-binding, ribonucleoprotein, zinc, zinc-finger, structural genomics, PSI-2; NMR {Thermoplasma acidophilum} SCOP: g.41.8.8

Probab=99.71  E-value=5.7e-19  Score=105.85  Aligned_cols=43  Identities=37%  Similarity=0.797  Sum_probs=40.5

Q ss_pred             eeeeeeEEEcCCCcEEEecccCCCCCCCccEEeceeCCcccccCCC
Q 032224          100 LAVLQFYKVDDSGKVQRLRKECPNAECGAGTFMASHFDRHYCEFVP  145 (145)
Q Consensus       100 ~~v~k~~~v~~~~~~~~l~~~c~~~~c~~g~~ma~h~~~~~c~~~~  145 (145)
                      +++|+||+||+ |+|+|++++||  +||+|+|||.|+||++||+|.
T Consensus         1 m~~~~~y~v~~-gki~~~~~fCP--kCG~~~~ma~~~dr~~C~kCg   43 (55)
T 2k4x_A            1 MQKRELYEIAD-GKLVRKHRFCP--RCGPGVFLAEHADRYSCGRCG   43 (55)
T ss_dssp             CCCCCCCCCCC-CCCCCSSCCCT--TTTTTCCCEECSSEEECTTTC
T ss_pred             CceEEEEEEcC-CEEEEccccCc--CCCCceeEeccCCEEECCCCC
Confidence            46899999996 99999999999  899999999999999999984

>2daf_A FLJ35834 protein; hypothetical protein FLJ35834, ubiquitin-like domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.71  E-value=3.1e-17  Score=112.04  Aligned_cols=74  Identities=16%  Similarity=0.305  Sum_probs=67.7

Q ss_pred             EEEEE-eCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecC
Q 032224            2 QIFVK-TLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG   75 (145)
Q Consensus         2 ~I~Vk-~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~g   75 (145)
                      .|.|+ ..+++.+.++++++.||.+||+.++...++|++.|+|+|+|+.|.|+.+|++|||++|.||||+++...
T Consensus        17 tvkv~l~~~~~k~tv~v~~d~TV~dLKe~ls~~~~iP~e~qrLIy~GKiLKD~eTL~~~gIk~g~TIhLvi~s~~   91 (118)
T 2daf_A           17 TVKVVLIPVGQEIVIPFKVDTILKYLKDHFSHLLGIPHSVLQIRYSGKILKNNETLVQHGVKPQEIVQVEIFSTN   91 (118)
T ss_dssp             EEEEEETTTCCEEEEEECSSSCSHHHHHHHHHHHTCCTTTEEEEETTEEECSSCCHHHHSCCSSCEEEEEEEESC
T ss_pred             EEEEEEcCCCcEEEEEeCCCCcHHHHHHHHHhhhCCChHHEEEEECCeEcCCcchHHHcCCCCCCEEEEEEecCC
Confidence            45555 456789999999999999999999999999999999999999999999999999999999999998643

>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=99.71  E-value=3.6e-17  Score=107.55  Aligned_cols=71  Identities=24%  Similarity=0.449  Sum_probs=65.5

Q ss_pred             CEEEEEeCCCCEEEEEEcCC-----CcHHHHHHHHHHHhCCCcCceeeeeCCeeccC-CCccccccccCCCEEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESS-----DTIDNVKAKIQDKEGIPPDQQRLIFAGKQLED-GRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~-----~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d-~~tL~~~gi~~~sti~l~~~   72 (145)
                      |+|+|+. .|+.+.++|+++     +||.+||++|++.+|+|+++|+|+|+|+.|+| +.+|++|+|+++++|+|+.+
T Consensus         8 ~~v~Vk~-~~~~~~i~v~~~~~~~~~TV~~LK~~i~~~~gip~~~qrL~~~Gk~L~D~~~~L~~~~i~~g~~i~l~~~   84 (92)
T 1wxv_A            8 LTVTVTH-SNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETPLSALGIQDGCRVMLIGK   84 (92)
T ss_dssp             EEEEEEC-SSSEEEEEECCCSSSSSCBHHHHHHHHHHHTCCCTTTCEEEETTEEECCSSSBHHHHTCCSSEEEEEESC
T ss_pred             EEEEEEE-CCEEEEEEECCCcCcccCcHHHHHHHHHHHHCcCHHHEEEEECCeecCCCcccHHHCCCCCCCEEEEEec
Confidence            6899998 588999999995     99999999999999999999999999999988 66899999999999998764

>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=99.71  E-value=1.3e-17  Score=110.58  Aligned_cols=70  Identities=20%  Similarity=0.343  Sum_probs=64.0

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      |+|+|+. .++++.++|++++||.+||++|++.+|+|+++|+|+|.|+.|+ +.+|++|+|+++++|+|+.+
T Consensus        18 ~~i~Vk~-~g~~~~i~v~~~~TV~~LK~~I~~~tgip~~~QrL~~~Gk~Ld-d~tL~~~~i~~g~~i~lv~~   87 (95)
T 1v86_A           18 VDLKIIW-NKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGLVPE-DKTLREIKVTSGAKIMVVGS   87 (95)
T ss_dssp             EEEEEEE-TTEEEEEEECTTSBHHHHHHHHHHHHCSCSTTCCCBSSSBCCS-SSBHHHHCCCTTEEEEECCS
T ss_pred             EEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCeeCC-cCcHHHCCCCCCCEEEEEec
Confidence            5788884 6889999999999999999999999999999999999999995 45999999999999998753

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

Probab=99.70  E-value=4.7e-17  Score=128.20  Aligned_cols=74  Identities=96%  Similarity=1.299  Sum_probs=69.6

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEec
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR   74 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~   74 (145)
                      |+|+|+.++|+++.++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|+++++|+|+++++
T Consensus       234 MqI~VKtl~Gk~~~leV~~s~TV~dLK~kI~~~~GIp~~~QRLi~~Gk~L~D~~TLsdygI~~gstL~LvlRLr  307 (307)
T 3ai5_A          234 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR  307 (307)
T ss_dssp             EEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBTGGGTCCTTCEEEEEC---
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEeCCeecCCCCCHHHcCCCCCCEEEEEEeCC
Confidence            78999999999999999999999999999999999999999999999999999999999999999999998864

>3j20_Y 30S ribosomal protein S27AE; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=99.70  E-value=3.7e-18  Score=100.43  Aligned_cols=40  Identities=45%  Similarity=0.841  Sum_probs=38.5

Q ss_pred             eeeeEEEcCCCcEEEecccCCCCCCCccEEeceeCCcccccCC
Q 032224          102 VLQFYKVDDSGKVQRLRKECPNAECGAGTFMASHFDRHYCEFV  144 (145)
Q Consensus       102 v~k~~~v~~~~~~~~l~~~c~~~~c~~g~~ma~h~~~~~c~~~  144 (145)
                      +|+||+|| +|+|+|++++||  +||+|+|||.|.+|++||+|
T Consensus         4 ~l~~y~v~-~~kv~~~~k~CP--~CG~~~fm~~~~~R~~C~kC   43 (50)
T 3j20_Y            4 KWKLYEIK-DGKVIRKNKFCP--RCGPGVFMADHGDRWACGKC   43 (50)
T ss_dssp             CCCCCEEC-SSCEECSSEECS--SSCSSCEEEECSSEEECSSS
T ss_pred             ceeEEEEE-CCEEEEecccCC--CCCCceEEecCCCeEECCCC
Confidence            68999999 899999999999  89999999999999999997

>2dzj_A Synaptic glycoprotein SC2; ubiquitin-like fold, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.70  E-value=2.4e-17  Score=108.05  Aligned_cols=69  Identities=23%  Similarity=0.303  Sum_probs=63.2

Q ss_pred             CEEEEEeCCCCEE--EE-EEcCCCcHHHHHHHHHHH-hCCCcCceeeeeC--CeeccCCCccccccccCCCEEEE
Q 032224            1 MQIFVKTLTGKTI--TL-EVESSDTIDNVKAKIQDK-EGIPPDQQRLIFA--GKQLEDGRTLADYNIQKESTLHL   69 (145)
Q Consensus         1 M~I~Vk~~~g~~~--~l-~V~~~~TV~~LK~~I~~~-~gip~~~q~L~~~--G~~L~d~~tL~~~gi~~~sti~l   69 (145)
                      |+|+|+++.|+.+  .+ +|++++||.+||++|++. .++||++|+|+|.  |+.|+|+.+|++|+|.++++|++
T Consensus        11 M~I~Vk~~~g~~~~~~l~~v~~~~TV~~lK~~I~~~~~~i~~~~QrL~~~~~Gk~L~D~~tL~~y~i~~~stl~~   85 (88)
T 2dzj_A           11 YEVEILDAKTREKLCFLDKVEPHATIAEIKNLFTKTHPQWYPARQSLRLDPKGKSLKDEDVLQKLPVGTTATLYF   85 (88)
T ss_dssp             EEEEEEESSSCCCCEEEEEECSSCBHHHHHHHHHHHCSSSCTTTCCEESSTTSCCCCTTCBTTTSSCCSEEEEEE
T ss_pred             EEEEEECCCCCEEeeEEeEcCCCCcHHHHHHHHHHHhcCCChHHeEEEecCCCcCcCCCCCHHHcCCCCCCEEEE
Confidence            7899999988764  58 999999999999999995 8999999999976  99999999999999999999875

>2dzm_A FAS-associated factor 1; ubiquitin-like domain, HFAF1, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.69  E-value=2.8e-17  Score=110.15  Aligned_cols=74  Identities=19%  Similarity=0.273  Sum_probs=67.4

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeee--CCeeccCCCccccccccCCCEEEEEEEecC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF--AGKQLEDGRTLADYNIQKESTLHLVLRLRG   75 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~--~G~~L~d~~tL~~~gi~~~sti~l~~~~~g   75 (145)
                      |++++..++|+++.|+|++++||.+||++|++.+||||++|+|++  .|+ |+|+.+|++|+|++|++|+|++....
T Consensus         9 m~~~~vk~~Gk~~~v~v~~~~TV~~LK~~I~~~tgIpp~~QkLi~~~~gk-L~D~~tLs~~~I~~gstL~lvl~~~~   84 (100)
T 2dzm_A            9 MLDFRVEYRDRNVDVVLEDTCTVGEIKQILENELQIPVSKMLLKGWKTGD-VEDSTVLKSLHLPKNNSLYVLTPDLP   84 (100)
T ss_dssp             EEEEEEECSSCEEEEEEETTSBHHHHHHHHHHHHCCCTTTCCEECCSSSC-CCTTSBHHHHCCCSEEEEEECCSSSC
T ss_pred             eEEEEEEeCCeEEEEEECCCCcHHHHHHHHHHHHCCChhHeEEEccCCCC-CCCcCCHHHcCCCCCCEEEEEecCCC
Confidence            677888889999999999999999999999999999999999986  555 99999999999999999999877544

>2kjr_A CG11242; UBL, ubiquitin, ubiquitin-like, structural genomics, PSI-2, protein structure initiative; NMR {Drosophila melanogaster}

Probab=99.69  E-value=8.7e-17  Score=106.79  Aligned_cols=70  Identities=14%  Similarity=0.222  Sum_probs=62.3

Q ss_pred             CEEEEEeCCCC--EEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeC--Ce---ec-cCCCccccccccCCCEEEEE
Q 032224            1 MQIFVKTLTGK--TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFA--GK---QL-EDGRTLADYNIQKESTLHLV   70 (145)
Q Consensus         1 M~I~Vk~~~g~--~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~--G~---~L-~d~~tL~~~gi~~~sti~l~   70 (145)
                      +.|+|+...++  .++++|++++||++||++|+..+|||+++|+|+|.  |+   .| +|+.+|++|+|++|++|+|+
T Consensus        16 v~l~It~s~~~~~~~~~~v~~~~TV~~LK~kI~~~~GiP~~~QrL~~~~~g~~~~~L~~D~~tL~~Y~i~~gstihlv   93 (95)
T 2kjr_A           16 IKVNVSNSHNDAVAFEVKLAKDLTVAQLKTKLEILTGGCAGTMKVQVFKGDTCVSTMDNNDAQLGYYANSDGLRLHVV   93 (95)
T ss_dssp             EEEEEEESSCSCEEEEEEEETTCBHHHHHHHHHHHHCSCTTTEEEEEEETTEEEEECCCTTSBHHHHCCSSSCEEEEE
T ss_pred             EEEEEEECCCCceEEEEEeCccCHHHHHHHHHHHHHCcCHHHeEEEEecCCcccceeCCCCCCHhHCCcCCCCEEEEE
Confidence            36788876654  78999999999999999999999999999999997  44   44 89999999999999999986

>4b6w_A Tubulin-specific chaperone; CAP-Gly, ubiquitin-like; HET: MSE; 2.35A {Trypanosoma brucei brucei strain 927}

Probab=99.66  E-value=1.2e-16  Score=104.24  Aligned_cols=71  Identities=17%  Similarity=0.278  Sum_probs=62.2

Q ss_pred             EEEEEeC--CCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeee-------CCeeccCCCccccccccCCCEEEEEEE
Q 032224            2 QIFVKTL--TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF-------AGKQLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         2 ~I~Vk~~--~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~-------~G~~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      .|.|...  +.+.+++.+++++||++||++|+..+|+||++|+|+|       .|+.|+|+.+|++|+|++|++|||+-.
T Consensus         4 ~v~iths~~~~~~~E~r~~~s~TI~~lK~ki~~~~Gip~~~QrLi~~~~~~~~~g~~l~d~~tL~~Y~i~~g~~ihlvd~   83 (86)
T 4b6w_A            4 KVSLTHSASRMRVPEKRYGLAQTIESIKENVFTHFATPPEYMQLQLIDDRGITIEKNMANDKQLGYYQCRDEFVIHVVDL   83 (86)
T ss_dssp             EEEEEETTCSCCEEEEEEETTSBHHHHHHHHHTTSCCCGGGEEEEEECTTSCEEESSCCTTSBGGGGTCCTTCEEEEEEC
T ss_pred             EEEEEEcCCCCeEEEEEcCccCcHHHHHHHHHHHHCCCHHHEEEEEecCCCCceeeEcCCCCCHHHCCCCCCCEEEEEeC
Confidence            4555543  3457889999999999999999999999999999996       478899999999999999999999864

>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=99.66  E-value=4.2e-16  Score=103.29  Aligned_cols=77  Identities=17%  Similarity=0.398  Sum_probs=74.5

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGA   77 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~   77 (145)
                      |+|.|++.+|+.+.+.|.+++++..|+++++++.|+|+++|+|+|+|+.|+++.|+++|+++++++|++++++.||.
T Consensus         8 i~ikVk~~~g~~i~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~~~~GG~   84 (94)
T 2io1_B            8 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQQTGGV   84 (94)
T ss_dssp             EEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCTTTTTCCTTCEEEEEECCEESC
T ss_pred             EEEEEECCCCCEEEEEECCCCHHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEeccCCC
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999985

>2kj6_A Tubulin folding cofactor B; methods development, NESG, solution PSI-2, structural genomics, protein structure initiative; NMR {Arabidopsis thaliana}

Probab=99.64  E-value=4.2e-16  Score=103.83  Aligned_cols=70  Identities=16%  Similarity=0.201  Sum_probs=61.6

Q ss_pred             EEEEEeCCC--CEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCC---ee----ccCCCccccccccCCCEEEEEE
Q 032224            2 QIFVKTLTG--KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG---KQ----LEDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus         2 ~I~Vk~~~g--~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G---~~----L~d~~tL~~~gi~~~sti~l~~   71 (145)
                      .|+|.....  ..++++|++++||++||++|+..+||||++|+|+|.|   +.    ++|+.+|++|+|++|++|+|+-
T Consensus        16 ~l~It~s~~~~~~~e~~v~~~~TV~~LK~kIe~~~Gip~~~QrLi~~g~~g~~~~~L~~D~~tL~~Y~I~~g~~Ihlvd   94 (97)
T 2kj6_A           16 HLHITHANLKSFSADARFSPQMSVEAVKEKLWKKCGTSVNSMALELYDDSGSKVAVLSDDSRPLGFFSPFDGFRLHIID   94 (97)
T ss_dssp             EEEEEETTSSCCCEEEEECTTCCHHHHHHHHHHHHCCCTTSEEEEEECSSSCBCCCSSGGGSCHHHHCCCSCCEEEEEE
T ss_pred             EEEEEECCCCceEEEEEeCCCChHHHHHHHHHHHHCcCHHHeEEEEecCCCcccceecCCcCCHHHCCCCCCCEEEEEe
Confidence            567776544  4789999999999999999999999999999999987   33    4899999999999999999874

>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=99.64  E-value=2.9e-16  Score=126.57  Aligned_cols=78  Identities=31%  Similarity=0.562  Sum_probs=72.0

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHH---HhCCCcCceeeeeCCeeccCCCccccccccCCCEE-EEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQD---KEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTL-HLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~---~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti-~l~~~~~gg   76 (145)
                      |+|+|++++|+++.|+|++++||.+||++|+.   .+|||+++|+|+|+|+.|+|+.+|++|+|+++++| +++.++.++
T Consensus         8 M~I~VKtl~Gk~~~leV~~~~TV~~LK~~I~~~~~~~gip~~~QrLiy~GK~L~D~~tL~dygI~~gstIv~lv~k~~~~   87 (368)
T 1oqy_A            8 VTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMVTKTKAG   87 (368)
T ss_dssp             CCEEEEETTTEEEEECCCTTCBHHHHHHHHHHHTCSSSCCSTEEEEESSSSEECSSSBTTTTCCCTTSCEEEEEECCCSS
T ss_pred             EEEEEEeCCCCEEEEEeCCCChHHHHHHHHHHHhCcCCCChhheEEEECCeecCCcCCHHHcCCCCCCEEEEEEecCCCC
Confidence            89999999999999999999999999999999   56799999999999999999999999999999998 677777776


Q ss_pred             cc
Q 032224           77 AK   78 (145)
Q Consensus        77 ~~   78 (145)
                      ..
T Consensus        88 ~~   89 (368)
T 1oqy_A           88 QG   89 (368)
T ss_dssp             SC
T ss_pred             CC
Confidence            53

>1wf9_A NPL4 family protein; beta-grAsp fold like domain, hypothetical protein, structural genomics, NPPSFA; NMR {Arabidopsis thaliana} SCOP: d.15.1.1

Probab=99.63  E-value=3.4e-16  Score=105.92  Aligned_cols=71  Identities=21%  Similarity=0.276  Sum_probs=65.1

Q ss_pred             CEEEEEeCCCCEEEEEEc-CCCcHHHHHHHHHHHhCCCcCceeeeeCCe-----------e----ccCCCccccccccCC
Q 032224            1 MQIFVKTLTGKTITLEVE-SSDTIDNVKAKIQDKEGIPPDQQRLIFAGK-----------Q----LEDGRTLADYNIQKE   64 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~-~~~TV~~LK~~I~~~~gip~~~q~L~~~G~-----------~----L~d~~tL~~~gi~~~   64 (145)
                      |+|+|++.+|+. .|+|+ +++||.+||++|++.+++|+++|+|++.|+           .    ++|+.+|++|||++|
T Consensus         8 M~irvrs~~G~~-~v~v~~~~~Tv~~LK~kI~~~~gip~~~QrL~~~~~~~~~k~~~~~~~l~~~l~d~~tL~~~gi~~G   86 (107)
T 1wf9_A            8 TMLRVRSRDGLE-RVSVDGPHITVSQLKTLIQDQLQIPIHNQTLSTNRNLLLAKSPSDFLAFTDMADPNLRISSLNLAHG   86 (107)
T ss_dssp             EEEEEECSSCEE-EEEECCTTSBHHHHHHHHHHHSCCCTTTCCCBSSGGGGTCCSHHHHTTCCSSCCTTCBGGGTCCCTT
T ss_pred             EEEEEECCCCCE-EEEECCCCCcHHHHHHHHHHHhCcCcccCEEEECCccccccCccccccccccCCCCCCHHHCCCCCC
Confidence            789999999865 78999 999999999999999999999999999887           4    588999999999999


Q ss_pred             CEEEEEEE
Q 032224           65 STLHLVLR   72 (145)
Q Consensus        65 sti~l~~~   72 (145)
                      ++|||...
T Consensus        87 ~~L~l~~~   94 (107)
T 1wf9_A           87 SMVYLAYE   94 (107)
T ss_dssp             CEEECCCS
T ss_pred             CEEEEEeC
Confidence            99998754

>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=99.62  E-value=1.2e-15  Score=101.06  Aligned_cols=70  Identities=20%  Similarity=0.275  Sum_probs=61.6

Q ss_pred             EEEEEeCCCC-EEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCC---ee----ccCCCccccccccCCCEEEEEE
Q 032224            2 QIFVKTLTGK-TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG---KQ----LEDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus         2 ~I~Vk~~~g~-~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G---~~----L~d~~tL~~~gi~~~sti~l~~   71 (145)
                      .|+|+..... .+++++++++||++||++|+..+|+|+++|+|+|.|   +.    ++|+.+|++|||++|++|||+.
T Consensus         9 ~l~I~~~~~~~~~~~~v~~~~TV~~lK~ki~~~~gip~~~qrL~~~~~~g~~~~~l~~D~~tL~~y~i~~g~~l~v~d   86 (95)
T 1v6e_A            9 MVFISSSLNSFRSEKRYSRSLTIAEFKCKLELVVGSPASCMELELYGADDKFYSKLDQEDALLGSYPVDDGCRIHVID   86 (95)
T ss_dssp             EEEEEETTSSSCEEEEECTTSBHHHHHHHHHHHTCSCTTTCBCEEECSSSCEEEECCCSSSBTTSSSCCTTCEEEEBC
T ss_pred             EEEEEECCCCeeEEEEcCccCHHHHHHHHHHHHHCCCHHHeEEEEeCCCCccccccCCCcCCHhHCCCCCCCEEEEEE
Confidence            5777776443 688999999999999999999999999999999986   43    5899999999999999999864

>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=99.61  E-value=3.3e-15  Score=98.40  Aligned_cols=77  Identities=17%  Similarity=0.398  Sum_probs=74.2

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGA   77 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~   77 (145)
                      |+|.|++.+|+.+.+.|.+++++..|++.++++.|+|+++++|+|+|+.|.++.|.+++++.+|++|++++.+.||.
T Consensus         6 i~ikVk~~~g~~v~~~vk~~t~l~kl~~~y~~~~gi~~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~~q~gg~   82 (91)
T 2io0_B            6 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQQTGGV   82 (91)
T ss_dssp             EEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHTTCCSTTEEEEETTEECCTTCCTTTTTCCTTEEEEEEECCCCCC
T ss_pred             EEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEeccCCc
Confidence            57889998999999999999999999999999999999999999999999999999999999999999999999986

>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=99.59  E-value=4.9e-15  Score=102.41  Aligned_cols=71  Identities=14%  Similarity=0.260  Sum_probs=62.2

Q ss_pred             CEEEEEeCCCC-EEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCC---e---e-ccCCCccccccccCCCEEEEEE
Q 032224            1 MQIFVKTLTGK-TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG---K---Q-LEDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus         1 M~I~Vk~~~g~-~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G---~---~-L~d~~tL~~~gi~~~sti~l~~   71 (145)
                      |.|+|+...+. .+++++++++||++||++|+..+|||+++|+|+|.|   +   . ++|+.+|++|||++|++|||+.
T Consensus         7 v~l~V~~~~~~~~~e~~v~~~~TV~~lK~ki~~~~Gip~~~qrL~~~g~~~~~~~~l~~D~~tL~~y~i~~g~~ihvvd   85 (122)
T 1t0y_A            7 YDLEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDGYRIHAVD   85 (122)
T ss_dssp             EEEEEEESSCCSCEEEEEETTSBHHHHHHHHHHHHCCCTTTEEEEEECSSSSEEEECCCCSSBTTTTTCCSSEEEEEEE
T ss_pred             EEEEEEECCCCccEEEEeCCCCcHHHHHHHHHHHhCCCHHHeEEEEecCCCccccccCCCcCCHHHCCCCCCCEEEEEe
Confidence            35778776543 688999999999999999999999999999999977   3   2 4899999999999999999886

>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=99.58  E-value=8.3e-15  Score=96.80  Aligned_cols=76  Identities=17%  Similarity=0.403  Sum_probs=70.4

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|.|++.+|+.+.+.|.+++++..|++.++++.|++++.++|+|+|+.|.++.|+++|++.+|++|++++.+.||
T Consensus        18 i~ikV~~~~g~~i~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~Tp~dl~medgD~Idv~~~q~GG   93 (93)
T 2d07_B           18 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQQTGG   93 (93)
T ss_dssp             EEEEEECTTSCEEEEEEETTSCHHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEECC---
T ss_pred             EEEEEECCCCCEEEEEEccCCHHHHHHHHHHHHhCCCccceEEEECCEEcCCCCCHHHcCCCCCCEEEEEeeccCC
Confidence            5788888899999999999999999999999999999999999999999999999999999999999999999887

>2kzr_A Ubiquitin thioesterase OTU1; structural genomics, northeast structural genomics consortiu PSI-2, protein structure initiative, hydrolase; NMR {Mus musculus}

Probab=99.57  E-value=3.2e-15  Score=97.19  Aligned_cols=70  Identities=24%  Similarity=0.358  Sum_probs=62.5

Q ss_pred             CEEEEEeCCCCEEEEE-EcCCCcHHHHHHHHHHHhCCCcCceeeeeC--Ceecc---CCCccccccccCCCEEEEEE
Q 032224            1 MQIFVKTLTGKTITLE-VESSDTIDNVKAKIQDKEGIPPDQQRLIFA--GKQLE---DGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~-V~~~~TV~~LK~~I~~~~gip~~~q~L~~~--G~~L~---d~~tL~~~gi~~~sti~l~~   71 (145)
                      |+|+|++.+|+. .++ +++++||++||+.|++.+|+|+++|+|+|+  ++.|+   |+.+|++|||.+|++|+|..
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-LLQGLSSRTRLRELQGQIAAITGIAPGSQRILVGYPPECLDLSDRDITLGDLPIQSGDMLIVEE   76 (86)
T ss_dssp             CCEEEEETTEEE-EECSCCTTCBHHHHHHHHHHHTCCCTTTCCCEESSCCCCCCCCCSSCBTTTSSCCTTCEEECCC
T ss_pred             CEEEEEcCCCCE-EeeecCCCCCHHHHHHHHHHHhCCCccceEEEeCCCCcccccCCCCCCHHHcCCCCCCEEEEEe
Confidence            899999999965 477 999999999999999999999999999986  47774   67899999999999998763

>1wz0_A Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-like molecule, structural genomics, sentrin2, NPPFSA; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=99.55  E-value=1.3e-14  Score=97.69  Aligned_cols=78  Identities=15%  Similarity=0.368  Sum_probs=74.5

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCcc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAK   78 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~~   78 (145)
                      |+|.|+..+|+.+.+.|.+++++..|+..++++.|++++.++|+|+|+.|.++.|+++|++.++++|++++.+.||..
T Consensus        25 I~IkVk~~~g~~i~~kVk~~t~l~kL~~~y~ek~gi~~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~~q~GG~~  102 (104)
T 1wz0_A           25 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQQTSGPS  102 (104)
T ss_dssp             EEEEEECSSSCEEEEEECTTSCHHHHHHHHHHHHTCCTTTSCEESSSSBCCTTSCTTTTTCCTTEEEEECCCCCCCSS
T ss_pred             EEEEEECCCCCEEEEEEcCCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEeccCCCC
Confidence            578999889999999999999999999999999999999999999999999999999999999999999999999863

>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=99.53  E-value=4.6e-14  Score=88.88  Aligned_cols=70  Identities=16%  Similarity=0.384  Sum_probs=67.6

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV   70 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~   70 (145)
                      |+|.|++.+|+.+.+.|.+++++..|+++++++.|+|+++++|+|+|+.|.++.|.+++++.+|++|++.
T Consensus         2 i~lkV~~~~g~~v~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~Tp~~l~medgD~Idv~   71 (72)
T 1wm3_A            2 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVF   71 (72)
T ss_dssp             EEEEEECTTSCEEEEEECTTSCTHHHHHHHHHHHTCCTTTCEEEETTEECCTTCCTTTTTCCTTEEEEEE
T ss_pred             EEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCCCHHHcCCCCCCEEEEE
Confidence            6789999999999999999999999999999999999999999999999999999999999999999986

>3shq_A UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila melanogaster}

Probab=99.53  E-value=1.8e-14  Score=114.25  Aligned_cols=73  Identities=22%  Similarity=0.440  Sum_probs=65.6

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee---eCCeeccCCCccccccccCCCEEEEEEEec
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI---FAGKQLEDGRTLADYNIQKESTLHLVLRLR   74 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~---~~G~~L~d~~tL~~~gi~~~sti~l~~~~~   74 (145)
                      |.|+|+. +|+++.++|++++||++||++|++.+||||++|+|+   |+|+.|+|+.+|++|+|++|++|+|+....
T Consensus         6 i~i~Vk~-~g~~~~v~v~~~~Tv~~lK~~I~~~tgVpp~~QkLi~~k~~Gk~l~D~~~L~~~~ik~g~~l~L~gs~~   81 (320)
T 3shq_A            6 VVVIVKW-SGKEYPVDLTDQDTVEVLRHEIFRKTQVRPERQKLLNLKYKGKTAADNVKISALELKPNFKLMMVGSTE   81 (320)
T ss_dssp             EEEEEEE-TTEEEEEEEETTSBHHHHHHHHHHHHCCCGGGCEETTCBSSSSBCCTTSBTTSSCCC--CEEEEECCCC
T ss_pred             EEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEeecccCCcccCccccHHHcCCCCCCEEEEEccch
Confidence            4688885 789999999999999999999999999999999999   899999999999999999999999885543

>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=99.52  E-value=4e-14  Score=95.62  Aligned_cols=75  Identities=13%  Similarity=0.339  Sum_probs=69.7

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|.|+. +|+.+.+.|.+++++..|++.++++.|++++.++|+|+|+.|.++.|.++|++.++++|++++.+.||
T Consensus        32 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           32 INLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIGG  106 (106)
T ss_dssp             EEEEEEC-SSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEECC---
T ss_pred             EEEEEec-CCcEEEEEeCCCCHHHHHHHHHHHHhCCCcccEEEEECCeEcCCCCCHHHcCCCCCCEEEEEeecccC
Confidence            5788898 89999999999999999999999999999999999999999999999999999999999999999887

>2k8h_A Small ubiquitin protein; SUMO, post-translational modifier, signaling protein; NMR {Trypanosoma brucei}

Probab=99.51  E-value=2.1e-14  Score=97.63  Aligned_cols=77  Identities=16%  Similarity=0.410  Sum_probs=73.5

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGA   77 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~   77 (145)
                      |+|.|++.+|+.+.+.|.+++++..|++.++++.|+++++++|+|+|+.|.++.|+++|++.++++|++++.+.||-
T Consensus        27 I~IkVk~~~g~~i~fkVk~~t~l~kL~~ay~ek~gi~~~~~rfiFdG~~L~~~~Tp~dl~mEDgD~Idv~~~q~Gg~  103 (110)
T 2k8h_A           27 VAVKVVNADGAEMFFRIKSRTALKKLIDTYCKKQGISRNSVRFLFDGTPIDETKTPEELGMEDDDVIDAMVEQTGGL  103 (110)
T ss_dssp             EEEEEEETTSCCEEEEECTTSSHHHHHHHHHHHHTCCSSSCEEESSSCBCCSSSHHHHHHCSSEEEEEEECCCCCC-
T ss_pred             EEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEcccCcc
Confidence            57899999999999999999999999999999999999999999999999999999999999999999999999985

>3a4r_A Nfatc2-interacting protein; ubiquitin fold, coiled coil, cytoplasm, methylation, nucleus, transcription; 1.00A {Mus musculus} PDB: 3a4s_C 3rd2_A

Probab=99.47  E-value=2.8e-13  Score=86.78  Aligned_cols=70  Identities=10%  Similarity=0.274  Sum_probs=66.9

Q ss_pred             CEEEEEeCCCC-EEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEE
Q 032224            1 MQIFVKTLTGK-TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV   70 (145)
Q Consensus         1 M~I~Vk~~~g~-~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~   70 (145)
                      |+|.|++.+|+ .+.+.|.+++++..|++.++++.|+++++++|+|+|+.|.++.|.+++++.+|++|++.
T Consensus         8 i~ikV~~~~g~~~i~~~i~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~Tp~~l~medgD~Idv~   78 (79)
T 3a4r_A            8 LRLRVQGKEKHQMLEISLSPDSPLKVLMSHYEEAMGLSGHKLSFFFDGTKLSGKELPADLGLESGDLIEVW   78 (79)
T ss_dssp             EEEEEECSSTTCEEEEEECTTSCHHHHHHHHHHHHTCTTCCCEEEETTEECCSCCCHHHHTCCTTCEEEEE
T ss_pred             EEEEEEeCCCCEEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEe
Confidence            57899999996 89999999999999999999999999999999999999999999999999999999985

>1wjn_A Tubulin-folding protein TBCE; ubiquitin-like domain, progressive motor neuropathy, structural genomics; NMR {Mus musculus} SCOP: d.15.1.1

Probab=99.39  E-value=1.4e-12  Score=86.41  Aligned_cols=71  Identities=17%  Similarity=0.238  Sum_probs=60.9

Q ss_pred             EEEEEe---CCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCC-------eec-cCCCccccccccCCCEEEEE
Q 032224            2 QIFVKT---LTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG-------KQL-EDGRTLADYNIQKESTLHLV   70 (145)
Q Consensus         2 ~I~Vk~---~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G-------~~L-~d~~tL~~~gi~~~sti~l~   70 (145)
                      .|+|+.   .+++.+.+.+++++||++||.+|+..+|+|+..|+|.|.+       ..| +|+.+|++|+|.+|++|+|.
T Consensus        11 ~l~I~~~~~~~~~~~e~~l~~~~TV~~LK~~i~~~~gip~~~q~L~~~~~~~~~~~~~L~~d~~~L~~y~i~~G~~I~V~   90 (97)
T 1wjn_A           11 TLKIKCSNQPERQILEKQLPDSMTVQKVKGLLSRLLKVPVSELLLSYESSKMPGREIELENDLQPLQFYSVENGDCLLVR   90 (97)
T ss_dssp             EEEEEESSCSSSCCEEEEEETTSBHHHHHHHHHTTTTCCTTTCEEEEECTTSCSCEEECCCSSSBSGGGTCCTTCEEEEE
T ss_pred             EEEEEecCCCCCcEEEEECCCCCCHHHHHHHHHHHHCCChhHeEEEEEcCCCCceeeccCCCcccHhhcCCCCCCEEEEE
Confidence            466665   3677899999999999999999999999999999999863       235 57789999999999999987


Q ss_pred             EE
Q 032224           71 LR   72 (145)
Q Consensus        71 ~~   72 (145)
                      ..
T Consensus        91 d~   92 (97)
T 1wjn_A           91 WS   92 (97)
T ss_dssp             CC
T ss_pred             ec
Confidence            63

>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=99.25  E-value=4.3e-11  Score=81.66  Aligned_cols=75  Identities=17%  Similarity=0.416  Sum_probs=69.7

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG   75 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~g   75 (145)
                      ++|.|+..+|..+.+.|.+++++..|+...+++.|++++.++++|+|+.|.++.|.+++++.+|++|++.+...|
T Consensus        41 I~LKV~~qdg~ev~fkIk~tt~L~KLm~aY~er~Gl~~~~irFlFDG~rI~~~~TP~dL~MEDgD~IdV~~~Q~G  115 (115)
T 3kyd_D           41 IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQCG  115 (115)
T ss_dssp             EEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHHTCCTTSEEEEETTEECCTTCCTTTTTCCTTCEEEEEECCCC
T ss_pred             EEEEEEcCCCCEEEEEEccCChHHHHHHHHHHHhCCChhhEEEEECCeECCCCCCHHHcCCCCCCEEEEEeeccC
Confidence            467888888999999999999999999999999999999999999999999999999999999999999886543

>3pge_A SUMO-modified proliferating cell nuclear antigen; DNA replication, DNA binding protein; 2.80A {Saccharomyces cerevisiae}

Probab=99.17  E-value=1e-10  Score=86.88  Aligned_cols=77  Identities=13%  Similarity=0.311  Sum_probs=71.9

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCcc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAK   78 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~~   78 (145)
                      ++|.|+ .+|....+.|.+++++..|+...+++.|+++++++++|+|+.|.++.|.+++++.+|++|++++.+.||.+
T Consensus        30 I~LkV~-~~g~~v~fkIk~~t~l~kL~~ay~er~Gi~~~~~RF~FdG~rI~~~~TP~dL~MEdgD~Idv~~~q~gg~k  106 (200)
T 3pge_A           30 INLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIGGGG  106 (200)
T ss_dssp             EEEEEE-CSSCEEEEEECTTSCTHHHHHHHHHHHSSCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEECCSCCC-
T ss_pred             EEEEEe-cCCCEEEEEEecCCHHHHHHHHHHHHhCCChhhEEEEECCEEcCCCCCHHHcCCCCCCEEEEEeccCcCcC
Confidence            367786 48889999999999999999999999999999999999999999999999999999999999999999874

>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=99.12  E-value=1.1e-10  Score=85.81  Aligned_cols=77  Identities=12%  Similarity=0.285  Sum_probs=72.1

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCcc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAK   78 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~~   78 (145)
                      ++|.|+ .+|..+.+.|.+++++..|+...+++.|+++..++++|+|+.|.++.|..++++.+|++|++++...||.-
T Consensus        58 InLKVk-~dG~eV~FKIKrtTpL~KLmeAYcERqGL~~~sIRFLFDGqRI~~ddTPeDLdMEDGDtIDV~leQ~GG~~  134 (207)
T 3tix_A           58 INLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLTFLYDGIEIQADQTPEDLDMEDNDIIEAHREQIGGLP  134 (207)
T ss_dssp             EEEEEE-CSSCEEEEEEETTSCTHHHHHHHHHHTTCCGGGSCEEETTEECCSSCCTTTTTCCTTEEEEECCCCCTTGG
T ss_pred             EEEEEe-cCCCEEEEEEccCChHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCHHHcCCCCCCEEEEEEeccCCCc
Confidence            357776 47889999999999999999999999999999999999999999999999999999999999999999974

>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=99.06  E-value=1.6e-09  Score=68.48  Aligned_cols=70  Identities=16%  Similarity=0.316  Sum_probs=64.5

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcC-ceeeeeCCeeccCCCccccccccCCCEEEEEE
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPD-QQRLIFAGKQLEDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~-~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~   71 (145)
                      .+.+++.....+.+.|.++++|.+|-.....+.|||++ .++|.|.|..|+.+.++.+|++.+|+.|.+++
T Consensus        11 ~~~~~~~~~~dl~f~I~~~t~v~kLi~ayc~~~~I~~~~~IrllFDGdRLdp~~tp~DlemeD~D~IDvmL   81 (82)
T 3goe_A           11 TLLLRSSKSEDLRLSIPVDFTVKDLIKRYCTEVKISFHERIRLEFEGEWLDPNDQVQSTELEDEDQVSVVL   81 (82)
T ss_dssp             EEEEEESSSCCEEEEEETTSBHHHHHHHHHHHHTCCCCTTCEEEETTEECCTTSBGGGSSCCTTCEEEEEC
T ss_pred             HHhhhccCCCCeEEEecCCCCHHHHHHHHHHHcCCCcCceEEEEEcCcccCccCChhhhCCcCCceeeeee
Confidence            45667766678999999999999999999999999998 89999999999999999999999999999875

>2pjh_A Protein NPL4, nuclear protein localization protein 4 homolog; UFD1, NPL4, AAA, protein binding, transport protein; NMR {Mus musculus}

Probab=99.00  E-value=2.9e-10  Score=72.82  Aligned_cols=69  Identities=14%  Similarity=0.229  Sum_probs=57.7

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCee---c--cCCCccccccccCCCEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQ---L--EDGRTLADYNIQKESTLHLV   70 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~---L--~d~~tL~~~gi~~~sti~l~   70 (145)
                      |.|.||+.+| ++.|++++++|+.+|+++|++.++++++.|.|.++-.+   |  .++.+|+++||++|++|+|.
T Consensus         5 m~lRvrs~~G-~~Ri~v~~~~t~~~L~~~I~~~~~i~~~~~~l~~~~~p~~~l~~~~~~~l~~lgl~hGd~l~l~   78 (80)
T 2pjh_A            5 IIIRVQSPDG-VKRITATKRETAATFLKKVAKEFGFQNNGFSVYINRNKTGEITASSSKSLHLLKIKHGDLLFLF   78 (80)
T ss_dssp             CCCEEECSSE-EEECCCCSSCCHHHHHHHHHHHTCCCTTTCCCCCSCCGGGGSSSCCCCTTTTTCCCTTCCEEC-
T ss_pred             EEEEEECCCC-CEEEEcCCcChHHHHHHHHHHHcCCCCCcceEEecCCCCCcccCCCCCCHHHcCCCCCCEEEEe
Confidence            5688888876 77788999999999999999999999888777654443   3  47789999999999999874

>3v7o_A Minor nucleoprotein VP30; ssgcid, seattle structural genomics center for infectious disease, SMT, transcription; 2.25A {Reston ebolavirus}

Probab=98.93  E-value=1.2e-10  Score=86.82  Aligned_cols=77  Identities=13%  Similarity=0.314  Sum_probs=1.9

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCcc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAK   78 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~~   78 (145)
                      |+|.| ..+|....+.|.+++++..|++..+++.|++++.++++|+|+.+.++.|.+++++++|++|++++...||..
T Consensus        22 InLKV-~qdGseV~FKIKrtTpL~KLM~AYcERqGLs~~siRFLFDGqRI~dddTPadL~MEDGDtIDV~leQ~GG~~   98 (227)
T 3v7o_A           22 INLKV-SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIGGLT   98 (227)
T ss_dssp             ---------------------------------------------------------------------------CCC
T ss_pred             EEEEE-eCCCCEEEEEEccCChHHHHHHHHHHHhCCCccceEEEECCEecCCCCCHHHcCCCCCCEEEEEecccCCch
Confidence            56777 668888999999999999999999999999999999999999999999999999999999999999999863

>2jxx_A Nfatc2-interacting protein; nuclear factor of activated T-cells, cytoplasmic 2- interacting protein, ubiquitin like homologue; NMR {Homo sapiens}

Probab=98.76  E-value=5.1e-08  Score=64.53  Aligned_cols=69  Identities=13%  Similarity=0.286  Sum_probs=64.1

Q ss_pred             EEEEEeCCCC-EEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEE
Q 032224            2 QIFVKTLTGK-TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV   70 (145)
Q Consensus         2 ~I~Vk~~~g~-~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~   70 (145)
                      .|.|+..+|. .+.+.|..++++..|....+++.|++++..+++|+|..|.++.|..++++.+|++|.+.
T Consensus        27 ~LkV~~~dg~~~v~fkIk~~t~l~kLm~aY~~~~g~~~~~vrF~FDG~rI~~~~TP~dLdMEDgD~IDv~   96 (97)
T 2jxx_A           27 QLRVQGKEKHQTLEVSLSRDSPLKTLMSHYEEAMGLSGRKLSFFFDGTKLSGRELPADLGMESGDLIEVW   96 (97)
T ss_dssp             EEEEEESSSSCEEEEEEETTSCHHHHHHHHHHHTTCSSSCCEEEETTEECCSCSCHHHHTCCTTEEEEEE
T ss_pred             EEEEEcCCCCEEEEEEECCCChHHHHHHHHHHHHCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEe
Confidence            5777777884 88999999999999999999999999999999999999999999999999999999875

>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=98.59  E-value=1.3e-07  Score=70.52  Aligned_cols=76  Identities=13%  Similarity=0.329  Sum_probs=70.0

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCcc
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAK   78 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~~   78 (145)
                      .|.|+. +++...+.+..++++..|++..+++.|+++++++++|+|+.+.++.+..++.+.++++|.+.....||..
T Consensus        23 ~ikv~~-~~~~v~~~i~~~~~l~kl~~~y~~~~g~~~~~~~f~fdG~~i~~~~Tpk~L~~ed~d~I~~~~eq~Gg~t   98 (209)
T 3uf8_A           23 NLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIGGST   98 (209)
T ss_dssp             EEEEEC-SSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGCEEEETTEECCTTCCTTTTTCCTTEEEEEECSCTTCCC
T ss_pred             EEEEEc-CCCEEEEEEeeCCHHHHHHHHHHHhhCCChheEEEEECCEeccCCCChHHhhhcccccchhhcccccccc
Confidence            466665 6778899999999999999999999999999999999999999999999999999999999999988753

>3ix6_A TS, tsase, thymidylate synthase; niaid, ssgcid, seattle structural center for infectious DISE brucellosis, orchitis, epididymitis, mastitis; 2.20A {Brucella melitensis}

Probab=98.54  E-value=9.2e-09  Score=82.35  Aligned_cols=76  Identities=13%  Similarity=0.333  Sum_probs=1.4

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCcc
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAK   78 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~~   78 (145)
                      +|.|+. +|....+.|..++++..|++..+++.|++++.++++|+|+.|.++.|.+++++++|++|+++....||.+
T Consensus        23 ~LKV~~-~g~~v~FkIk~~t~l~kLm~aY~~r~G~~~~~~rFlFdG~rI~~~~TP~~L~MEDgD~Idv~~~Q~g~~~   98 (360)
T 3ix6_A           23 NLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIGGMR   98 (360)
T ss_dssp             ---------------------------------------------------------------------------CH
T ss_pred             EEEEec-CCcEEEEEEecCChHHHHHHHHHHHhCCCcceEEEEECCeECCCCCChHHcCCCccchhhhhhccCchHH
Confidence            566665 5678889999999999999999999999999999999999999999999999999999999999999976

>4efo_A Serine/threonine-protein kinase TBK1; ubiquitin like domain, transferase; 1.77A {Homo sapiens}

Probab=98.50  E-value=5.6e-07  Score=59.06  Aligned_cols=53  Identities=21%  Similarity=0.309  Sum_probs=44.8

Q ss_pred             CCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeec--cCCCccccccc
Q 032224            9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQL--EDGRTLADYNI   61 (145)
Q Consensus         9 ~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L--~d~~tL~~~gi   61 (145)
                      .+..+.+.+.+++||..||++|++.+|||+++|+|+|.|+.|  +.+..-..|.-
T Consensus        22 ~a~~h~v~I~~~etv~~~ke~V~eqTgIp~~~Q~LL~eg~~l~l~p~~~a~~~p~   76 (94)
T 4efo_A           22 QMTAHKIYIHSYNTATIFHELVYKQTKIISSNQELIYEGRRLVLEPGRLAQHFPK   76 (94)
T ss_dssp             TTEEEEEEEETTCBHHHHHHHHHHHHCCCGGGEEEEETTEEECCCTTCBGGGSCC
T ss_pred             cceEEEEEeccchHHHHHHHHHHHHhCCCHHHHHHHhCCCccccCCCCccccCCC
Confidence            466789999999999999999999999999999999999765  45555555543

>2l76_A Nfatc2-interacting protein; ubiquitin-like domain, structural genomics, PSI-biology, Pro structure initiative; NMR {Homo sapiens}

Probab=98.46  E-value=1.3e-06  Score=57.19  Aligned_cols=69  Identities=14%  Similarity=0.306  Sum_probs=64.3

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEE
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~   71 (145)
                      .|.|+. +|....+.+-.++.+..|....+++.|+++++.+++|+|..+.++.|-.++++.++++|.+++
T Consensus        23 niKV~~-~g~ev~FkIK~tt~l~KL~~aYc~r~gv~~~sirFlfDG~rI~~~~TP~~L~meD~DiID~~~   91 (95)
T 2l76_A           23 PLKIRC-RADLVRLPLRMSEPLQSVVDHMATHLGVSPSRILLLFGETELSPTATPRTLKLGVADIIDCVV   91 (95)
T ss_dssp             EEEEEC-SSSEEEEEECSSSCTHHHHHHHHHHHTSCGGGEEEEETTEECCTTSCHHHHTCCSSCEEEEEE
T ss_pred             EEEEEc-CCcEEEEEEecCChHHHHHHHHHhhcCCChhhEEEEECCcCCCCCCCHhHcCCCCCCEEEEEE
Confidence            567774 678899999999999999999999999999999999999999999999999999999999875

>2al3_A TUG long isoform; TUG UBL1 insulin, endocytosis/exocytosis complex; NMR {Mus musculus} SCOP: d.15.1.2

Probab=98.35  E-value=2.1e-06  Score=55.70  Aligned_cols=71  Identities=18%  Similarity=0.210  Sum_probs=66.8

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~   71 (145)
                      |.|+|-..+++...+.|.|++|+.++-++..+++|+++++-.|.|+++.|+-+..+.-.||.+++.|.++.
T Consensus        10 m~v~Vl~~n~rr~~VKvtp~t~L~~VL~eaC~K~gl~~~~~~Lkh~~k~lDLSlpfRlsgLpnnAkLELv~   80 (90)
T 2al3_A           10 SAVSVLAPNGRRHTVKVTPSTVLLQVLEDTCRRQDFNPSEYDLKFQRTVLDLSLQWRFANLPNNAKLEMVP   80 (90)
T ss_dssp             CCEEEECTTSCEEEECCCTTSBHHHHHHHHHHHTTCCGGGCEEEETTEEESSSCBHHHHCCCSSCEEEEEC
T ss_pred             cEEEEEcCCCcEEEEEECCCCCHHHHHHHHHHHhCCChhhCeEEeCCEeccccceeEecCCCCCCEEEEEE
Confidence            57889889999999999999999999999999999999999999999999999999999999999999874

>2kc2_A Talin-1, F1; FERM, adhesion, cell membrane, cell projection, cytoplasm, cytoskeleton, membrane, phosphoprotein, structural protein; NMR {Mus musculus}

Probab=98.34  E-value=1.5e-06  Score=60.14  Aligned_cols=69  Identities=28%  Similarity=0.402  Sum_probs=57.6

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcC-------------------------------------ceeee
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPD-------------------------------------QQRLI   44 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~-------------------------------------~q~L~   44 (145)
                      .|.|+.++|+..++.|+.+.||++++..|....||+..                                     .++|.
T Consensus        13 ~LkV~llDg~~ktl~VD~S~~V~~lv~~Ic~kigI~n~~ey~L~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~k~kL~   92 (128)
T 2kc2_A           13 PLKIRMLDGTVKTIMVDDSKTVTDMLMTICARIGITNHDEYSLVRELMEEKKDEGTGTLRKDKTLLRDEKKMEKLKQKLH   92 (128)
T ss_dssp             EEEEECTTSCEEEEEEEECSSHHHHHHHHHHHHTCCCCSSEEEEEECCCCCCCCCSSCCSSSSSCSCCSCCSCSSCCSCC
T ss_pred             cEEEEcCCCCEEEEEeCCCcCHHHHHHHHHHHhCCCCcccccccccccccccccCchhhccccccccchhHHHHHHHHhc
Confidence            37899999999999999999999999999999999854                                     33432


Q ss_pred             e--CCeeccCCCccccccccCCCEEEEE
Q 032224           45 F--AGKQLEDGRTLADYNIQKESTLHLV   70 (145)
Q Consensus        45 ~--~G~~L~d~~tL~~~gi~~~sti~l~   70 (145)
                      .  .+..|+++.+|.++||.++++|.|-
T Consensus        93 ~dd~~~WLD~srtL~EQGI~e~~tllLR  120 (128)
T 2kc2_A           93 TDDELNWLDHGRTLREQGVEEHETLLLR  120 (128)
T ss_dssp             CSSSEEEECSSSCHHHHTCCTTSEEEEE
T ss_pred             ccCCCCcccCCCcHHHcCCCCCCEEEEE
Confidence            2  2256788999999999999997654

>4da1_A Protein phosphatase 1K, mitochondrial; metal-ION-assisted catalysis, dehydrogenase phosphatase, hydrolase; 2.38A {Homo sapiens} PDB: 3qht_A 1l2n_A

Probab=98.29  E-value=9e-08  Score=77.29  Aligned_cols=76  Identities=12%  Similarity=0.319  Sum_probs=0.0

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCcc
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAK   78 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~~   78 (145)
                      .|.|+. ++....+.|..++++..|+...+++.|+++.+++++|+|+.|.++.|.+++++.+|++|.+++...||..
T Consensus        32 ~lkv~~-~~~~~~~~i~~~~~~~~l~~~y~~~~g~~~~~~~f~f~G~~i~~~~Tp~~l~med~d~i~~~~~q~gg~n  107 (389)
T 4da1_A           32 NLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQAPEDLDMEDNDIIEAHREQIGGEN  107 (389)
T ss_dssp             -----------------------------------------------------------------------------
T ss_pred             EEEEec-CCcEEEEEECCCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCCCHHHcCCCCCCEeeeeeccccccc
Confidence            455555 5677889999999999999999999999999999999999999999999999999999999999999874

>2bps_A YUKD protein; ubiquitin-like protein, ubiquitin; 2.7A {Bacillus subtilis}

Probab=98.26  E-value=4.3e-06  Score=53.37  Aligned_cols=68  Identities=15%  Similarity=0.224  Sum_probs=58.3

Q ss_pred             EEEEEe--CCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcC-----ceeeeeCCeeccCCCccccccccCCCEEEE
Q 032224            2 QIFVKT--LTGKTITLEVESSDTIDNVKAKIQDKEGIPPD-----QQRLIFAGKQLEDGRTLADYNIQKESTLHL   69 (145)
Q Consensus         2 ~I~Vk~--~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~-----~q~L~~~G~~L~d~~tL~~~gi~~~sti~l   69 (145)
                      .|+|..  ..++++.++++...||..|.+.+.+.++++..     .+++.-.+..|.++..|++|+|.+|+.|.+
T Consensus         6 ~ITidl~~y~~~~~DLRIP~~~tvK~Li~~l~ea~~l~~~~~~~~~irv~NK~~~L~~~~~L~d~~ItnGD~Lei   80 (81)
T 2bps_A            6 DITIDLKHYNGSVFDLRLSDYHPVKKVIDIAWQAQSVSMPPREGHWIRVVNKDKVFSGECKLSDCGITNGDRLEI   80 (81)
T ss_dssp             EEEEECTTTTCCEEEEEEETTSBTTHHHHHHHHHSCCCSCCCTTCEEEEGGGTEEEETTSBTGGGTCCTTCEEEE
T ss_pred             EEEEEeeccCCceEEEECCCchhHHHHHHHHHHHhCCCcCCCCCCEEEEecCCEEEcCCCEEeeCCcCCCCEEEE
Confidence            566654  47889999999999999999999999987652     356778888999999999999999999875

>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=98.09  E-value=2.4e-05  Score=49.92  Aligned_cols=68  Identities=19%  Similarity=0.383  Sum_probs=57.9

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee--eCCeec---cCCCccccccccCCCEEEEE
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQL---EDGRTLADYNIQKESTLHLV   70 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~--~~G~~L---~d~~tL~~~gi~~~sti~l~   70 (145)
                      .|.||.++|+.+.-.+..++||.+|.+.|.. .+.++....|+  |-.+.|   +.+.+|.++|+.+.++|.|.
T Consensus         9 ~i~iRlpdG~r~~~~F~~~~tl~~v~~fv~~-~~~~~~~f~L~t~fPrk~l~~~d~~~TL~e~gL~p~a~L~ve   81 (84)
T 3qx1_A            9 KLRIRTPSGEFLERRFLASNKLQIVFDFVAS-KGFPWDEYKLLSTFPRRDVTQLDPNKSLLEVKLFPQETLFLE   81 (84)
T ss_dssp             EEEEECTTSCEEEEEEETTSBHHHHHHHHHH-TTCCTTTEEEECSSSCCBGGGSCTTSBTTTTTCCSEEEEEEE
T ss_pred             EEEEECCCCCEEEEEeCCCCCHHHHHHHHHH-cCCCCCCeEEEeCCCCCCCcCCCCCCCHHHCCCCCCCEEEEE
Confidence            5889999999988899999999999999988 56777778887  556777   35689999999999998775

>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=97.79  E-value=0.00019  Score=48.02  Aligned_cols=69  Identities=16%  Similarity=0.255  Sum_probs=57.8

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee--eCCeecc---CCCccccccccCCCEEEEE
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLE---DGRTLADYNIQKESTLHLV   70 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~--~~G~~L~---d~~tL~~~gi~~~sti~l~   70 (145)
                      .|.||.++|..+.-.+..++||.+|.+-|....+.+.....|+  |-.+.|.   .+.+|.++|+.+.++|.+.
T Consensus        15 ~IqIRlpdG~rl~~rF~~~~tl~~v~~fV~~~~~~~~~~f~L~t~fPrk~l~~~d~~~TL~elgL~psa~L~v~   88 (109)
T 2dzk_A           15 RIQFRLPDGSSFTNQFPSDAPLEEARQFAAQTVGNTYGNFSLATMFPRREFTREDYKRRLLDLELAPSASVVLL   88 (109)
T ss_dssp             EEEEECSSSCEEEEEECTTSBHHHHHHHHHHHHTTSSCSCEEECSSSCCBCCTTTTTSBTGGGTCSSEEEEEEE
T ss_pred             EEEEECCCCCEEEEEeCCCCCHHHHHHHHHhccCCCCCceEEEcCCCCcCCcccccCCCHHHCCCCCceEEEEE
Confidence            5889999999999999999999999999999877776667776  5566675   3689999999988777654

>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=97.67  E-value=0.0002  Score=49.08  Aligned_cols=68  Identities=19%  Similarity=0.336  Sum_probs=57.6

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee--eCCeec--c-CCCccccccccCCCEEEEE
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQL--E-DGRTLADYNIQKESTLHLV   70 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~--~~G~~L--~-d~~tL~~~gi~~~sti~l~   70 (145)
                      .|.||.++|..+.-.+..++||.+|.+.|... +.++....|+  |-.+.|  + .+.+|.++|+.+.++|.|.
T Consensus        45 ~IqIRlPdG~rl~~rF~~~~tl~~V~~fV~~~-~~~~~~F~L~t~fPrk~l~~~d~~~TL~e~gL~psa~Liv~  117 (124)
T 1wj4_A           45 QLMLRYPDGKREQITLPEQAKLLALVKHVQSK-GYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQ  117 (124)
T ss_dssp             EEEEECTTSCEEEEEEETTSCHHHHHHHHHHH-HCCTTTEEEECSSSCCEETSSCSSSCTTTTTCCSSBCCEEE
T ss_pred             EEEEECCCCCEEEEEeCCCCCHHHHHHHHHhc-CCCCCCeEEecCCCCcCCccCCCCCCHHHCCCCCceEEEEE
Confidence            58899999999999999999999999999886 7777777777  567778  3 4789999999988887765

>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=97.30  E-value=0.0012  Score=44.09  Aligned_cols=69  Identities=19%  Similarity=0.243  Sum_probs=56.3

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee--eCCeecc--CCCccccccccCCCEEEEEE
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLE--DGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~--~~G~~L~--d~~tL~~~gi~~~sti~l~~   71 (145)
                      +|.||.++|+.+.-.+..++||.+|.+-|... +..+....|+  |-.+.|.  .+.+|.++||.+.++|.|..
T Consensus        25 ~IqiRlpdG~r~~rrF~~~~tl~~v~~fv~~~-~~~~~~f~L~t~fPrk~l~~d~~~TL~e~gL~p~a~L~Ve~   97 (109)
T 2cr5_A           25 TVALRCPNGRVLRRRFFKSWNSQVLLDWMMKV-GYHKSLYRLSTSFPRRALEVEGGSSLEDIGITVDTVLNVEE   97 (109)
T ss_dssp             EEEEECTTSCEEEEEEESSSBTHHHHHHHHHH-TCCTTTEEEECSSSCCBCCCCSSCBHHHHTCSSCEEEEEEE
T ss_pred             EEEEECCCCCEEEEEeCCCCCHHHHHHHHHhc-CCCCCCeEEEeCCCCcCCCCCCCCCHHHcCCCCCeEEEEEe
Confidence            58899999999888999999999999999865 5555667776  5566775  46899999999988887653

>1s3s_G P47 protein; AAA ATPase, protein-protein complex, UBX domain, protein binding; HET: ADP; 2.90A {Rattus norvegicus} SCOP: d.15.1.2 PDB: 1i42_A 1jru_A

Probab=97.18  E-value=0.0013  Score=45.07  Aligned_cols=66  Identities=21%  Similarity=0.370  Sum_probs=53.0

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHh-CCCcCceeee--eCCeeccC-CCccccccccCCCEE
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKE-GIPPDQQRLI--FAGKQLED-GRTLADYNIQKESTL   67 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~-gip~~~q~L~--~~G~~L~d-~~tL~~~gi~~~sti   67 (145)
                      .|.||..+|..+.-.+..++||.+|.+.|.... +.+.....|+  |-.+.|+| +.+|.++|+.+...|
T Consensus        54 ~IqIRlpdG~rl~~rF~~~~tl~~v~~fV~~~~~~~~~~~f~L~t~fPrk~l~d~~~TL~eagL~psavl  123 (127)
T 1s3s_G           54 NIQIRLADGGRLVQKFNHSHRISDIRLFIVDARPAMAATSFVLMTTFPNKELADENQTLKEANLLNAVIV  123 (127)
T ss_dssp             CEEEEETTTTEEEEECCSSCBHHHHHHHHHHHCSGGGTSCEEEEETTTTEECCSTTCBHHHHTCSSCEEE
T ss_pred             EEEEECCCCCEEEEEeCCCCCHHHHHHHHHHhCcCCCCCCeEEecCCCCCCCCCCCCcHHHCCCcCceEE
Confidence            588999999999999999999999999998863 3445566676  66778864 699999999875443

>2l32_A Small archaeal modifier protein 2; protein BIN; NMR {Haloferax volcanii}

Probab=97.05  E-value=0.0015  Score=40.62  Aligned_cols=66  Identities=15%  Similarity=0.357  Sum_probs=50.0

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGA   77 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~   77 (145)
                      |+|+|+..+.....+++++..||++|-+.    .|+|++..-+..||+.+..+..      .+|++|.++ +.-||+
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 MNVTVEVVGEETSEVAVDDDGTYADLVRA----VDLSPHEVTVLVDGRPVPEDQS------VEVDRVKVL-RLIKGG   66 (74)
T ss_dssp             CEEEEECSSSSEEEEECSTTCSHHHHHHT----TCCCSSCCCEECCCCCCCTTSS------SCCCCEEEC-SSCSCC
T ss_pred             CEEEEEEeCccceeEEcCCCCcHHHHHHH----cCCCcceEEEEECCEECCHHHC------CCCCEEEEE-Eeeccc
Confidence            89999987555667899999999998764    6899988877789998865552      248888765 344443

>1ryj_A Unknown; beta/alpha protein, structural genomics, protein structure initiative, OCSP, NESG, PSI; NMR {Methanothermococcusthermolithotrophicus} SCOP: d.15.3.2

Probab=97.05  E-value=0.0061  Score=37.24  Aligned_cols=66  Identities=21%  Similarity=0.270  Sum_probs=48.1

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|.... ....++++...||.+|.+.+    ++++....+..||..+..+.     -+++|+.|.++-...||
T Consensus         5 m~i~vNg~~-~~~~~~~~~~~tv~~Ll~~l----~~~~~~v~vavN~~~v~~~~-----~L~~gD~V~ii~~V~GG   70 (70)
T 1ryj_A            5 MKFTVITDD-GKKILESGAPRRIKDVLGEL----EIPIETVVVKKNGQIVIDEE-----EIFDGDIIEVIRVIYGG   70 (70)
T ss_dssp             EEEEEEETT-EEEEEEESSCCBHHHHHHHT----TCCTTTEEEEETTEECCTTS-----BCCTTCEEEEEECTTCC
T ss_pred             EEEEEeCcc-CceeEECCCCCcHHHHHHHh----CCCCCCEEEEECCEECCCcc-----cCCCCCEEEEEeccccC
Confidence            667776532 24567888889999999876    56677777779999887655     56789999877554444

>2daj_A KIAA0977 protein, COBL-like 1; ubiquitin-like domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=96.79  E-value=0.0024  Score=40.73  Aligned_cols=62  Identities=13%  Similarity=0.239  Sum_probs=53.3

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeee---CCeeccCCCccccccccC
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF---AGKQLEDGRTLADYNIQK   63 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~---~G~~L~d~~tL~~~gi~~   63 (145)
                      ++.|.....+...+.|+|..++++|--.|.++..+.|+...|.-   .+..|+-+.+|.||||++
T Consensus        12 RLvVNy~~tQKtVvRVSP~vpL~ellp~IC~Kcefdp~~~~Ll~d~~~~e~LdLskSLndlgirE   76 (91)
T 2daj_A           12 RVVINFKKTQKTIVRVSPHASLQELAPIICSKCEFDPLHTLLLKDYQSQEPLDLTKSLNDLGLRE   76 (91)
T ss_dssp             EEEEEETTTEEEEEEECSSSCTTTHHHHHHHHTTCCTTSEEEESCSSCCCBCCTTSCHHHHTCSE
T ss_pred             EEEEeecCcceeEEEeCCCCcHHHHHHHHhhcccCChhhEEEecCCCCCcccchhcchhhhhhhh
Confidence            45666666677889999999999999999999999999888874   456889999999999986

>4a3p_A Ubiquitin carboxyl-terminal hydrolase 15; 1.40A {Homo sapiens} PDB: 4a3o_A 3pv1_A 3ppa_A* 3t9l_A 3lmn_A

Probab=96.78  E-value=0.0044  Score=46.06  Aligned_cols=65  Identities=23%  Similarity=0.413  Sum_probs=53.2

Q ss_pred             EEEEEEcCCCcHHHHHHHHHHHhCCCcC-ceeee--e-CC--eeccC-CCccccccccCCCEEEEEEEecCC
Q 032224           12 TITLEVESSDTIDNVKAKIQDKEGIPPD-QQRLI--F-AG--KQLED-GRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus        12 ~~~l~V~~~~TV~~LK~~I~~~~gip~~-~q~L~--~-~G--~~L~d-~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      .+++.++..+|+.+|++.+...++|+++ ..||.  + .+  ..|+| +.+|.+++|.++..|.|-++...|
T Consensus       141 ~~~~~~Sk~~ti~~l~~~~~~~~~i~~~~~~RlW~~~~~~~~~~L~~~~~tl~~~~l~~~Q~illE~r~~dg  212 (217)
T 4a3p_A          141 VVTRRFSKADTIDTIEKEIRKIFSIPDEKETRLWNKYMSNTFEPLNKPDSTIQDAGLYQGQVLVIEQKNEDG  212 (217)
T ss_dssp             EEEEEECTTSBHHHHHHHHHHHTTCCTTSCEEEEEEEETTEEEECCCTTSBHHHHTCCTTCEEEEEECCCC-
T ss_pred             ceEEEEcccchHHHHHHHHHHHhCCCCCCceEEEEecCCCCeeecCCCCCCHHHhCCCCCCEEEEEEecCCC
Confidence            3567889999999999999999999997 68887  2 22  35665 579999999999999999886655

>2zkr_2 60S ribosomal protein L37E; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} SCOP: i.1.1.1

Probab=96.71  E-value=0.0006  Score=44.44  Aligned_cols=23  Identities=22%  Similarity=0.700  Sum_probs=20.9

Q ss_pred             ecccCCCCCCCccEEeceeCCcccccCC
Q 032224          117 LRKECPNAECGAGTFMASHFDRHYCEFV  144 (145)
Q Consensus       117 l~~~c~~~~c~~g~~ma~h~~~~~c~~~  144 (145)
                      ....||  +||.++|   |.++++||+|
T Consensus        15 tH~lCr--RCG~~sf---H~qK~~CgkC   37 (97)
T 2zkr_2           15 THTLCR--RCGSKAY---HLQKSTCGKC   37 (97)
T ss_dssp             CEECCT--TTCSSCE---ETTSCCBTTT
T ss_pred             CCCcCC--CCCCccC---cCccccCccc
Confidence            567899  9999998   9999999987

>3jyu_A Ubiquitin carboxyl-terminal hydrolase; domain in ubiquitin-specific peptidases (DUSP), proto- oncogene, ubiquitin-fold, UBL, protease, thioesterase; HET: 1PS; 2.37A {Mus musculus}

Probab=96.60  E-value=0.011  Score=44.26  Aligned_cols=64  Identities=20%  Similarity=0.312  Sum_probs=53.4

Q ss_pred             EEEEEcCCCcHHHHHHHHHHHhCCCcC-ceeeee-CC----eeccC-CCccccccccCCCEEEEEEEecCC
Q 032224           13 ITLEVESSDTIDNVKAKIQDKEGIPPD-QQRLIF-AG----KQLED-GRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus        13 ~~l~V~~~~TV~~LK~~I~~~~gip~~-~q~L~~-~G----~~L~d-~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      +++.++..+|+.+|++.+...++|+++ ..||.. .+    ..|.| +.+|.+++|.++..|.+-++...|
T Consensus       154 ~~~~~Sk~~ti~~l~~~~~~~~~i~~~~~~RLW~~~~~~~~~~L~~~~~tl~d~~L~~~Q~illE~r~~dg  224 (231)
T 3jyu_A          154 LSCHFSKADTIATIEKEMRKLFNIPAERETRLWNKYMSNTYEQLSKLDNTIQDAGLYQGQVLVIEPQNEDG  224 (231)
T ss_dssp             EEEEECTTCBHHHHHHHHHHHTTCCTTSCEEEEECSSSSSCEECCCTTSBTTTTTCCTTEEEEEEECCTTS
T ss_pred             EEEEecccCcHHHHHHHHHHHhCCCCCCeEEEEEecCCCCHhhhcCCCCCHHHhCCCCCCEEEEEEecCCC
Confidence            557789999999999999999999997 688873 32    35665 589999999999999999886655

>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=96.48  E-value=0.02  Score=37.11  Aligned_cols=71  Identities=13%  Similarity=0.298  Sum_probs=47.7

Q ss_pred             CEEEEEeCC------C-CEEEEEEcCCCcHHHHHHHHHHHhC-C----------CcCceeeeeCCeeccCCCcccccccc
Q 032224            1 MQIFVKTLT------G-KTITLEVESSDTIDNVKAKIQDKEG-I----------PPDQQRLIFAGKQLEDGRTLADYNIQ   62 (145)
Q Consensus         1 M~I~Vk~~~------g-~~~~l~V~~~~TV~~LK~~I~~~~g-i----------p~~~q~L~~~G~~L~d~~tL~~~gi~   62 (145)
                      |+|.|+...      | ....+++++..||.+|.+.+..... +          ......+..||+....     +.-|+
T Consensus        10 ~~v~V~~FA~lre~~g~~~~~~e~~~~~Tv~~Ll~~L~~~~p~l~~~l~~~~g~~~~~v~v~VNg~~v~~-----~~~L~   84 (98)
T 1vjk_A           10 VKVKVKYFARFRQLAGVDEEEIELPEGARVRDLIEEIKKRHEKFKEEVFGEGYDEDADVNIAVNGRYVSW-----DEELK   84 (98)
T ss_dssp             EEEEEEECTHHHHHHSSSEEEEEECTTCBHHHHHHHHHHHCGGGGGSCBCSSSCTTSSBEEEETTBCCCT-----TCBCC
T ss_pred             EEEEEEEhHHHHHHhCCCeEEEECCCCCCHHHHHHHHHhHChhHHHHhhccccccCCcEEEEECCEECCC-----CCCCC
Confidence            677887664      4 4677888888999999999987641 1          0133456678877653     45678


Q ss_pred             CCCEEEEEEEecCC
Q 032224           63 KESTLHLVLRLRGG   76 (145)
Q Consensus        63 ~~sti~l~~~~~gg   76 (145)
                      +|+.|.++....||
T Consensus        85 dGDeV~i~ppv~GG   98 (98)
T 1vjk_A           85 DGDVVGVFPPVSGG   98 (98)
T ss_dssp             TTCEEEEESCC---
T ss_pred             CCCEEEEECCCCCC
Confidence            89999887655554

>4e71_A Plexin-B2, MM1; transmembrane, signaling, RBD, structural genomics consortium, SGC, signaling protein; 2.26A {Homo sapiens}

Probab=96.44  E-value=0.023  Score=38.01  Aligned_cols=62  Identities=39%  Similarity=0.513  Sum_probs=44.2

Q ss_pred             CCEEEEEEcCCCcHHHHHHHHHHHh--CCC------cCceeeee----CCeeccCC-------------CccccccccCC
Q 032224           10 GKTITLEVESSDTIDNVKAKIQDKE--GIP------PDQQRLIF----AGKQLEDG-------------RTLADYNIQKE   64 (145)
Q Consensus        10 g~~~~l~V~~~~TV~~LK~~I~~~~--gip------~~~q~L~~----~G~~L~d~-------------~tL~~~gi~~~   64 (145)
                      +..+.+.|-..+||.++|++|-...  |.|      ++++.|-+    .|++|.|.             .||+.|+|.+|
T Consensus        23 ~~~i~vkVLdCDTItQvKeKiLd~vyk~~pyS~rP~~~~~dLEwr~g~~~~iL~D~D~ts~~~~~wkrLNTL~HY~V~dg  102 (111)
T 4e71_A           23 VDAIPVKVLNCDTISQVKEKIIDQVYRGQPCSCWPRPDSVVLEWRPGSTAQILSDLDLTSQREGRWKRVNTLMHYNVRDG  102 (111)
T ss_dssp             CCCEEEEEETTCBHHHHHHHHHHHHTC---------CCSEEEEEC--CCCEECCSSCTTSCC---CCCCCBHHHHTCCTT
T ss_pred             CCceeeeeeccCcHHHHHHHHHHHHHcCCccccCCCCCceeeEEecCCCCccccccCccceecCcceEecchhhcCCCCC
Confidence            3467888889999999999997654  444      34555654    34566542             37999999999


Q ss_pred             CEEEEEE
Q 032224           65 STLHLVL   71 (145)
Q Consensus        65 sti~l~~   71 (145)
                      ++|.++.
T Consensus       103 atl~l~~  109 (111)
T 4e71_A          103 ATLILSK  109 (111)
T ss_dssp             CEEEEEE
T ss_pred             CEEEEEe
Confidence            9998764

>1tyg_B YJBS; alpha beta barrel, protein-protein complex, THis, BIOS protein; 3.15A {Bacillus subtilis} SCOP: d.15.3.2

Probab=96.37  E-value=0.01  Score=38.07  Aligned_cols=61  Identities=13%  Similarity=0.198  Sum_probs=42.2

Q ss_pred             CCCEEEEEEcCC-CcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            9 TGKTITLEVESS-DTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         9 ~g~~~~l~V~~~-~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      +|+.  ++++.. .||.+|.+.+    ++++....+..||..+..+ ...+.-|++|+.|.++-...||
T Consensus        26 NGe~--~el~~~~~Tv~dLL~~L----~~~~~~vaVavNg~iV~~~-~~~~~~L~dGD~Vei~~~V~GG   87 (87)
T 1tyg_B           26 NGKD--VKWKKDTGTIQDLLASY----QLENKIVIVERNKEIIGKE-RYHEVELCDRDVIEIVHFVGGG   87 (87)
T ss_dssp             TTEE--ECCSSSCCBHHHHHHHT----TCTTSCCEEEETTEEECGG-GTTTSBCCSSSEEEEEEECCC-
T ss_pred             CCEE--EECCCCCCcHHHHHHHh----CCCCCCEEEEECCEECChh-hcCCcCCCCCCEEEEEcccccC
Confidence            4543  455666 8999999876    5667777777999987543 2334567899999987655554

>3rpf_C Molybdopterin converting factor, subunit 1 (MOAD); MCSG, PSI-biology, structural genomics, midwest center for S genomics, transferase; 1.90A {Helicobacter pylori}

Probab=96.36  E-value=0.014  Score=35.89  Aligned_cols=71  Identities=15%  Similarity=0.331  Sum_probs=47.7

Q ss_pred             CEEEEEeCCC-CEEEEEEcCCCcHHHHHHHHHHHhCCCc--CceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTG-KTITLEVESSDTIDNVKAKIQDKEGIPP--DQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g-~~~~l~V~~~~TV~~LK~~I~~~~gip~--~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |.|+|+.+.. +...+++ ...||.+|.+.+....++..  ....+..||+...+    .+.-+++|++|.+.....||
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 MMVEVRFFGPIKEENFFI-KANDLKELRAILQEKEGLKEWLGVCAIALNDHLIDN----LNTPLKDGDVISLLPPVCGG   74 (74)
T ss_dssp             CEEEEEECTTCCCCCEEE-ECSSHHHHHHHHHTCTTTTTTTTTCEEEESSSEECC----TTCCCCTTCEEEEECCBCCC
T ss_pred             CEEEEEEEeecceeEEee-CCCcHHHHHHHHHHCcCHHHHhhccEEEECCEEcCC----CCcCCCCCCEEEEECCCCCC
Confidence            7889987743 1134666 56899999999986533321  34556678877432    24457789999988766665

>2juo_A GA-binding protein alpha chain; OST, ubiquitin, transcription factor, ensemble, DNA-binding, nucleus, transcription regulation; NMR {Mus musculus}

Probab=96.03  E-value=0.039  Score=35.04  Aligned_cols=62  Identities=18%  Similarity=0.364  Sum_probs=54.0

Q ss_pred             EEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEec
Q 032224           13 ITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR   74 (145)
Q Consensus        13 ~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~   74 (145)
                      +.-.++-..++..||+.++.+.+++-+.-.+...+..|+++.+|.+-+++-...+.+.+...
T Consensus         5 i~qhmDI~epL~~Lk~LLe~Rl~i~L~~y~f~LQd~~L~~~k~LvdQcVqgeGlVQinvqik   66 (89)
T 2juo_A            5 VSQAIDINEPIGNLKKLLEPRLQCSLDAHEICLQDIQLDPDRSLFDQGVKTDGTVQLSVQVI   66 (89)
T ss_dssp             EEEEEESSSBGGGHHHHSHHHHCSCCSSCEEEETTEECCTTSBTTTSSCCCCSEEEEEEEEE
T ss_pred             hhhhccccCcHHHHHHHHHHHhcCCcccCeEEeeccccCCCccHHHhhcccccEEEEEEEEE
Confidence            34456778899999999999999999988888888889999999999999888888887754

>3ivf_A Talin-1; FERM domain, cell membrane, cell projection, cytoskeleton, M phosphoprotein, cell adhesion, structural protein; 1.94A {Mus musculus} PDB: 2kma_A 2kc1_A

Probab=96.01  E-value=0.046  Score=43.30  Aligned_cols=76  Identities=21%  Similarity=0.335  Sum_probs=57.5

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhC----CCcCceeeee------CCeeccCCCccccccccCCCEEEEE-
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG----IPPDQQRLIF------AGKQLEDGRTLADYNIQKESTLHLV-   70 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~g----ip~~~q~L~~------~G~~L~d~~tL~~~gi~~~sti~l~-   70 (145)
                      .+.|... +.+-++.+++++||.|.-..|.++..    .+.++--|+.      .|.-|++..+|+.|++++++.|... 
T Consensus         5 ~~~~~~~-~~~~~~~f~~~~~v~~~~~~i~e~~~~~~~~~~~~y~l~~~~~~~~~~~Wl~~~~~l~~y~~~~~~~l~~~~   83 (371)
T 3ivf_A            5 SLKISIG-NVVKTMQFEPSTMVYDACRMIRERIPEALAGPPNDFGLFLSDDDPKKGIWLEAGKALDYYMLRNGDTMEYRK   83 (371)
T ss_dssp             EEEEEET-TEEEEEEECTTCBHHHHHHHHHTTCGGGGSSCGGGEEEEECCSSGGGCEECCTTSBGGGGTCCTTCEEEEEE
T ss_pred             EEEEEec-ceeEEEEECCCCCHHHHHHHHHHhcccccCCCHHHCeEeccCCCCCcCEeccCCCCHHHhCCCCCceeeccC
Confidence            3555554 66788999999999999999987764    3556666665      3456888889999999999987665 


Q ss_pred             ------EEecCCcc
Q 032224           71 ------LRLRGGAK   78 (145)
Q Consensus        71 ------~~~~gg~~   78 (145)
                            +.+.+|..
T Consensus        84 ~~~~~~V~l~dg~~   97 (371)
T 3ivf_A           84 KQRPLKIRMLDGTV   97 (371)
T ss_dssp             CEEEEEEECTTSCE
T ss_pred             ceeEEEEECcCCCE
Confidence                  55666654

>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=95.89  E-value=0.023  Score=36.04  Aligned_cols=45  Identities=11%  Similarity=0.208  Sum_probs=38.6

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCe
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGK   48 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~   48 (145)
                      .|.|...  -++.|+|++..+..+|.++|.++.++|++...|.|...
T Consensus         7 ~VKV~~~--~tvairvp~~~~y~~L~~~l~~kL~l~~~~~~LsYk~~   51 (83)
T 1oey_A            7 TLKVHYK--YTVVMKTQPGLPYSQVRDMVSKKLELRLEHTKLSYRPR   51 (83)
T ss_dssp             EEEEESS--SEEEEEECTTCCHHHHHHHHHHHTTCCGGGCCEEECCT
T ss_pred             EEEEEEE--EEEEEECCCCCCHHHHHHHHHHHhCCCcceeEEEeeCC
Confidence            4555443  68999999999999999999999999999999999663

>2k5p_A THis protein, thiamine-biosynthesis protein; NESG, GMR137, structural genomics, PSI-2, protein structure initiative; NMR {Geobacter metallireducens gs-15} PDB: 3cwi_A

Probab=95.88  E-value=0.0084  Score=37.56  Aligned_cols=67  Identities=16%  Similarity=0.343  Sum_probs=48.2

Q ss_pred             CEEEEEeCCCCEEEEEEc--CCCcHHHHHHHHHHHhCCC-cCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCc
Q 032224            1 MQIFVKTLTGKTITLEVE--SSDTIDNVKAKIQDKEGIP-PDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGA   77 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~--~~~TV~~LK~~I~~~~gip-~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~   77 (145)
                      |+|+|   +|+.+  +++  ...||.+|-+.+    +++ +...-+..||..+..+ ...+.-+++|+.|.++--..||.
T Consensus         1 M~I~v---NGe~~--e~~~~~~~Tl~~LL~~l----~~~~~~~vAVavNg~iVpr~-~~~~~~L~dGD~IEIv~~VgGG~   70 (78)
T 2k5p_A            1 MNLTV---NGKPS--TVDGAESLNVTELLSAL----KVAQAEYVTVELNGEVLERE-AFDATTVKDGDAVEFLYFMGGGK   70 (78)
T ss_dssp             CEEEE---TTEEE--ECSSCSCEEHHHHHHHH----TCSCTTTCCEEETTEECCTT-HHHHCEECSSBCEEECCCCCCSC
T ss_pred             CEEEE---CCEEE--EcCCCCCCcHHHHHHHc----CCCCCCcEEEEECCEECChH-HcCcccCCCCCEEEEEeeecCCC
Confidence            67766   46654  455  678999998764    677 7777788999988654 24556678899999876666665

>3po0_A Small archaeal modifier protein 1; ubiquitin-like protein, protein binding; 1.55A {Haloferax volcanii} PDB: 2l83_A

Probab=95.74  E-value=0.077  Score=33.39  Aligned_cols=61  Identities=15%  Similarity=0.251  Sum_probs=43.7

Q ss_pred             CEEEEEEcCCCcHHHHHHHHHHHhC-CC----------cCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224           11 KTITLEVESSDTIDNVKAKIQDKEG-IP----------PDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus        11 ~~~~l~V~~~~TV~~LK~~I~~~~g-ip----------~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      ....++++...||.+|.+.+..... +.          .....+..||+....     +.-+++|+.|.+.....||
T Consensus        18 ~~~~~~~~~~~Tv~~ll~~L~~~~p~~~~~~l~~~g~l~~~~~v~VN~~~v~~-----~~~l~~gDeV~i~Ppv~GG   89 (89)
T 3po0_A           18 RTVRVDVDGDATVGDALDALVGAHPALESRVFGDDGELYDHINVLRNGEAAAL-----GEATAAGDELALFPPVSGG   89 (89)
T ss_dssp             SEEEEECCTTCBHHHHHHHHHHHCGGGHHHHBCTTSCBCTTSEEEETTEECCT-----TSBCCTTCEEEEECCCSCC
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHCcHHHHHHhccCCcccccEEEEECCEECCC-----CcccCCCCEEEEECCCCCC
Confidence            5678888888999999999987652 10          012466678887765     3456789999988766665

>3h6n_A Plexin-D1; structural genomics consortium, SGC, membrane, transmembrane, receptor, alternative splicing, cell membrane, glycoprotein, polymorphism; 2.00A {Homo sapiens}

Probab=95.73  E-value=0.098  Score=35.71  Aligned_cols=64  Identities=27%  Similarity=0.387  Sum_probs=46.6

Q ss_pred             CCCEEEEEEcCCCcHHHHHHHHHHHh--CCCc------Cceeeee----CCe-eccCC-------------Ccccccccc
Q 032224            9 TGKTITLEVESSDTIDNVKAKIQDKE--GIPP------DQQRLIF----AGK-QLEDG-------------RTLADYNIQ   62 (145)
Q Consensus         9 ~g~~~~l~V~~~~TV~~LK~~I~~~~--gip~------~~q~L~~----~G~-~L~d~-------------~tL~~~gi~   62 (145)
                      ++..+.+.|-..+||.++|++|-+..  ++|.      +++.|-+    .|+ +|.|.             .||..|+|.
T Consensus        15 ~~~~i~VkVLdCDTItQvKeKiLd~vyk~~p~S~rP~~~~~dLEwr~g~~~~~iL~D~D~ts~~~~~~krLNTL~HY~V~   94 (127)
T 3h6n_A           15 GMDSLSVRAMDTDTLTQVKEKILEAFCKNVPYSQWPRAEDVDLEWFASSTQSYILRDLDDTSVVEDGRKKLNTLAHYKIP   94 (127)
T ss_dssp             CCCCEEEEEETTSBHHHHHHHHHHHHSTTSCGGGSCCGGGEEEEEECSSSCEEECCSSSTTSCEETTEECCCBTTTTTCC
T ss_pred             CCCceeeeeeccCchhhhhHHHHHHHhccCCcccCCCCcccceEEecCCCCceEeecCCCcceecCceeEeccccccCCC
Confidence            34568888889999999999997664  4543      4566665    233 36542             379999999


Q ss_pred             CCCEEEEEEE
Q 032224           63 KESTLHLVLR   72 (145)
Q Consensus        63 ~~sti~l~~~   72 (145)
                      +|++|.+..+
T Consensus        95 dgatv~l~~~  104 (127)
T 3h6n_A           95 EGASLAMSLI  104 (127)
T ss_dssp             TTCEEEEEEC
T ss_pred             CCCEEEEEEc
Confidence            9999988744

>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=95.68  E-value=0.056  Score=34.37  Aligned_cols=74  Identities=16%  Similarity=0.219  Sum_probs=47.3

Q ss_pred             CEEEEEeCC------CCEEEEEEcCCCcHHHHHHHHHHHhCC------C-------cCceeeeeCCeeccCCCccccccc
Q 032224            1 MQIFVKTLT------GKTITLEVESSDTIDNVKAKIQDKEGI------P-------PDQQRLIFAGKQLEDGRTLADYNI   61 (145)
Q Consensus         1 M~I~Vk~~~------g~~~~l~V~~~~TV~~LK~~I~~~~gi------p-------~~~q~L~~~G~~L~d~~tL~~~gi   61 (145)
                      |+|+|+.+.      |....+++ +..||.+|.+.+.....-      .       .....+..||+...+..-+ +.-+
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-SGDTLGAVISDLEANYSGISERLMDPSSPGKLHRFVNIYVNDEDVRFSGGL-ATAI   78 (93)
T ss_dssp             -CEEEECCGGGGGGTTTCSEEEE-CCSBHHHHHHHHHHHSTTHHHHHBCSSSTTSBCTTEEEEETTEEGGGTTGG-GCBC
T ss_pred             CEEEEEEeHHHHHHhCCCeEEec-CCCCHHHHHHHHHHHChhHHHHHhccccCCcccCCEEEEECCEEccCcCCC-CcCC
Confidence            778887653      33334664 458999999999877520      0       0124566788776542222 4567


Q ss_pred             cCCCEEEEEEEecCC
Q 032224           62 QKESTLHLVLRLRGG   76 (145)
Q Consensus        62 ~~~sti~l~~~~~gg   76 (145)
                      ++|++|.++....||
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            899999988777765

>1f0z_A THis protein; ubiquitin fold, transport protein; NMR {Escherichia coli} SCOP: d.15.3.2 PDB: 1zud_2

Probab=95.62  E-value=0.017  Score=34.67  Aligned_cols=66  Identities=15%  Similarity=0.261  Sum_probs=44.6

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|   +|+.+  +++...||.+|.+.+    ++++....+..||..+..+ ...+.-+++|+.|.++-...||
T Consensus         1 m~i~v---Ng~~~--~~~~~~tv~~ll~~l----~~~~~~v~vavN~~~v~~~-~~~~~~L~~gD~v~i~~~V~GG   66 (66)
T 1f0z_A            1 MQILF---NDQAM--QCAAGQTVHELLEQL----DQRQAGAALAINQQIVPRE-QWAQHIVQDGDQILLFQVIAGG   66 (66)
T ss_dssp             CCEEE---SSCEE--CCCTTCCHHHHHHHH----TCCCSSEEEEETTEEECHH-HHTTCCCCTTEEECEEESCCCC
T ss_pred             CEEEE---CCEEE--EcCCCCcHHHHHHHc----CCCCCCEEEEECCEECCch-hcCCcCCCCCCEEEEEeecccC
Confidence            55655   46644  556778999999876    5667777777899887532 1223456789999877554444

>2r2o_A Plexin-B1; effector domain, structural genomics, structural GEN consortium, SGC, glycoprotein, membrane, phosphorylation, R secreted, transmembrane; 2.00A {Homo sapiens} PDB: 2rex_A* 2jph_A

Probab=95.59  E-value=0.071  Score=36.90  Aligned_cols=62  Identities=31%  Similarity=0.474  Sum_probs=46.1

Q ss_pred             CEEEEEEcCCCcHHHHHHHHHHHh--CCCc------Cceeeee----CCe-eccCC-------------CccccccccCC
Q 032224           11 KTITLEVESSDTIDNVKAKIQDKE--GIPP------DQQRLIF----AGK-QLEDG-------------RTLADYNIQKE   64 (145)
Q Consensus        11 ~~~~l~V~~~~TV~~LK~~I~~~~--gip~------~~q~L~~----~G~-~L~d~-------------~tL~~~gi~~~   64 (145)
                      ..+++.|-..+||.++|++|-+..  |+|-      +++-|-+    .|+ .|.|.             .||+.|+|.+|
T Consensus        41 ~~i~VkVLdCDTItQvKeKiLDavYk~~PySqRP~~~d~dLEwr~g~~g~liL~D~D~tS~~~~~wkrLNTL~HY~V~Dg  120 (138)
T 2r2o_A           41 QGVPVKVLDCDTISQAKEKMLDQLYKGVPLTQRPDPRTLDVEWRSGVAGHLILSDEDVTSEVQGLWRRLNTLQHYKVPDG  120 (138)
T ss_dssp             CCEEEEEETTCBHHHHHHHHHHHHTTTSCGGGCCCGGGEEEEEECSSSCEEEECSSSTTCCEETTEEECCBHHHHTCCTT
T ss_pred             CceeEEEeccccHHHHHHHHHHHHHcCCccccCCCccceeEEEecCCcCceEeeccCCcccccCCceeecchhccCCCCC
Confidence            458889999999999999998765  4543      4455544    343 46543             27999999999


Q ss_pred             CEEEEEEE
Q 032224           65 STLHLVLR   72 (145)
Q Consensus        65 sti~l~~~   72 (145)
                      ++|.++.+
T Consensus       121 a~l~l~~~  128 (138)
T 2r2o_A          121 ATVALVPC  128 (138)
T ss_dssp             CEEEEEEC
T ss_pred             CEEEEEEC
Confidence            99988754

>4e74_A Plexin-A4; RBD, structural genomics, structural genomics consor SGC, signaling protein; 1.58A {Homo sapiens} PDB: 3q3j_A*

Probab=94.83  E-value=0.12  Score=34.85  Aligned_cols=62  Identities=32%  Similarity=0.503  Sum_probs=44.5

Q ss_pred             CEEEEEEcCCCcHHHHHHHHHHHh--CCCc------Cceeeee-CC---e-eccCC-------------CccccccccCC
Q 032224           11 KTITLEVESSDTIDNVKAKIQDKE--GIPP------DQQRLIF-AG---K-QLEDG-------------RTLADYNIQKE   64 (145)
Q Consensus        11 ~~~~l~V~~~~TV~~LK~~I~~~~--gip~------~~q~L~~-~G---~-~L~d~-------------~tL~~~gi~~~   64 (145)
                      ..+.+.|-..+||.++|++|-+..  +.|.      +++.|-+ .|   + .|.|.             .||+.|+|.+|
T Consensus        27 ~~i~VkVLdCDTItQvKeKiLd~vyk~~p~S~rP~~~~~dLEwr~g~~~~~iL~D~D~ts~~~~~wkrLNTL~HY~V~dg  106 (117)
T 4e74_A           27 PEVPVKILNCDTITQVKEKILDAIFKNVPCSHRPKAADMDLEWRQGSGARMILQDEDITTKIENDWKRLNTLAHYQVPDG  106 (117)
T ss_dssp             CCEEEEEETTSBHHHHHHHHHHHHTTTSCGGGSCCGGGEEEEEECTTSCEEEECSSSTTCCC---CCCCCBHHHHTCCTT
T ss_pred             CceEeeeecCCchHHHHHHHHHHHhcCCCcccCCCCCceeEEEecCCCCceEeecCCCccEecCcceEeccccccCCCCC
Confidence            347788889999999999997654  5553      3555554 22   3 35442             37999999999


Q ss_pred             CEEEEEEE
Q 032224           65 STLHLVLR   72 (145)
Q Consensus        65 sti~l~~~   72 (145)
                      ++|.++.+
T Consensus       107 atl~l~~~  114 (117)
T 4e74_A          107 SVVALVSK  114 (117)
T ss_dssp             CEEEEEEC
T ss_pred             CEEEEEeC
Confidence            99988754

>1wgk_A Riken cDNA 2900073H19 protein; THis domain, ubiqutin-like fold, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.15.3.3 PDB: 1xo3_A

Probab=94.47  E-value=0.13  Score=34.29  Aligned_cols=75  Identities=19%  Similarity=0.275  Sum_probs=45.8

Q ss_pred             CEEEEEeCC------C--CEEEEEEcC---CCcHHHHHHHHHHHhCCCcCceeeee-CCe------eccCCC---cc--c
Q 032224            1 MQIFVKTLT------G--KTITLEVES---SDTIDNVKAKIQDKEGIPPDQQRLIF-AGK------QLEDGR---TL--A   57 (145)
Q Consensus         1 M~I~Vk~~~------g--~~~~l~V~~---~~TV~~LK~~I~~~~gip~~~q~L~~-~G~------~L~d~~---tL--~   57 (145)
                      |+|.|+.+.      |  +.+.++++.   ..||.+|-+.|.+.+  |....+|+. +|.      .|-++.   .|  .
T Consensus        12 M~v~V~~~~~Lr~~~g~~~~~~vel~~~~~~~TV~~Ll~~L~~~~--~~~~~~lf~~~g~lr~~i~VlVN~~di~~l~gl   89 (114)
T 1wgk_A           12 LCVKVEFGGGAELLFDGVKKHQVALPGQEEPWDIRNLLVWIKKNL--LKERPELFIQGDSVRPGILVLINDADWELLGEL   89 (114)
T ss_dssp             EEEEEEECTTTGGGTTTCSEEEEEECCCSSCCBHHHHHHHHTTTT--CCSCHHHHCCSSSCCSSEEEEESSSBHHHHCTT
T ss_pred             cEEEEEEchHHHHHhCCceEEEEEeCCCCCCCCHHHHHHHHHHHc--cchhHhhCccCCcccCCeEEEECCeeeeccCCc
Confidence            577887664      3  256788883   369999999998776  222222221 121      121222   11  2


Q ss_pred             cccccCCCEEEEEEEecCCc
Q 032224           58 DYNIQKESTLHLVLRLRGGA   77 (145)
Q Consensus        58 ~~gi~~~sti~l~~~~~gg~   77 (145)
                      ++-+++|+.|.++....||.
T Consensus        90 dt~L~dGDeV~iip~vaGG~  109 (114)
T 1wgk_A           90 DYQLQDQDSILFISTLHGGS  109 (114)
T ss_dssp             TCBCCSSEEEEEEECSCCCC
T ss_pred             CcCCCCCCEEEEeCCCCCCC
Confidence            46788999999887777874

>2kvr_A Ubiquitin carboxyl-terminal hydrolase 7; USP7, ubiquitin-like domain, UBL, ubiquitin specific protease, HOST-virus interaction, nucleus, protease; NMR {Homo sapiens}

Probab=94.33  E-value=0.059  Score=36.94  Aligned_cols=33  Identities=21%  Similarity=0.340  Sum_probs=30.3

Q ss_pred             EEEEEcCCCcHHHHHHHHHHHhCCCcCceeeee
Q 032224           13 ITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF   45 (145)
Q Consensus        13 ~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~   45 (145)
                      ..+.|..++|+.+|+..|++..|+|++.|+|..
T Consensus        58 ~~~rv~k~~~~~~~~~~va~~lg~~~~~~RlW~   90 (130)
T 2kvr_A           58 TVFKVLKNSSLAEFVQSLSQTMGFPQDQIRLWP   90 (130)
T ss_dssp             EEEECCTTSBHHHHHHHHHHHHCCCGGGCEEEE
T ss_pred             ceEEEeccCcHHHHHHHHHHHhCCCcccEEEEE
Confidence            467888999999999999999999999999984

>2qjl_A URM1, ubiquitin-related modifier 1; ubiquitin-like protein, signaling protein; 1.44A {Saccharomyces cerevisiae} PDB: 2pko_A 2ax5_A

Probab=94.23  E-value=0.41  Score=30.75  Aligned_cols=73  Identities=15%  Similarity=0.257  Sum_probs=44.1

Q ss_pred             CEEEEEeCC-------C-CEEEEEEc--CCCcHHHHHHHHHHHhCCCcCc-------------eeeeeCCeeccCCCcc-
Q 032224            1 MQIFVKTLT-------G-KTITLEVE--SSDTIDNVKAKIQDKEGIPPDQ-------------QRLIFAGKQLEDGRTL-   56 (145)
Q Consensus         1 M~I~Vk~~~-------g-~~~~l~V~--~~~TV~~LK~~I~~~~gip~~~-------------q~L~~~G~~L~d~~tL-   56 (145)
                      |+|+|+.+.       | ....++++  +..||.+|.+.+.++..-....             ..+..||...+   .+ 
T Consensus         2 M~i~V~~fa~lre~~~g~~~~~~~l~~~~~~Tv~~L~~~L~~~~~~~~~~l~~~~~~~~lr~~~~v~VN~~~~~---~~~   78 (99)
T 2qjl_A            2 VNVKVEFLGGLDAIFGKQRVHKIKMDKEDPVTVGDLIDHIVSTMINNPNDVSIFIEDDSIRPGIITLINDTDWE---LEG   78 (99)
T ss_dssp             EEEEEEEETTGGGGTTTCCEEEEEECSCSCCBHHHHHHHHHHHTCSSGGGHHHHEETTEECTTEEEEETTEEGG---GGT
T ss_pred             cEEEEEEchHHHHHhCCCcEEEEecCCCCCCcHHHHHHHHHHHCchhhHHHhhhccCCccccCeEEEECCEEcc---ccC
Confidence            567776542       3 35667777  6789999999998876311111             11233444211   11 


Q ss_pred             -ccccccCCCEEEEEEEecCC
Q 032224           57 -ADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus        57 -~~~gi~~~sti~l~~~~~gg   76 (145)
                       .+.-+++|++|.+.....||
T Consensus        79 ~~d~~L~dgDeVa~~Ppv~GG   99 (99)
T 2qjl_A           79 EKDYILEDGDIISFTSTLHGG   99 (99)
T ss_dssp             GGGCBCCTTCEEEEEECTTCC
T ss_pred             CCCcCcCCCCEEEEECCCCCC
Confidence             24568899999887666555

>1vd2_A Protein kinase C, IOTA type; PB1 domain, OPCA motif, APKC, ZIP/P62, MEK5, molecular recognition, transferase; NMR {Homo sapiens} SCOP: d.15.2.2 PDB: 1wmh_A

Probab=93.68  E-value=0.32  Score=31.11  Aligned_cols=46  Identities=15%  Similarity=0.252  Sum_probs=36.5

Q ss_pred             EEEEe-CCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCc-eeeeeCCe
Q 032224            3 IFVKT-LTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQ-QRLIFAGK   48 (145)
Q Consensus         3 I~Vk~-~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~-q~L~~~G~   48 (145)
                      |.||. .+|..+.+.++++.+..+|.+++.+..+++..+ ..|.|...
T Consensus         7 vkvK~~~~gdi~~~~v~~~i~~~~L~~kv~~~~~~~~~~~f~lky~DE   54 (89)
T 1vd2_A            7 VRVKAYYRGDIMITHFEPSISFEGLCNEVRDMCSFDNEQLFTMKWIDE   54 (89)
T ss_dssp             EEEEEESSSCEEEEEECTTCCHHHHHHHHHHHTTCCSSCCEEEEECCS
T ss_pred             EEEEEEeCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCeEEEEEECC
Confidence            34443 367888999999999999999999999987644 67777654

>2q5w_D Molybdopterin converting factor, subunit 1; MOCO, MPT synthase, MOAD, MOAE, transferase, molybdenum cofactor biosynthesis; 2.00A {Staphylococcus aureus} PDB: 2qie_B*

Probab=93.60  E-value=0.12  Score=31.52  Aligned_cols=60  Identities=13%  Similarity=0.212  Sum_probs=41.6

Q ss_pred             CEEEEEEcCCCcHHHHHHHHHHHhCCCcCce--eeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224           11 KTITLEVESSDTIDNVKAKIQDKEGIPPDQQ--RLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus        11 ~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q--~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      ....++++...||.+|.+.+..... .....  .+..||+....+     .-+++|+.|.++-...||
T Consensus        16 ~~~~~~~~~~~tv~~ll~~l~~~~p-~~~~v~~~v~vNg~~v~~~-----~~L~~gD~V~i~ppv~GG   77 (77)
T 2q5w_D           16 AQEDIVLEQALTVQQFEDLLFERYP-QINNKKFQVAVNEEFVQKS-----DFIQPNDTVALIPPVSGG   77 (77)
T ss_dssp             SEEECCCSSCEEHHHHHHHHHHHCG-GGTTCCCEEEETTEEECTT-----SEECTTCEEEEECSCCCC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHCc-chhcceEEEEECCEECCCC-----CCcCCCCEEEEECCCCCC
Confidence            3566777788899999999877641 01233  577899887654     456789999876554444

>1fm0_D Molybdopterin convertin factor, subunit 1; molybdenum cofactor biosynthesis, transferase; 1.45A {Escherichia coli} SCOP: d.15.3.1 PDB: 1fma_D 1jw9_D 1jwa_D* 1jwb_D* 3bii_D 1nvi_D

Probab=93.58  E-value=0.14  Score=31.39  Aligned_cols=59  Identities=7%  Similarity=0.153  Sum_probs=40.2

Q ss_pred             EEEEEEcCCCcHHHHHHHHHHHhC-----CCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224           12 TITLEVESSDTIDNVKAKIQDKEG-----IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus        12 ~~~l~V~~~~TV~~LK~~I~~~~g-----ip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      ...++ ++..||.+|.+.+.....     ++.....+..||+....     +.-+++|++|.++....||
T Consensus        18 ~~~~~-~~~~tv~~ll~~L~~~~p~~~~~l~~~~~~v~vN~~~v~~-----~~~l~~gD~V~i~Ppv~GG   81 (81)
T 1fm0_D           18 ATEVA-ADFPTVEALRQHMAAQSDRWALALEDGKLLAAVNQTLVSF-----DHPLTDGDEVAFFPPVTGG   81 (81)
T ss_dssp             EEEEC-SCCSBHHHHHHHHHTTCHHHHHHHCCTTCEEEETTEECCT-----TCBCCTTCEEEEECCCCCC
T ss_pred             eEEEc-CCCCCHHHHHHHHHHHChhHHHHhcCCCEEEEECCEECCC-----CCCCCCCCEEEEeCCCCCC
Confidence            45566 567899999999875431     22334567788887754     3456789999887655554

>2cu3_A Unknown function protein; thermus thermophilus HB8, structural genomics, riken structu genomics/proteomics initiative, RSGI, NPPSFA; 1.70A {Thermus thermophilus} SCOP: d.15.3.2 PDB: 2htm_E

Probab=93.42  E-value=0.19  Score=29.74  Aligned_cols=60  Identities=13%  Similarity=0.315  Sum_probs=41.2

Q ss_pred             CCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         9 ~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      +|+.+.  + +..||.+|.+.+    ++++....+..||..+..+ ...+.-+++|+.|.++....||
T Consensus         5 Ng~~~~--~-~~~tv~~ll~~l----~~~~~~v~vavN~~~v~~~-~~~~~~L~dgD~v~i~~~V~GG   64 (64)
T 2cu3_A            5 NGEPRP--L-EGKTLKEVLEEM----GVELKGVAVLLNEEAFLGL-EVPDRPLRDGDVVEVVALMQGG   64 (64)
T ss_dssp             TTEEEC--C-TTCCHHHHHHHH----TBCGGGEEEEETTEEEEGG-GCCCCCCCTTCEEEEEECCCC-
T ss_pred             CCEEEE--c-CCCcHHHHHHHc----CCCCCcEEEEECCEECCcc-ccCCcCCCCCCEEEEEeecccC
Confidence            566554  4 568999999877    4666777777899887533 1234457789999887655554

>1h4r_A Merlin; FERM, neurofibromatosis, NF2, structural protein, cytoskeleton, anti-oncogene; 1.8A {Homo sapiens} SCOP: a.11.2.1 b.55.1.5 d.15.1.4 PDB: 1isn_A 3u8z_A

Probab=93.16  E-value=0.88  Score=34.88  Aligned_cols=70  Identities=11%  Similarity=0.119  Sum_probs=52.3

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCc-Cceeeee--CCe--eccCCCccccccccCCCEEEEEEE
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP-DQQRLIF--AGK--QLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~-~~q~L~~--~G~--~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      .+.|..++| ++.+.+++++|+.+|-+.|....|+.. +-.-|.+  +|.  -|+.+..|.+.++..+..+.+.++
T Consensus        24 ~~~V~lldg-~~~~~v~~~t~~~el~~~v~~~l~L~e~~~FgL~~~~~~~~~wL~~~~~i~~q~~~~~~~~~l~fr   98 (314)
T 1h4r_A           24 TVRIVTMDA-EMEFNCEMKWKGKDLFDLVCRTLGLRETWFFGLQYTIKDTVAWLKMDKKVLDHDVSKEEPVTFHFL   98 (314)
T ss_dssp             EEEEECSSC-EEEEEEETTCBHHHHHHHHHHHHTCCCGGGEEEEEEETTEEEECCTTSBGGGSSCCCSSSEEEEEE
T ss_pred             EEEEEeCCc-eEEEEeCCCCcHHHHHHHHHHHhCCCCCccceEEEEeCCcCeeCCCccCHHHcCCCCCCCEEEEEE
Confidence            567888888 788999999999999999999999875 3344444  443  377778888876655555555554

>1ef1_A Moesin; membrane, FERM domain, tail domain, membrane protein; 1.90A {Homo sapiens} SCOP: a.11.2.1 b.55.1.5 d.15.1.4 PDB: 1sgh_A 1j19_A 2emt_A 2ems_A 2d10_A 2d11_A 2yvc_A 2d2q_A 2zpy_A 1gc7_A 1gc6_A 1ni2_A

Probab=93.07  E-value=0.83  Score=34.60  Aligned_cols=71  Identities=17%  Similarity=0.269  Sum_probs=51.9

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCc-eeeee---CCe--eccCCCccccccccCCCEEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQ-QRLIF---AGK--QLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~-q~L~~---~G~--~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      |.|.|..++| ++.+.+++++|+.+|-+.|....|+...+ .-|.+   +|.  -|+.+..|.+.++..+....+.++
T Consensus         2 i~~~V~l~d~-~~~~~v~~~tt~~el~~~v~~~l~L~e~~~FgL~~~~~~~~~~wLd~~~~l~~q~~~~~~~~~l~fr   78 (294)
T 1ef1_A            2 ISVRVTTMDA-ELEFAIQPNTTGKQLFDQVVKTIGLREVWFFGLQYQDTKGFSTWLKLNKKVTAQDVRKESPLLFKFR   78 (294)
T ss_dssp             EEEEEEETTE-EEEEEECTTCBHHHHHHHHHHHHTCCCGGGEEEEEEBTTSCEEECCSSSBGGGSCBCCCSSEEEEEE
T ss_pred             EEEEEEECCc-eEEEEECCCCcHHHHHHHHHHHcCCCCcceeEEEEECCCCceeecccccCHHhhccCCCCCEEEEEE
Confidence            4678888888 67899999999999999999999987532 34443   333  467777787776655555555554

>3kuz_A Plexin-C1; structural genomics, structural genomics consortium, SGC; 2.30A {Homo sapiens}

Probab=92.96  E-value=0.69  Score=31.43  Aligned_cols=60  Identities=35%  Similarity=0.557  Sum_probs=41.4

Q ss_pred             CEEEEEEcCCCcHHHHHHHHHHH----hCCCc----Cceeeee-CC---eeccC----------C----CccccccccCC
Q 032224           11 KTITLEVESSDTIDNVKAKIQDK----EGIPP----DQQRLIF-AG---KQLED----------G----RTLADYNIQKE   64 (145)
Q Consensus        11 ~~~~l~V~~~~TV~~LK~~I~~~----~gip~----~~q~L~~-~G---~~L~d----------~----~tL~~~gi~~~   64 (145)
                      ..+++.|-..+||.++|++|-..    .++|.    +++.|-+ .|   ..|.|          .    .||+.|+|.+|
T Consensus        39 ~~v~VkVLdCDTItQVKEKILdavYk~k~~pys~r~~d~dLEwr~g~~~~~L~D~D~tS~~~e~~wkrLNTL~HY~V~Dg  118 (126)
T 3kuz_A           39 RNISVNVLDCDTIGQAKEKIFQAFLSKNGSPYGLQLNEIGLELQMGTRQKELLDIDSSSVILEDGITKLNTIGHYEISNG  118 (126)
T ss_dssp             CEEEEEEETTCBHHHHHHHHHHHHHHHHSSCCSSCGGGEEEEEEETTEEEEECSSCTTCCBCTTSCBCCCBTGGGTCCTT
T ss_pred             CceEeeeecCCcHHHHHHHHHHHHhccCCCcCCCCccccceEEecCCCcceeeccCCcceEecCCeeEeccccccCCCCC
Confidence            46788888999999999999543    36654    3444543 12   23322          1    36889999999


Q ss_pred             CEEEEE
Q 032224           65 STLHLV   70 (145)
Q Consensus        65 sti~l~   70 (145)
                      ++|-++
T Consensus       119 atlal~  124 (126)
T 3kuz_A          119 STIKVF  124 (126)
T ss_dssp             CEEEEE
T ss_pred             CEEEEe
Confidence            999765

>2kmc_A Fermitin family homolog 1; kindlin, cytoskeleton, integrin, N-terminal, talin, cell adhesion, cell junction, cell membrane, cell projection; NMR {Mus musculus}

Probab=92.28  E-value=1.3  Score=28.89  Aligned_cols=70  Identities=24%  Similarity=0.282  Sum_probs=53.8

Q ss_pred             EEEEEeCCC---CEEEEEEcCCCcHHHHHHHHHHHhCCCcC--ceeeeeCC---eeccCCCccccccccCCCEEEEEE
Q 032224            2 QIFVKTLTG---KTITLEVESSDTIDNVKAKIQDKEGIPPD--QQRLIFAG---KQLEDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus         2 ~I~Vk~~~g---~~~~l~V~~~~TV~~LK~~I~~~~gip~~--~q~L~~~G---~~L~d~~tL~~~gi~~~sti~l~~   71 (145)
                      .|+|...+.   ....++|..+.-|+.+..+|-+...++.+  +--|..-.   ..|.-..+|..|||+.++.+++..
T Consensus        21 ~V~V~d~~~~~~~~~~lrV~GdlHIGGvmlklVEki~i~~dWSDhaLWW~~k~~WLlkt~~tLDkygiqADa~L~ftp   98 (102)
T 2kmc_A           21 VVRVDHANGEQQTEITLRVSGDLHIGGVMLKLVEQMNIAQDWSDYALWWEQKRCWLLKTHWTLDKCGVQADANLLFTP   98 (102)
T ss_dssp             EEEEECTTSSCEEEEEEEECSCCBHHHHHHHHHHHHCCSSCCSSEEEEETTTTEEECCTTSBHHHHTCCTTSCEEEEE
T ss_pred             EEEEecCCcccCccEEEEEeeccccchhhhhhhhhcccccchHHhhhhhhhhchhhhhhhhhhhhhceeeeeeeeccC
Confidence            577777554   45889999999999999999988887653  33444322   257788999999999999998764

>2l52_A Methanosarcina acetivorans SAMP1 homolog; beta-grAsp fold, protein binding, E1-like, SAMP activator, ELSA, adenylation, ubiquitin; NMR {Methanosarcina acetivorans}

Probab=92.26  E-value=0.64  Score=29.87  Aligned_cols=72  Identities=14%  Similarity=0.291  Sum_probs=43.7

Q ss_pred             CEEEEEeCC------CC-EEEEEEcCCCcHHHHHHHHHHHhC-CCc---------Cce-------eeeeCCeeccCCCcc
Q 032224            1 MQIFVKTLT------GK-TITLEVESSDTIDNVKAKIQDKEG-IPP---------DQQ-------RLIFAGKQLEDGRTL   56 (145)
Q Consensus         1 M~I~Vk~~~------g~-~~~l~V~~~~TV~~LK~~I~~~~g-ip~---------~~q-------~L~~~G~~L~d~~tL   56 (145)
                      |+|+|+...      |. .+.++   ..||.+|.+.+..... +..         ...       .+..||+...... -
T Consensus         4 m~v~V~~fa~lr~~~g~~~~~l~---~~tv~~ll~~L~~~~p~l~~~l~~~g~l~~~v~~~~~~~~v~VNg~~v~~~~-~   79 (99)
T 2l52_A            4 AEVKVKLFANLREAAGTPELPLS---GEKVIDVLLSLTDKYPALKYVIFEKGDEKSEILILCGSINILINGNNIRHLE-G   79 (99)
T ss_dssp             CEEEEEECTHHHHHHSSSEEEEE---CSSHHHHHHHHHHHCGGGTTTSBCSCCTTSSCCCBCSSCEEEETTSCGGGTT-S
T ss_pred             eEEEEEEeHHHHHHhCCCeEEEe---CCcHHHHHHHHHHHChhHHHHHhcccccccceeccccccEEEECCEEccccC-C
Confidence            678887764      32 44444   5899999999987641 111         012       4567777553221 1


Q ss_pred             ccccccCCCEEEEEEEecCC
Q 032224           57 ADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus        57 ~~~gi~~~sti~l~~~~~gg   76 (145)
                      .+.-+++|++|.++....||
T Consensus        80 ~~~~L~~gD~V~i~ppv~GG   99 (99)
T 2l52_A           80 LETLLKDSDEIGILPPVSGG   99 (99)
T ss_dssp             TTSCCCTTEEEEEECCCSCC
T ss_pred             CCCCCCCCCEEEEECCCCCC
Confidence            23457889999887655554

>2k9x_A Tburm1, uncharacterized protein; unknown function; NMR {Trypanosoma brucei}

Probab=92.14  E-value=0.078  Score=35.28  Aligned_cols=75  Identities=16%  Similarity=0.279  Sum_probs=43.1

Q ss_pred             CEEEEEeCC------CCEEEEEEcC----CCcHHHHHHHHHHHhCCCcCceeee-eCC--e------eccCCCcc-----
Q 032224            1 MQIFVKTLT------GKTITLEVES----SDTIDNVKAKIQDKEGIPPDQQRLI-FAG--K------QLEDGRTL-----   56 (145)
Q Consensus         1 M~I~Vk~~~------g~~~~l~V~~----~~TV~~LK~~I~~~~gip~~~q~L~-~~G--~------~L~d~~tL-----   56 (145)
                      |+|.|+...      |+...++++.    ..||.+|-+.|.+..  +..+-.|+ -+|  .      .|-++...     
T Consensus         5 m~v~V~f~g~l~~l~g~~~~v~l~~~~g~~~TV~dLl~~L~~~~--~~~r~~lf~~~g~~~lrpgIlVLVNg~d~e~l~g   82 (110)
T 2k9x_A            5 NHITVQFAGGCELLFAKQTSLQLDGVVPTGTNLNGLVQLLKTNY--VKERPDLLVDQTGQTLRPGILVLVNSCDAEVVGG   82 (110)
T ss_dssp             SCCEEEEESSCGGGTTSCSEECCCCSCGGGCCHHHHHHHHTTTT--CCSCHHHHBCSSSSSBCTTEEEEESSSBHHHHTS
T ss_pred             cEEEEEEEecHHHHhCCeEEEEeCCcCCCCccHHHHHHHHHHHc--cccchhhEecCCCcccCCCeEEEECCeeeeccCC
Confidence            556666553      3445677763    259999999998765  22222332 122  1      23222222     


Q ss_pred             ccccccCCCEEEEEEEecCCc
Q 032224           57 ADYNIQKESTLHLVLRLRGGA   77 (145)
Q Consensus        57 ~~~gi~~~sti~l~~~~~gg~   77 (145)
                      .++-+++|++|.++..+.||-
T Consensus        83 ldt~L~dgD~V~fistlhg~~  103 (110)
T 2k9x_A           83 MDYVLNDGDTVEFISTLHGGL  103 (110)
T ss_dssp             SCCCCCSSCEEEEEECCCCC-
T ss_pred             cccCCCCcCEEEEeCCCcccc
Confidence            246789999988876666663

>3ig3_A Plxna3 protein; plexin intracellular GAP RBD inactive, membrane, transmembra membrane protein, signaling protein; 1.99A {Mus musculus} PDB: 3ryt_A*

Probab=91.73  E-value=1.2  Score=37.95  Aligned_cols=63  Identities=29%  Similarity=0.490  Sum_probs=45.7

Q ss_pred             CEEEEEEcCCCcHHHHHHHHHHHh--CCC------cCceeeee----CCe-eccCC-------------CccccccccCC
Q 032224           11 KTITLEVESSDTIDNVKAKIQDKE--GIP------PDQQRLIF----AGK-QLEDG-------------RTLADYNIQKE   64 (145)
Q Consensus        11 ~~~~l~V~~~~TV~~LK~~I~~~~--gip------~~~q~L~~----~G~-~L~d~-------------~tL~~~gi~~~   64 (145)
                      ..+.+.|-..+||.++|++|-+..  |+|      ++++.|-+    .|+ +|.|.             .||++|+|.+|
T Consensus       247 ~~i~vkVLdCDTItQVKeKiLdavYk~~pyS~rP~~~~~dLEwr~g~~g~~iL~D~D~ts~~~~~wkrLNTL~HY~V~Dg  326 (627)
T 3ig3_A          247 AQVPVKVLNCDSITQAKDKLLDTVYKGIPYSQRPKAEDMDLEWRQGRMARIILQDEDITTKIECDWKRVNSLAHYQVTDG  326 (627)
T ss_dssp             CEEEEEEETTCBHHHHHHHHHHHHTTTSCGGGSCCGGGEEEEEESCSSCEEEECSSSTTCCEETTEEECCBTTTTTCCTT
T ss_pred             CceeeEeeccCcHHHHHHHHHHHHHcCCCcccCCCCCccceeEeeCCCCceeeccCCccccccCceeEecchhhcCCCCC
Confidence            467888889999999999997654  444      34555654    233 45442             37999999999


Q ss_pred             CEEEEEEEe
Q 032224           65 STLHLVLRL   73 (145)
Q Consensus        65 sti~l~~~~   73 (145)
                      ++|.++.+.
T Consensus       327 a~v~L~p~~  335 (627)
T 3ig3_A          327 SLVALVPKQ  335 (627)
T ss_dssp             CEEEEEEC-
T ss_pred             ceEEEEecc
Confidence            999987654

>2g1e_A Hypothetical protein TA0895; MOAD, molybdopterin, transferase; NMR {Thermoplasma acidophilum} PDB: 2k22_A

Probab=91.58  E-value=0.6  Score=29.01  Aligned_cols=62  Identities=13%  Similarity=0.254  Sum_probs=39.5

Q ss_pred             EEEEcCCCcHHHHHHHHHHHhC------C-----CcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224           14 TLEVESSDTIDNVKAKIQDKEG------I-----PPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus        14 ~l~V~~~~TV~~LK~~I~~~~g------i-----p~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      .++++...||.+|.+.+.....      +     ......+..||+...... -.+.-+++|++|.++....||
T Consensus        18 ~~~~~~~~tv~~ll~~l~~~~p~~~~~~l~~~~g~~~~v~v~vN~~~v~~~~-~~~~~l~~gD~V~i~ppv~GG   90 (90)
T 2g1e_A           18 EETFNGISKISELLERLKVEYGSEFTKQMYDGNNLFKNVIILVNGNNITSMK-GLDTEIKDDDKIDLFPPVAGG   90 (90)
T ss_dssp             EEEESSCCBHHHHHHHHHHHSCHHHHHHHCCSSCSTTTCEEEESSSBGGGTC-SSSCBCCTTCEEEEECCTTCC
T ss_pred             EEEcCCCCcHHHHHHHHHHHCcchhhhccccccCcCcceEEEECCEEccccC-CCCcCCCCCCEEEEeCCCCCC
Confidence            3456667899999999987641      1     013455667887664221 124457889999887555554

>3ivf_A Talin-1; FERM domain, cell membrane, cell projection, cytoskeleton, M phosphoprotein, cell adhesion, structural protein; 1.94A {Mus musculus} PDB: 2kma_A 2kc1_A

Probab=91.36  E-value=1.3  Score=34.88  Aligned_cols=70  Identities=27%  Similarity=0.393  Sum_probs=49.5

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCc-CceeeeeCC---------eeccCCCccccccccCCCEEEEEE
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP-DQQRLIFAG---------KQLEDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~-~~q~L~~~G---------~~L~d~~tL~~~gi~~~sti~l~~   71 (145)
                      .+.|..++|....+.+++++|+.+|-+.|....|+.. +..-|.+..         .-|+.+.++.+.+.....++++.+
T Consensus        87 ~~~V~l~dg~~~~~~vd~~tt~~el~~~v~~~l~L~e~~~FgL~~~~~~~~~~~~~~wL~~~k~l~~q~~~~~~~l~frv  166 (371)
T 3ivf_A           87 PLKIRMLDGTVKTIMVDDSKTVTDMLMTICARIGITNHDEYSLVRELMEEKKDDELNWLDHGRTLREQGVEEHETLLLRR  166 (371)
T ss_dssp             EEEEECTTSCEEEEEEETTSBHHHHHHHHHHHTTCSCGGGEEEECCC----------CCCTTSBTGGGTCCTTCEEEEEE
T ss_pred             EEEEECcCCCEEEEEECCCCCHHHHHHHHHHHcCCCCccccEEEEEecccccchHHHHHhcCchhHhhCCCCCceEEEEE
Confidence            5778889999999999999999999999999999764 334555421         134455566665554445555433

>1rws_A Hypothetical protein PF1061; residual dipolar couplings, structural genomics, unknown FUN; NMR {Pyrococcus furiosus} SCOP: d.15.3.2 PDB: 1sf0_A

Probab=91.35  E-value=0.042  Score=33.95  Aligned_cols=54  Identities=11%  Similarity=0.260  Sum_probs=38.9

Q ss_pred             EEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224           14 TLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus        14 ~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      .+++++..||.+|.+.+    ++++....+..||+.+..+     .-|++|+.|.++....||
T Consensus        24 ~~~~~~~~Tv~dLl~~L----~~~~~~v~VavNg~~v~~~-----~~L~dGD~V~i~ppv~GG   77 (77)
T 1rws_A           24 EIEWREGMKVRDILRAV----GFNTESAIAKVNGKVVLED-----DEVKDGDFVEVIPVVSGG   77 (77)
T ss_dssp             CCCCCSSCCHHHHHHTT----TCSSCSSCEEETTEEECSS-----SCCCSSCCCBCSCCCCCC
T ss_pred             EEECCCCCcHHHHHHHh----CCCCcCEEEEECCEECCCC-----CCcCCCCEEEEEcccccC
Confidence            45667778999998765    4666667777899988765     456788888876554444

>1y8x_B Ubiquitin-activating enzyme E1C; ubiquitin-conjugating enzyme E2 M, ligase; 2.40A {Homo sapiens} SCOP: c.111.1.2 PDB: 3fn1_A

Probab=90.99  E-value=0.5  Score=30.71  Aligned_cols=59  Identities=12%  Similarity=0.287  Sum_probs=40.4

Q ss_pred             EEEEEEcCCCcHHHHHHHHHHHhCCCcC-----------ceeeeeCC-eeccC------CCccccccccCCCEEEEE
Q 032224           12 TITLEVESSDTIDNVKAKIQDKEGIPPD-----------QQRLIFAG-KQLED------GRTLADYNIQKESTLHLV   70 (145)
Q Consensus        12 ~~~l~V~~~~TV~~LK~~I~~~~gip~~-----------~q~L~~~G-~~L~d------~~tL~~~gi~~~sti~l~   70 (145)
                      ...++|++++|+.+|-+.+.+.-.+...           ...|+..+ ..|+.      +.+|.++|+.+|+.|+|.
T Consensus         6 ~~~l~v~~~~TL~~lid~L~~~p~~qlk~PSltt~~~~~~k~LYmq~pp~Lee~Tr~NL~k~l~eLgl~~g~ei~Vt   82 (98)
T 1y8x_B            6 PQNIQFSPSAKLQEVLDYLTNSASLQMKSPAITATLEGKNRTLYMQSVTSIEERTRPNLSKTLKELGLVDGQELAVA   82 (98)
T ss_dssp             CCCEECCTTCBHHHHHHHHHHCTTCCCSSCEEEEEETTEEEEEECSSCHHHHHHHHHHHHSBSGGGTCCTTCEEEEE
T ss_pred             cEEEEECCchhHHHHHHHHHhChHhhccCCeeeeecCCCCCeEEEeCcHHHHHHhHhhhhCCHHHhCCCCCCEEEEE
Confidence            4568999999999999999885332211           23344333 12322      367999999999998884

>2kmm_A Guanosine-3',5'-BIS(diphosphate) 3'- pyrophosphohydrolase; methods development, TGS domain, predominantly beta-sheet structure; NMR {Porphyromonas gingivalis}

Probab=90.92  E-value=1  Score=26.67  Aligned_cols=62  Identities=11%  Similarity=0.090  Sum_probs=40.7

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~   71 (145)
                      |+|.|...+|+.  ++++...|+.+|-..+....+  ....-...+|+..+-+.     -+.+|+.|.++-
T Consensus         1 m~i~i~~p~g~~--~~~~~g~T~~dla~~i~~~l~--~~~vaa~vNg~lvdl~~-----~L~~~~~Veivt   62 (73)
T 2kmm_A            1 MEVMVFTPKGEI--KRLPQGATALDFAYSLHSDLG--DHCIGAKVNHKLVPLSY-----VLNSGDQVEVLS   62 (73)
T ss_dssp             CCEEEECTTCCE--EEECTTCBHHHHHHHHCSHHH--HTEEEEEETTEECCTTC-----BCCSSSBEEEEE
T ss_pred             CeEEEEcCCCCE--EEcCCCCcHHHHHHHHhhccc--cceEEEEECCEEeCCCc-----CcCCCCEEEEEE
Confidence            788998878876  566788999999888743321  11223346888765543     445678887664

>2i1j_A Moesin; FERM, coiled-coil, C-ermad, ERM, radixin, ezrin, MER actin binding, masking, regulation, SELF-inhibition, cell A membrane protein; 2.10A {Spodoptera frugiperda} PDB: 2i1k_A 1e5w_A

Probab=90.27  E-value=2  Score=36.22  Aligned_cols=71  Identities=15%  Similarity=0.274  Sum_probs=52.1

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCc-CceeeeeC---C--eeccCCCccccccccCCCEEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP-DQQRLIFA---G--KQLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~-~~q~L~~~---G--~~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      |.|.|..++| ++.|.|++++|+.+|-..|....|+.. +..-|.|-   |  ..|+.+..|.+.++..+..+.+.++
T Consensus         5 i~v~V~llDg-t~e~~vd~~tt~~ell~~V~~~LgL~e~~~FGL~~~d~~~~~~WLd~~k~i~~q~~~~~~~~~L~FR   81 (575)
T 2i1j_A            5 MNVRVTTMDA-ELEFAIQQTTTGKQLFDQVVKTIGLREVWFFGLQYTDSKGDLTWIKLYKKVMQQDVKKENPLQFKFR   81 (575)
T ss_dssp             EEEEEECSSC-EEEEEEETTCBHHHHHHHHHHHHTCCCGGGEEEEEEBTTSCEEECCTTSBGGGSCBCCCSSEEEEEE
T ss_pred             EEEEEEeCCC-eEEEEECCCCCHHHHHHHHHHHcCCCCccceeEEEEecCcchhHhhccccHHHhcccCCCCeEEEEE
Confidence            3577888888 778999999999999999999999864 33455542   2  2567777787776666666555554

>4eut_A Serine/threonine-protein kinase TBK1; ATP binding, phosphorylation, transferase-transferas inhibitor complex; HET: BX7; 2.60A {Homo sapiens}

Probab=90.23  E-value=1.4  Score=34.44  Aligned_cols=51  Identities=22%  Similarity=0.344  Sum_probs=41.1

Q ss_pred             CEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCee--ccCCCccccccc
Q 032224           11 KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQ--LEDGRTLADYNI   61 (145)
Q Consensus        11 ~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~--L~d~~tL~~~gi   61 (145)
                      ....+.+.+..|+.++++++++.++++++.|.|++.+..  ++......++.-
T Consensus       322 ~~~~~~~~~~~~~~~~~~~~~~~t~i~~~~q~~l~~~~~~~~~~~~~~~~~~~  374 (396)
T 4eut_A          322 TAHKIYIHSYNTATIFHELVYKQTKIISSNQELIYEGRRLVLEPGRLAQHFPK  374 (396)
T ss_dssp             EEEEEEECTTCBHHHHHHHHHHHHCCCSTTEEEESSSSEECCCSSCBTTSSCC
T ss_pred             eEEEEEcCchhHHHHHHHHHHHhcCCChhhhHHHhcCCCCCCCCCCccccCCC
Confidence            456788899999999999999999999999999998843  344555556554

>3qij_A Protein 4.1; cytoskeleton, structural genomics, structural genomics conso SGC; 1.80A {Homo sapiens} PDB: 1gg3_A 3bin_A 2he7_A 2rq1_A

Probab=89.39  E-value=1.7  Score=33.21  Aligned_cols=60  Identities=10%  Similarity=0.047  Sum_probs=45.3

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcC-ceeeeeC---C--eeccCCCcccccc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPD-QQRLIFA---G--KQLEDGRTLADYN   60 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~-~q~L~~~---G--~~L~d~~tL~~~g   60 (145)
                      |.+.|..++|....++|++.+|+.+|-+.|.+..|+... ..-|.+.   |  .-|+.+..|.+..
T Consensus        18 ~~~~V~lldgt~~~~~vd~~tt~~el~~~v~~~l~L~e~~~FgL~~~~~~~~~~wLd~~k~i~~q~   83 (296)
T 3qij_A           18 GHCKVSLLDDTVYECVVEKHAKGQDLLKRVCEHLNLLEEDYFGLAIWDNATSKTWLDSAKEIKKQV   83 (296)
T ss_dssp             CEEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHTCSSGGGEEEEEEEETTEEEECCTTSBHHHHC
T ss_pred             EEEEEEccCCCEEEEEECCCCCHHHHHHHHHHHcCCCCcceeEEEEEcCCCccchhccchhHHHhc
Confidence            468899999999999999999999999999999998743 2444432   2  2356666665543

>1ip9_A BEM1 protein; ubiquitin alpha/beta roll, signaling protein; NMR {Saccharomyces cerevisiae} SCOP: d.15.2.2 PDB: 1ipg_A 2kfk_A

Probab=89.29  E-value=1.1  Score=28.25  Aligned_cols=39  Identities=10%  Similarity=0.079  Sum_probs=30.2

Q ss_pred             CCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCe
Q 032224            9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGK   48 (145)
Q Consensus         9 ~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~   48 (145)
                      ++-.|.|.|+++.+..+|+.+|..+..+. +.+.+.|++.
T Consensus        20 ~DDIiAIrvP~di~~~~L~dKi~~RLk~~-~~~l~~ykde   58 (85)
T 1ip9_A           20 KDDIFALMLKGDTTYKELRSKIAPRIDTD-NFKLQTKLFD   58 (85)
T ss_dssp             TTCCEEEEECSCCCHHHHHHHHHHHHTSS-CEEEEECCSS
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHHHhccc-ceEEEEecCC
Confidence            45689999999999999999999999883 3333445544

>3hm6_X Plexin-B1; structural genomics consortium, SGC, membrane, transmembrane receptor, cell membrane, glycoprotein, phosphoprotein; 2.40A {Homo sapiens} PDB: 3sua_D* 3su8_X*

Probab=88.93  E-value=2.2  Score=36.39  Aligned_cols=63  Identities=32%  Similarity=0.488  Sum_probs=44.8

Q ss_pred             CEEEEEEcCCCcHHHHHHHHHHHh--CCCc------Cceeeee----CCe-eccCC-------------CccccccccCC
Q 032224           11 KTITLEVESSDTIDNVKAKIQDKE--GIPP------DQQRLIF----AGK-QLEDG-------------RTLADYNIQKE   64 (145)
Q Consensus        11 ~~~~l~V~~~~TV~~LK~~I~~~~--gip~------~~q~L~~----~G~-~L~d~-------------~tL~~~gi~~~   64 (145)
                      ..+.+.|-..+||.++|++|-...  |+|.      +++.|-+    .|+ .|.|.             .||+.|+|.+|
T Consensus       274 ~~i~VkVLdCDTItQVKeKiLDavYk~~pyS~rP~~~~~dLEwr~g~~g~~iL~D~D~ts~~~~~wkrLNTL~HY~V~dg  353 (644)
T 3hm6_X          274 QGVPVKVLDCDTISQAKEKMLDQLYKGVPLTQRPDPRTLDVEWRSGVAGHLILSDEDVTSEVQGLWRRLNTLQHYKVPDG  353 (644)
T ss_dssp             CCEEEEEETTSBHHHHHHHHHHHHTTTSCGGGSCCGGGEEEEEECSSSCEEEECSSSTTCCEETTEEECCBTTTTTCCTT
T ss_pred             CceeeEeeccCcHHHHHHHHHHHHHcCCCcccCCCCCCcceEEeeCCCCceeecccCccceecCcceeecchhhcCCCCC
Confidence            347788889999999999997553  5553      4455554    233 35442             37999999999


Q ss_pred             CEEEEEEEe
Q 032224           65 STLHLVLRL   73 (145)
Q Consensus        65 sti~l~~~~   73 (145)
                      ++|.++.+.
T Consensus       354 a~v~L~p~~  362 (644)
T 3hm6_X          354 ATVALVPCL  362 (644)
T ss_dssp             CEEEEEEC-
T ss_pred             cEEEEEecc
Confidence            999887554

>3onh_A Ubiquitin-activating enzyme E1-like; ligase, SUMO conjugation, UBC9; 1.60A {Saccharomyces cerevisiae} PDB: 3ong_A

Probab=88.76  E-value=1.4  Score=29.98  Aligned_cols=56  Identities=23%  Similarity=0.334  Sum_probs=40.2

Q ss_pred             EEEcC----CCcHHHHHHHHHHHhCCCcCceeeee--CCeec-----cC--CCccccccccCCCEEEEEE
Q 032224           15 LEVES----SDTIDNVKAKIQDKEGIPPDQQRLIF--AGKQL-----ED--GRTLADYNIQKESTLHLVL   71 (145)
Q Consensus        15 l~V~~----~~TV~~LK~~I~~~~gip~~~q~L~~--~G~~L-----~d--~~tL~~~gi~~~sti~l~~   71 (145)
                      +.|++    .+|+.+|-+.|...+|.+. ++.+.-  +.+.|     +|  +.+|+++|+++|+.|.+.-
T Consensus        10 l~v~~~dl~~~TL~dLV~~l~~~~gy~~-eiSV~~~~~~rLLyD~DfDDnl~k~L~dLgv~~gsfLtv~D   78 (127)
T 3onh_A           10 IKLSSDCLNKMKLSDFVVLIREKYSYPQ-DISLLDASNQRLLFDYDFEDLNDRTLSEINLGNGSIILFSD   78 (127)
T ss_dssp             EEECHHHHHHCBHHHHHHHHHHHHTCCS-SEEEEETTTTEEEEETTBCTTTTSBTTTTTCCTTCEEEEEE
T ss_pred             EEeCcccccccCHHHHHHHHHHhcCCCC-cEEEEecCCCCeEeCCCccccccCcHHHcCcCCCcEEEEEc
Confidence            45553    4799999999988899864 555542  23444     22  3789999999999987764

>2ylm_A Ubiquitin carboxyl-terminal hydrolase 7; UBL; 2.70A {Homo sapiens}

Probab=88.07  E-value=0.59  Score=39.00  Aligned_cols=33  Identities=21%  Similarity=0.340  Sum_probs=30.4

Q ss_pred             EEEEEcCCCcHHHHHHHHHHHhCCCcCceeeee
Q 032224           13 ITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF   45 (145)
Q Consensus        13 ~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~   45 (145)
                      ..+.|..++|+.+|+++|++..|+|+++|||+.
T Consensus        38 ~~~rv~k~~~~~~l~~~va~~lg~~~~~~RlW~   70 (530)
T 2ylm_A           38 TVFKVLKNSSLAEFVQSLSQTMGFPQDQIRLWP   70 (530)
T ss_dssp             EEEEEETTSBHHHHHHHHHHHHTSCGGGEEEEE
T ss_pred             ceEEEcCcCCHHHHHHHHHHHhCcCcccEEEEE
Confidence            468899999999999999999999999999974

>2c7h_A RBBP6, retinoblastoma-binding protein 6, isoform 3; P53-associated, mRNA processing, splicing-associated, oesophageal cancer; NMR {Homo sapiens}

Probab=87.17  E-value=4  Score=25.79  Aligned_cols=42  Identities=14%  Similarity=0.117  Sum_probs=29.4

Q ss_pred             EEEEeCCCC-EEEEEEc-CCCcHHHHHHHHHHHhCCCcCceeee
Q 032224            3 IFVKTLTGK-TITLEVE-SSDTIDNVKAKIQDKEGIPPDQQRLI   44 (145)
Q Consensus         3 I~Vk~~~g~-~~~l~V~-~~~TV~~LK~~I~~~~gip~~~q~L~   44 (145)
                      |+-+..+.+ ...+.++ ...+|.+||.+|..+.++-..+.-|.
T Consensus         9 V~YKFkS~k~~~~v~fdG~~Isv~dLKr~I~~~~kl~~~dfDL~   52 (86)
T 2c7h_A            9 VHYKFSSKLNYDTVTFDGLHISLCDLKKQIMGREKLKAADCDLQ   52 (86)
T ss_dssp             EEEEETTCSSEEEEEESSSEEEHHHHHHHHHHHHTCCTTTEEEE
T ss_pred             EEEEEeecCCcceEEEcCCEEEHHHHHHHHHHHhCCCCCcccEE
Confidence            555655554 4567887 46799999999998887755454443

>1j0g_A Hypothetical protein 1810045K17; ubiquitin-like fold, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: d.15.1.6 PDB: 1wxs_A 1l7y_A

Probab=86.06  E-value=2.9  Score=26.19  Aligned_cols=63  Identities=21%  Similarity=0.271  Sum_probs=51.2

Q ss_pred             EEEEcCCCcHHHHHHHHHHHhCCCcCceeee-eCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224           14 TLEVESSDTIDNVKAKIQDKEGIPPDQQRLI-FAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus        14 ~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~-~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      .+.|+.++....+-.-.++++.+|+...-++ -+|--+...++-...=++.|+.|.|+.|.+-|
T Consensus        27 vlsVPE~~PftAVlkfaaEeF~vp~~TsAiiT~dGiGInP~QtAGnvFlKhGseLrlIPRDRVG   90 (92)
T 1j0g_A           27 VLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGSELRIIPRDRVG   90 (92)
T ss_dssp             EEEEETTSBHHHHHHHHHHHTTCCSSSEEEECTTSCCCCCSSBHHHHHHHTCSEEEEEECCSSC
T ss_pred             EEecCccCchHHHHHHHHHHcCCCccceEEEecCCcccChhhccchhhhhcCceeEeccccccc
Confidence            4689999999888888899999999776655 45556777788877778999999999887655

>1wgr_A Growth factor receptor-bound protein 7; RA domain, GRB7, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.15.1.5

Probab=85.67  E-value=2  Score=27.96  Aligned_cols=67  Identities=19%  Similarity=0.260  Sum_probs=45.5

Q ss_pred             EEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCc-eeee------eCCeeccCCCcc----ccccccCCCEEEE
Q 032224            3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQ-QRLI------FAGKQLEDGRTL----ADYNIQKESTLHL   69 (145)
Q Consensus         3 I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~-q~L~------~~G~~L~d~~tL----~~~gi~~~sti~l   69 (145)
                      |.|-..+|....|.|++++|+.++-+.+..+.+...+. --|+      +--+.++|...|    +...+.....+.+
T Consensus        12 vkvf~~Dgssksi~V~~~~Ta~dv~~~L~~K~~~~~~~~WaLvE~~P~L~~ER~~EDHE~vvevl~~W~~~s~nr~~F   89 (100)
T 1wgr_A           12 VKVYSEDGACRSVEVAAGATARHVCEMLVQRAHALSDETWGLVECHPHLALERGLEDHESVVEVQAAWPVGGDSRFVF   89 (100)
T ss_dssp             EEEEETTSCEEEEEECTTCCHHHHHHHHHCSSSCCCCCCCCEEEEETTTTEEEEECSSSCHHHHHTTSCSSSCCEEEE
T ss_pred             EEEEecCCCEEEEEECCCCcHHHHHHHHHHHcCCCCCCCeEEEEecCCCCcEEeccCchhHHHHHhhCccCCCcEEEE
Confidence            44555689999999999999999999999998876443 2332      122567887654    3344444444443

>3u52_E Phenol hydroxylase component PHO; 4-helix bundle, dioxygen, hydrocarbons, oxidore; HET: MPO EPE; 1.95A {Pseudomonas stutzeri} PDB: 2inn_E* 2inp_E

Probab=85.25  E-value=3.9  Score=27.35  Aligned_cols=59  Identities=14%  Similarity=0.179  Sum_probs=45.6

Q ss_pred             EEEEEEcCCCcHHHHHHHHHH-HhC-------CCcCceeeeeCCeecc--CCCccccccccCCCEEEEE
Q 032224           12 TITLEVESSDTIDNVKAKIQD-KEG-------IPPDQQRLIFAGKQLE--DGRTLADYNIQKESTLHLV   70 (145)
Q Consensus        12 ~~~l~V~~~~TV~~LK~~I~~-~~g-------ip~~~q~L~~~G~~L~--d~~tL~~~gi~~~sti~l~   70 (145)
                      .+.+.|+|+++.++|-+++-. .++       |+-+.-.+..+|++..  .+.+|.+.||...|.|.+.
T Consensus        39 p~~~p~pP~mpFg~lv~~vl~~~~~~hPDfa~idws~v~W~l~g~pftPD~~kSLaenG~~HKs~lrf~  107 (119)
T 3u52_E           39 PFALLVQPGMTFSALVDEILKPATAAHPDSAKADFLNAEWLLNDEPFTPKADASLKEQGIDHKSMLTVT  107 (119)
T ss_dssp             CEEEEECTTSBHHHHHHHTHHHHTTTSTTGGGCCTTSSEEEETTEEECCCTTSBTTTTTCCTTEEEEEE
T ss_pred             ceeecCCCCCCHHHHHHHhcchhhhcCCccccCCcchheEEECCccCCCChhhhHHHcCCCchheEEEe
Confidence            478999999999999988753 334       3333456778999874  5689999999988888765

>3qa8_A MGC80376 protein; kinase ubiquitin-like domain, phosphorylation, kinase domain ubiquitin-like domain, kinase, substrate binding; 3.60A {Xenopus laevis} PDB: 3qad_A* 3rzf_A*

Probab=84.71  E-value=0.91  Score=39.03  Aligned_cols=50  Identities=30%  Similarity=0.563  Sum_probs=40.3

Q ss_pred             CCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCC-eeccCCCccccc
Q 032224           10 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG-KQLEDGRTLADY   59 (145)
Q Consensus        10 g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G-~~L~d~~tL~~~   59 (145)
                      .+...+.+.++.|+.+|+..|++.+|||++.|.+++.. ..++.....++|
T Consensus       321 ~~~~~~~i~~~~tl~~l~~~i~~~T~i~~~~q~~~~~~~~~~~p~~~~~~~  371 (676)
T 3qa8_A          321 GRVHTYPVTENENLQNLKSWLQQDTGIPEEEQELLQASGLALNSAQPLTQY  371 (676)
T ss_dssp             SCCCEEECCTTCCHHHHHHHHHTTSCCCSTTCEEESSSSCCCCTTSCGGGS
T ss_pred             cccceeecCCCccHHHHHHHHHHHhCCCHHHHHHHhccCCCCCCCcchhhh
Confidence            45567889999999999999999999999999988754 466666555554

>1wgy_A RAP guanine nucleotide exchange factor 5; ubiquitin fold, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Homo sapiens} SCOP: d.15.1.5

Probab=83.58  E-value=7.2  Score=25.47  Aligned_cols=63  Identities=10%  Similarity=0.206  Sum_probs=45.2

Q ss_pred             CCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee---eCCee--ccCC--CccccccccCCCEEEEEEE
Q 032224            8 LTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI---FAGKQ--LEDG--RTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         8 ~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~---~~G~~--L~d~--~tL~~~gi~~~sti~l~~~   72 (145)
                      .+..-+++.+..+.|+.+++..++++.+...+++.|+   ++|..  |.++  .....+++  ...|++..+
T Consensus        17 ~Dhsy~tvr~~v~~sa~eIl~~va~kl~~~~e~l~Lv~v~ssGEk~~lqp~d~si~tsL~~--NgRLfvc~k   86 (104)
T 1wgy_A           17 TEHSYVSVKAKVSSIAQEILKVVAEKIQYAEEDLALVAITFSGEKHELQPNDLVISKSLEA--SGRIYVYRK   86 (104)
T ss_dssp             SSSCEEEECCCTTCBSHHHHHHHHHHHTSCGGGEEEEEECSSCCCCBCCTTSBSSCCSSCS--SCEEEEEEC
T ss_pred             ccCceEEEEEeccchHHHHHHHHHHHhcCCccceEEEEEccCCcEeecCCcceEEEeeccc--cceEEEeeh
Confidence            3455677888999999999999999999877778776   67863  4433  33344444  567777655

>2inc_C TOUB protein; DIIRON, 4-helix bundle, carboxylate bridge, metalloenzyme, oxidoreductase; HET: P6G; 1.85A {Pseudomonas stutzeri} SCOP: d.15.12.1 PDB: 2ind_C* 3n20_C* 1t0r_C 1t0s_C 1t0q_C* 3n1x_C 3n1y_C* 3n1z_C* 2rdb_C* 3rn9_C* 3rna_C 3rnb_C 3rnc_C 3rne_C 3rnf_C* 3rng_C

Probab=81.99  E-value=7.3  Score=24.39  Aligned_cols=61  Identities=20%  Similarity=0.321  Sum_probs=48.9

Q ss_pred             EEEEEEcCCCcHHHHHHHHHHHh-C--CCc--C-ceeeeeCC--eeccCCCccccccccCCCEEEEEEE
Q 032224           12 TITLEVESSDTIDNVKAKIQDKE-G--IPP--D-QQRLIFAG--KQLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus        12 ~~~l~V~~~~TV~~LK~~I~~~~-g--ip~--~-~q~L~~~G--~~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      ...+.|+.++|+.++=++++... |  +++  . -.++.++|  +.|..+.++++.||.+-..|.+...
T Consensus        14 ~~LV~VDt~dTmdqVA~kvA~HsVGrRV~p~p~~~~rVr~~G~~~~~pr~~tvae~gl~P~e~vev~~~   82 (83)
T 2inc_C           14 IQLVPVDTEDTMDQVAEKCAYHSINRRVHPQPEKILRVRRHEDGTLFPRGMIVSDAGLRPTETLDIIFM   82 (83)
T ss_dssp             EEEEEECTTCBHHHHHHHHHTTTBTTTBCCCTTSEEEEEETTTCCEECTTCBGGGSCCCTTCEEEEEEE
T ss_pred             EEEEEecCCCcHHHHHHHHhhhhcceecCCCCCCeEEEEecCCccCCCCCCEeeccCCCCceEEEEEEc
Confidence            45578999999999999997553 3  322  2 46777888  8999999999999999999988753

>3ge3_C Toluene-4-monooxygenase system protein B; DIIRON hydroxylase, effector protein, T201A, aromatic hydrocarbons catabolism, FAD, flavoprotein; 1.52A {Pseudomonas mendocina} SCOP: d.15.12.0 PDB: 3dhh_C* 3dhg_C* 3dhi_C 3ge8_C 3i5j_C 3i63_C 3q14_C 3q2a_C* 3q3m_C* 3q3n_C* 3q3o_C* 3rmk_C* 3ri7_C*

Probab=80.92  E-value=8.1  Score=24.21  Aligned_cols=60  Identities=15%  Similarity=0.232  Sum_probs=48.6

Q ss_pred             EEEEEEcCCCcHHHHHHHHHHHh-C--CC--cCceeeeeCCee--ccCCCccccccccCCCEEEEEE
Q 032224           12 TITLEVESSDTIDNVKAKIQDKE-G--IP--PDQQRLIFAGKQ--LEDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus        12 ~~~l~V~~~~TV~~LK~~I~~~~-g--ip--~~~q~L~~~G~~--L~d~~tL~~~gi~~~sti~l~~   71 (145)
                      ...+.|+.++|+.++=++++... |  ++  |.-.++..+|..  |.++.++++.||++-+.|.+..
T Consensus        16 ~~Lv~VDt~dtmdqVA~k~A~h~VGrrv~p~pg~lrVr~~G~~~~~Pr~mtVaeaGl~Pme~vev~~   82 (84)
T 3ge3_C           16 VQLVVVDLNDSMDQVAEKVAYHCVNRRVAPREGVMRVRKHRSTELFPRDMTIAESGLNPTEVIDVVF   82 (84)
T ss_dssp             EEEEEEETTCBHHHHHHHHHHTTBTTTBCCCSSCEEEEETTCSCBCCTTCBHHHHCCCTTCEEEEEE
T ss_pred             EEEEEecCCCcHHHHHHHHhhhhcceeeCCCCCcEEEEECCCcccCCCCCEeeccCCCcceEEEEEE
Confidence            45678999999999999997653 3  32  235678889987  9999999999999999998764

>3u5c_e 40S ribosomal protein S30-A, 40S ribosomal protein S29-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_Z* 3j16_E 3u5g_e

Probab=80.32  E-value=0.13  Score=30.63  Aligned_cols=27  Identities=26%  Similarity=0.233  Sum_probs=21.8

Q ss_pred             cCCccccccccccCCcccccccceeee
Q 032224           74 RGGAKKRKKKTYTKPKKIKHKKKKVKL  100 (145)
Q Consensus        74 ~gg~~k~~k~~~~~pk~~k~~~kk~k~  100 (145)
                      .|.-.+++|+..+|||.+++++++.+.
T Consensus         5 HGSLarAGKVR~QTPKV~k~eKkk~~~   31 (63)
T 3u5c_e            5 HGSLARAGKVKSQTPKVEKTEKPKKPK   31 (63)
T ss_dssp             BCCCTTTTHHHHHSCCCCCCCCCCCCC
T ss_pred             cchhhhcccccCCCCCCcccccccCCc
Confidence            456678899999999999988776543

>1wfl_A Zinc finger protein 216; ZF-AN1 domain, zinc binding, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.80.1.1

Probab=80.25  E-value=0.38  Score=29.67  Aligned_cols=26  Identities=35%  Similarity=0.797  Sum_probs=19.5

Q ss_pred             EEEecccCCCCCCCccEEecee--CCcccccC
Q 032224          114 VQRLRKECPNAECGAGTFMASH--FDRHYCEF  143 (145)
Q Consensus       114 ~~~l~~~c~~~~c~~g~~ma~h--~~~~~c~~  143 (145)
                      |..+.-.|   +|| +.|++.|  .|.|-|.-
T Consensus        35 vgL~gf~C---rCg-~~FCs~HRy~e~H~C~f   62 (74)
T 1wfl_A           35 VGLTGFDC---RCG-NLFCGLHRYSDKHNCPY   62 (74)
T ss_dssp             CGGGCEEC---TTS-CEECSSSCSTTTTTCCC
T ss_pred             ccccCeec---CCC-CEechhcCCCccCCCcc
Confidence            33456788   599 8999999  57888853

---

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	145
d1wh3a_	87	d.15.1.1 (A:) 2'-5'-oligoadenylate synthetase-like	1e-40
d1ogwa_	76	d.15.1.1 (A:) Ubiquitin {Human (Homo sapiens) [Tax	2e-40
d2zeqa1	78	d.15.1.1 (A:1-78) Ubiquitin-like domain of parkin	6e-39
d1bt0a_	73	d.15.1.1 (A:) Rub1 {Mouse-ear cress (Arabidopsis t	1e-38
d1z2ma2	76	d.15.1.1 (A:79-154) Interferon-induced 15 kDa prot	1e-36
d2c9wb1	103	d.15.1.1 (B:2-104) Elongin B {Human (Homo sapiens)	2e-36
d1wx9a1	73	d.15.1.1 (A:8-80) Large proline-rich protein BAT3	3e-34
d1zkha1	86	d.15.1.1 (A:1-86) Splicing factor 3 subunit 1, C-t	5e-34
d1uela_	95	d.15.1.1 (A:) Ubiquitin-like domain of Rad23 homol	3e-33
d1wgha_	116	d.15.1.1 (A:) Ubiquitin-like protein 3, Ubl3 {Mous	8e-33
d2faza1	76	d.15.1.1 (A:1-76) Ubiquitin-like PHD and RING fing	1e-32
d1v2ya_	105	d.15.1.1 (A:) Ubiquitin-like protein 3300001g02rik	4e-32
d1ttna1	80	d.15.1.1 (A:21-100) Dendritic cell-derived ubiquit	6e-32
d1oqya4	77	d.15.1.1 (A:1-77) Ubiquitin-like domain of Rad23 h	8e-32
d1wy8a1	76	d.15.1.1 (A:8-83) Ubiquitin-like PHD and RING fing	7e-31
d1uh6a_	100	d.15.1.1 (A:) Ubiquitin-like protein 5, ubl5 {Mous	1e-30
d1wgda_	93	d.15.1.1 (A:) Homocysteine-responsive endoplasmic	4e-30
d2bwfa1	73	d.15.1.1 (A:2-74) DSK2 {Baker's yeast (Saccharomyc	8e-30
d1z2ma1	76	d.15.1.1 (A:3-78) Interferon-induced 15 kDa protei	3e-29
d1v5oa_	102	d.15.1.1 (A:) 1700011n24rik protein {Mouse (Mus mu	4e-29
d1wiaa_	95	d.15.1.1 (A:) Ubiquitin-like protein bab25500 (201	2e-28
d1we6a_	111	d.15.1.1 (A:) Splicing factor 3 subunit 1, C-termi	2e-26
d1j8ca_	103	d.15.1.1 (A:) Ubiquitin-like N-terminal domain of	6e-26
d1wx8a1	83	d.15.1.1 (A:8-90) 4931431F19Rik {Mouse (Mus muscul	2e-25
d1se9a_	101	d.15.1.1 (A:) Hypothetical protein At3g01050 {Thal	3e-25
d1v5ta_	90	d.15.1.1 (A:) 8430435i17rik protein {Mouse (Mus mu	5e-25
d1m94a_	73	d.15.1.1 (A:) Ubiquitin-like modifier protein hub1	9e-25
d1v6ea_	95	d.15.1.1 (A:) Ubiquitin-like domain of tubulin fol	4e-24
d1yqba1	84	d.15.1.1 (A:15-98) Ubiquilin-3 {Human (Homo sapien	9e-24
d1wjna_	97	d.15.1.1 (A:) Tubulin-folding protein TbcE {Mouse	1e-23
d1x1ma1	94	d.15.1.1 (A:8-101) Ubiquitin-like protein 7 {Mouse	1e-22
d1wjua_	100	d.15.1.1 (A:) NEDD8 ultimate buster-1, NUB1 {Human	4e-22
d1euvb_	79	d.15.1.1 (B:) SUMO-1 (smt3 homologue) {Baker's yea	6e-21
d1v86a_	95	d.15.1.1 (A:) hypothetical D7wsu128e protein {Mous	9e-21
d1wgga_	96	d.15.1.1 (A:) Ubiquitin carboxyl-terminal hydrolas	1e-19
d2uyzb1	77	d.15.1.1 (B:20-96) SUMO-1 (smt3 homologue) {Human	1e-19
d1t0ya_	90	d.15.1.1 (A:) Ubiquitin-like domain of tubulin fol	3e-19
d1wxva1	81	d.15.1.1 (A:7-87) Bag-family molecular chaperone r	2e-18
d2k4xa1	55	g.41.8.8 (A:1-55) Ribosomal protein S27ae {Thermop	8e-13

>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 =  129 bits (325), Expect = 1e-40
 Identities = 26/76 (34%), Positives = 41/76 (53%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          +Q+FVK   G +    +  +  I  +K +I+D++G+P  QQ+L F G+ L+D   L  Y 
Sbjct: 8  IQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIYG 67

Query: 61 IQKESTLHLVLRLRGG 76
          IQ   TL L  +   G
Sbjct: 68 IQDSDTLILSKKKGSG 83

>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 =  128 bits (322), Expect = 2e-40
 Identities = 73/76 (96%), Positives = 75/76 (98%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query: 61 IQKESTLHLVLRLRGG 76
          IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 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 =  124 bits (313), Expect = 6e-39
 Identities = 25/75 (33%), Positives = 48/75 (64%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          M +FV+  +     +EV+S  +I  +K  +  ++G+P DQ R+IFAGK+L +  T+ + +
Sbjct: 3  MIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKRQGVPADQLRVIFAGKELPNHLTVQNCD 62

Query: 61 IQKESTLHLVLRLRG 75
          ++++S +H+V R R 
Sbjct: 63 LEQQSIVHIVQRPRR 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 =  123 bits (311), Expect = 1e-38
 Identities = 45/73 (61%), Positives = 57/73 (78%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          M I VKTLTGK I +++E +DTID +K ++++KEGIPP QQRLI+AGKQL D +T  DYN
Sbjct: 1  MLIKVKTLTGKEIEIDIEPTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLADDKTAKDYN 60

Query: 61 IQKESTLHLVLRL 73
          I+  S LHLVL L
Sbjct: 61 IEGGSVLHLVLAL 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 =  118 bits (297), Expect = 1e-36
 Identities = 25/73 (34%), Positives = 41/73 (56%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          + I V+   G++ T EV  + T+ ++K ++   EG+  D   L F GK LED   L +Y 
Sbjct: 4  LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYG 63

Query: 61 IQKESTLHLVLRL 73
          ++  ST+ + LRL
Sbjct: 64 LKPLSTVFMNLRL 76

>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 =  119 bits (299), Expect = 2e-36
 Identities = 23/95 (24%), Positives = 42/95 (44%), Gaps = 8/95 (8%)

Query: 2  QIFVKTLTGK-TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           +F+     K TI  + + S T+  +K  ++     PPD+QRL    + L+DG+TL +  
Sbjct: 1  DVFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGKTLGECG 60

Query: 61 I-------QKESTLHLVLRLRGGAKKRKKKTYTKP 88
                  Q  +T+ L  R     +    + ++ P
Sbjct: 61 FTSQTARPQAPATVGLAFRADDTFEALCIEPFSSP 95

>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 =  112 bits (282), Expect = 3e-34
 Identities = 25/72 (34%), Positives = 40/72 (55%), Gaps = 1/72 (1%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          +++ VKTL  +T T  V +   +   K  I     IP ++QRLI+ G+ L+D + L +YN
Sbjct: 1  LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYN 60

Query: 61 IQKESTLHLVLR 72
          +     +HLV R
Sbjct: 61 VGG-KVIHLVER 71

>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 =  112 bits (281), Expect = 5e-34
 Identities = 21/68 (30%), Positives = 39/68 (57%)

Query: 8  LTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTL 67
          L G+ +   +  +D +  +K KI +  G+P  +Q+L + G  ++D  +LA YN+   + +
Sbjct: 19 LNGQVLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMANGAVI 78

Query: 68 HLVLRLRG 75
          HL L+ RG
Sbjct: 79 HLALKERG 86

>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 =  110 bits (276), Expect = 3e-33
 Identities = 23/87 (26%), Positives = 46/87 (52%), Gaps = 3/87 (3%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDK---EGIPPDQQRLIFAGKQLEDGRTLA 57
          MQ+ +KTL  +T  ++++  +T+  +K KI+ +   +  P   Q+LI+AGK L D   L 
Sbjct: 1  MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALK 60

Query: 58 DYNIQKESTLHLVLRLRGGAKKRKKKT 84
          +Y I +++ + +++            T
Sbjct: 61 EYKIDEKNFVVVMVTKPKAVSTPAPAT 87

>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 =  110 bits (275), Expect = 8e-33
 Identities = 15/92 (16%), Positives = 36/92 (39%), Gaps = 8/92 (8%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKI--------QDKEGIPPDQQRLIFAGKQLED 52
           + + +  ++GKT       +D+  ++   +        ++++   P+  RLI+ G+ L  
Sbjct: 17  INLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHG 76

Query: 53  GRTLADYNIQKESTLHLVLRLRGGAKKRKKKT 84
             TL    +    T  + L  R    +   + 
Sbjct: 77  NVTLGALKLPFGKTTVMHLVARETLPEPNSQG 108

>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 =  108 bits (270), Expect = 1e-32
 Identities = 27/75 (36%), Positives = 46/75 (61%), Gaps = 2/75 (2%)

Query: 1  MQIFVKTLTGK-TITLE-VESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLAD 58
          M I V+T+ G+ T T++ +     ++ ++ KIQ+   + P  QRL + GKQ+EDG TL D
Sbjct: 1  MWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFD 60

Query: 59 YNIQKESTLHLVLRL 73
          Y ++   T+ L++R 
Sbjct: 61 YEVRLNDTIQLLVRQ 75

>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 =  107 bits (269), Expect = 4e-32
 Identities = 18/93 (19%), Positives = 39/93 (41%), Gaps = 16/93 (17%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQR---------------LIF 45
           M + V  + G+ + + V  + T+ ++K  IQ    +  +++                L  
Sbjct: 8   MTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTS 67

Query: 46  AGKQLEDGR-TLADYNIQKESTLHLVLRLRGGA 77
           AG++L + R  L DY I+    +  + +L   +
Sbjct: 68  AGEKLTEDRKKLRDYGIRNRDEVSFIKKLGQKS 100

>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 =  106 bits (267), Expect = 6e-32
 Identities = 21/73 (28%), Positives = 40/73 (54%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           Q+ ++  TGK + L V S+DT+ ++K ++   EG+ P  QR  F+G+ L D     +  
Sbjct: 4  CQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELK 63

Query: 61 IQKESTLHLVLRL 73
          I K+  + +++  
Sbjct: 64 IPKDYVVQVIVSQ 76

>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 =  106 bits (266), Expect = 8e-32
 Identities = 23/74 (31%), Positives = 44/74 (59%), Gaps = 3/74 (4%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLA 57
          + I +KTL  +T  + +E  +T+  +K KI+ ++G    P   Q+LI+AGK L D   + 
Sbjct: 3  VTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIR 62

Query: 58 DYNIQKESTLHLVL 71
          DY I +++ + +++
Sbjct: 63 DYRIDEKNFVVVMV 76

>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 =  103 bits (259), Expect = 7e-31
 Identities = 28/74 (37%), Positives = 45/74 (60%), Gaps = 2/74 (2%)

Query: 1  MQIFVKTLTG-KTITLE-VESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLAD 58
          M I V+T+ G KT T+E V    TI+ ++ ++     + P+ QRL + GKQLE+G TL D
Sbjct: 1  MWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFD 60

Query: 59 YNIQKESTLHLVLR 72
          Y++     + L++R
Sbjct: 61 YDVGLNDIIQLLVR 74

>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 =  103 bits (259), Expect = 1e-30
 Identities = 16/72 (22%), Positives = 31/72 (43%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           +++      GK + ++  + DTI ++K  I  + G   ++  L       +D  +L DY 
Sbjct: 29  IEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHVSLGDYE 88

Query: 61  IQKESTLHLVLR 72
           I     L L  +
Sbjct: 89  IHDGMNLELYYQ 100

>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 =  102 bits (256), Expect = 4e-30
 Identities = 22/82 (26%), Positives = 41/82 (50%), Gaps = 6/82 (7%)

Query: 1  MQIFVKTLTGK--TITLEVESSDTIDNVKAKIQDKEG--IPPDQQRLIFAGKQLEDGRTL 56
          + + VK+   +   + L  +   ++ ++KA +         P+ QRLI++GK L D + L
Sbjct: 8  VTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCL 67

Query: 57 ADYNIQKES--TLHLVLRLRGG 76
           D   ++E    LHLV  ++ G
Sbjct: 68 RDLLPKQEKRHVLHLVCNVKSG 89

>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 =  100 bits (252), Expect = 8e-30
 Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 1/72 (1%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          + I +K+       + V    T+   K  I    GIP   QRLI++GK L+D +T+  Y+
Sbjct: 2  LNIHIKSG-QDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYH 60

Query: 61 IQKESTLHLVLR 72
          IQ   ++HLV  
Sbjct: 61 IQDGHSVHLVKS 72

>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 = 99.6 bits (248), Expect = 3e-29
 Identities = 24/73 (32%), Positives = 37/73 (50%), Gaps = 2/73 (2%)

Query: 2  QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF--AGKQLEDGRTLADY 59
           + VK L G    + + SS ++  +KA+I  K G+   QQRL    +G  L+D   LA  
Sbjct: 2  DLTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQ 61

Query: 60 NIQKESTLHLVLR 72
           +   ST+ LV+ 
Sbjct: 62 GLGPGSTVLLVVD 74

>d1v5oa_ d.15.1.1 (A:) 1700011n24rik protein {Mouse (Mus musculus) [TaxId: 10090]} Length = 102

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]

 Score =  100 bits (250), Expect = 4e-29
 Identities = 16/83 (19%), Positives = 39/83 (46%), Gaps = 5/83 (6%)

Query: 1  MQIFV----KTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQ-LEDGRT 55
          M I V    + LT  T +L+V     + N +   + + G+P ++ ++++  +   +D  +
Sbjct: 8  MLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCS 67

Query: 56 LADYNIQKESTLHLVLRLRGGAK 78
          L  Y ++    + L+ +   G +
Sbjct: 68 LGSYGLKDGDMVVLLQKDNVGLR 90

>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 = 98.1 bits (244), Expect = 2e-28
 Identities = 19/78 (24%), Positives = 32/78 (41%), Gaps = 4/78 (5%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLADY 59
          + + +K L            DT+  +K+K    +     Q +LI+ G+ L +  RTL+  
Sbjct: 8  INVRLKFLNDTEELAVARPEDTVGTLKSKYFPGQ---ESQMKLIYQGRLLQDPARTLSSL 64

Query: 60 NIQKESTLHLVLRLRGGA 77
          NI     +H      G A
Sbjct: 65 NITNNCVIHCHRSPPGAA 82

>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 = 93.5 bits (232), Expect = 2e-26
 Identities = 23/79 (29%), Positives = 41/79 (51%), Gaps = 2/79 (2%)

Query: 1   MQIFVKTLT-GKTITLEVES-SDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLAD 58
           +++       G+ + + V+S S+ + ++K KI  +  IP ++Q+L      L+D  +LA 
Sbjct: 30  IRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMSLAH 89

Query: 59  YNIQKESTLHLVLRLRGGA 77
           YN+     L L LR R G 
Sbjct: 90  YNVGAGEILTLSLRERSGP 108

>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 = 92.4 bits (229), Expect = 6e-26
 Identities = 24/72 (33%), Positives = 36/72 (50%), Gaps = 1/72 (1%)

Query: 1   MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
           +++ VKT   K     V  + ++   K  I  +     DQ  LIFAGK L+D  TL  + 
Sbjct: 33  IKVTVKTPKEK-EEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQHG 91

Query: 61  IQKESTLHLVLR 72
           I    T+HLV++
Sbjct: 92  IHDGLTVHLVIK 103

>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 = 90.0 bits (223), Expect = 2e-25
 Identities = 20/72 (27%), Positives = 32/72 (44%), Gaps = 1/72 (1%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          +++ VKT         +  +  +   K +I        D+  LIF GK L D   L+   
Sbjct: 11 IRVSVKTPQDCH-EFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDILSQRG 69

Query: 61 IQKESTLHLVLR 72
          I   ST+H+V+R
Sbjct: 70 ILDGSTVHVVVR 81

>d1se9a_ d.15.1.1 (A:) Hypothetical protein At3g01050 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 101

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]

 Score = 90.4 bits (224), Expect = 3e-25
 Identities = 21/94 (22%), Positives = 41/94 (43%), Gaps = 14/94 (14%)

Query: 1   MQIFVKTLTGKTIT-LEVESSDTIDNVKAKIQD-----KEGIP--PDQQRLIFAGKQLED 52
           ++I  +   G  I       + T+  +K  +       KE  P    + +LI AGK LE+
Sbjct: 8   LEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLEN 67

Query: 53  GRTLADYNI------QKESTLHLVLRLRGGAKKR 80
            +T+ DY           +T+H++++     K++
Sbjct: 68  SKTVKDYRSPVSNLAGAVTTMHVIIQAPVTEKEK 101

>d1v5ta_ d.15.1.1 (A:) 8430435i17rik protein {Mouse (Mus musculus) [TaxId: 10090]} Length = 90

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]

 Score = 89.7 bits (222), Expect = 5e-25
 Identities = 15/79 (18%), Positives = 35/79 (44%), Gaps = 3/79 (3%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI---FAGKQLEDGRTLA 57
          + I VK    +     +   DT+ ++K  ++   G+ P++Q+L+     GK  E+   L 
Sbjct: 8  LPIIVKWGGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKLG 67

Query: 58 DYNIQKESTLHLVLRLRGG 76
             ++  + + ++     G
Sbjct: 68 ALKLKPNTKIMMMGTRESG 86

>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 = 88.2 bits (218), Expect = 9e-25
 Identities = 16/69 (23%), Positives = 35/69 (50%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          +++ V    GK + ++  + D++ + K  +  + G  P++  L   G  L+D  +L DY 
Sbjct: 2  IEVVVNDRLGKKVRVKCLAEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKDHISLEDYE 61

Query: 61 IQKESTLHL 69
          +  ++ L L
Sbjct: 62 VHDQTNLEL 70

>d1v6ea_ d.15.1.1 (A:) Ubiquitin-like domain of tubulin folding cofactor B {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 domain of tubulin folding cofactor B
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 87.3 bits (216), Expect = 4e-24
 Identities = 15/84 (17%), Positives = 27/84 (32%), Gaps = 8/84 (9%)

Query: 1  MQIFVKT-LTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQ-------LED 52
          + +F+ + L           S TI   K K++   G P     L   G          ++
Sbjct: 8  VMVFISSSLNSFRSEKRYSRSLTIAEFKCKLELVVGSPASCMELELYGADDKFYSKLDQE 67

Query: 53 GRTLADYNIQKESTLHLVLRLRGG 76
             L  Y +     +H++     G
Sbjct: 68 DALLGSYPVDDGCRIHVIDHSGSG 91

>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 = 86.2 bits (213), Expect = 9e-24
 Identities = 27/77 (35%), Positives = 42/77 (54%), Gaps = 1/77 (1%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          +++ VKT   K     V  + TI  +K +I  +    PDQ  LIFAGK L+D  +LA   
Sbjct: 8  IKVTVKTPKDKE-DFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCG 66

Query: 61 IQKESTLHLVLRLRGGA 77
          ++   T+HLV++ +  A
Sbjct: 67 VRDGLTVHLVIKRQHRA 83

>d1wjna_ d.15.1.1 (A:) Tubulin-folding protein TbcE {Mouse (Mus musculus) [TaxId: 10090]} Length = 97

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]

 Score = 86.1 bits (213), Expect = 1e-23
 Identities = 10/73 (13%), Positives = 26/73 (35%), Gaps = 8/73 (10%)

Query: 6  KTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLE--------DGRTLA 57
               + +  ++  S T+  VK  +     +P  +  L +   ++         D + L 
Sbjct: 18 NQPERQILEKQLPDSMTVQKVKGLLSRLLKVPVSELLLSYESSKMPGREIELENDLQPLQ 77

Query: 58 DYNIQKESTLHLV 70
           Y+++    L + 
Sbjct: 78 FYSVENGDCLLVR 90

>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 = 83.4 bits (206), Expect = 1e-22
 Identities = 21/69 (30%), Positives = 35/69 (50%), Gaps = 3/69 (4%)

Query: 7  TLTGKTITLEVESSDTIDNVKAKIQDK--EGIP-PDQQRLIFAGKQLEDGRTLADYNIQK 63
           L    +        +I  +K  I  K  E +P P+   LI+ G++L+D +TL  Y IQ 
Sbjct: 24 QLPETELGEYSLGGYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLKDDQTLDFYGIQP 83

Query: 64 ESTLHLVLR 72
           ST+H++ +
Sbjct: 84 GSTVHVLRK 92

>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 = 82.3 bits (203), Expect = 4e-22
 Identities = 13/79 (16%), Positives = 35/79 (44%), Gaps = 2/79 (2%)

Query: 1  MQIFV--KTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLAD 58
          +++F+  +    +   LE     T   +++KI +  G+  +  +++   KQL+ G+TL +
Sbjct: 18 IEVFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQLGKTLEE 77

Query: 59 YNIQKESTLHLVLRLRGGA 77
            +       ++   +   
Sbjct: 78 QGVAHNVKAMVLELKQSSG 96

>d1euvb_ d.15.1.1 (B:) SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomyces cerevisiae), smt3 [TaxId: 4932]} Length = 79

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]

 Score = 78.7 bits (194), Expect = 6e-21
 Identities = 10/76 (13%), Positives = 30/76 (39%), Gaps = 1/76 (1%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          + + V       I  +++ +  +  +      ++G   D  R ++ G +++  +T  D +
Sbjct: 5  INLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLD 63

Query: 61 IQKESTLHLVLRLRGG 76
          ++    +       GG
Sbjct: 64 MEDNDIIEAHREQIGG 79

>d1v86a_ d.15.1.1 (A:) hypothetical D7wsu128e protein {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: hypothetical D7wsu128e protein
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 78.8 bits (194), Expect = 9e-21
 Identities = 13/76 (17%), Positives = 32/76 (42%), Gaps = 2/76 (2%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          + + +         ++V    T   +K KI    G+PP  Q++++    + + +TL +  
Sbjct: 18 VDLKIIW-NKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMY-KGLVPEDKTLREIK 75

Query: 61 IQKESTLHLVLRLRGG 76
          +   + + +V     G
Sbjct: 76 VTSGAKIMVVGSTISG 91

>d1wgga_ d.15.1.1 (A:) Ubiquitin carboxyl-terminal hydrolase 14 {Mouse (Mus musculus) [TaxId: 10090]} Length = 96

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]

 Score = 75.8 bits (186), Expect = 1e-19
 Identities = 15/84 (17%), Positives = 36/84 (42%), Gaps = 1/84 (1%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
            + VK    K   +E+ + +     KA++    G+ P +Q+++  G  L+D     +  
Sbjct: 8  YSVTVKWGKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDD-DWGNIK 66

Query: 61 IQKESTLHLVLRLRGGAKKRKKKT 84
          ++   T+ ++       ++   KT
Sbjct: 67 MKNGMTVLMMGSADALPEEPSAKT 90

>d2uyzb1 d.15.1.1 (B:20-96) SUMO-1 (smt3 homologue) {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: SUMO-1 (smt3 homologue)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 75.2 bits (185), Expect = 1e-19
 Identities = 13/75 (17%), Positives = 35/75 (46%)

Query: 1  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60
          +++ V       I  +V+ +  +  +K     ++G+P +  R +F G+++ D  T  +  
Sbjct: 3  IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELG 62

Query: 61 IQKESTLHLVLRLRG 75
          +++E  + +     G
Sbjct: 63 MEEEDVIEVYQEQTG 77

>d1t0ya_ d.15.1.1 (A:) Ubiquitin-like domain of tubulin folding cofactor B {Nematode (Caenorhabditis elegans) [TaxId: 6239]} Length = 90

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]

 Score = 74.5 bits (183), Expect = 3e-19
 Identities = 11/76 (14%), Positives = 28/76 (36%), Gaps = 7/76 (9%)

Query: 7  TLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQ-------LEDGRTLADY 59
            T   +  +  +  +++++K K++   G   D  R+              +  ++L D 
Sbjct: 12 NATDFPMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAKSLKDL 71

Query: 60 NIQKESTLHLVLRLRG 75
           ++    +H V    G
Sbjct: 72 GVRDGYRIHAVDVTGG 87

>d1wxva1 d.15.1.1 (A:7-87) Bag-family molecular chaperone regulator-1 {Human (Homo sapiens) [TaxId: 9606]} Length = 81

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]

 Score = 72.6 bits (178), Expect = 2e-18
 Identities = 18/78 (23%), Positives = 34/78 (43%), Gaps = 7/78 (8%)

Query: 1  MQIFVKTLTGKTITLEVE-----SSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQL-EDGR 54
          + + V   + +   L V      S   + ++   +++  G+P   Q+LIF GK L E   
Sbjct: 2  LTVTVTH-SNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMET 60

Query: 55 TLADYNIQKESTLHLVLR 72
           L+   IQ    + L+ +
Sbjct: 61 PLSALGIQDGCRVMLIGK 78

>d2k4xa1 g.41.8.8 (A:1-55) Ribosomal protein S27ae {Thermoplasma acidophilum [TaxId: 2303]} Length = 55

class: Small proteins
fold: Rubredoxin-like
superfamily: Zn-binding ribosomal proteins
family: Ribosomal protein S27a
domain: Ribosomal protein S27ae
species: Thermoplasma acidophilum [TaxId: 2303]

 Score = 57.1 bits (138), Expect = 8e-13
 Identities = 16/42 (38%), Positives = 24/42 (57%), Gaps = 3/42 (7%)

Query: 100 LAVLQFYKVDDSGKVQRLRKECPNAECGAGTFMASHFDRHYC 141
           +   + Y++ D GK+ R  + CP   CG G F+A H DR+ C
Sbjct: 1   MQKRELYEIAD-GKLVRKHRFCPR--CGPGVFLAEHADRYSC 39

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	145
d1ogwa_	76	Ubiquitin {Human (Homo sapiens) [TaxId: 9606]}	99.92
d2zeqa1	78	Ubiquitin-like domain of parkin {Mouse (Mus muscul	99.91
d1bt0a_	73	Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxI	99.91
d1wh3a_	87	2'-5'-oligoadenylate synthetase-like protein, OASL	99.9
d1z2ma2	76	Interferon-induced 15 kDa protein {Human (Homo sap	99.89
d2faza1	76	Ubiquitin-like PHD and RING finger domain-containi	99.88
d2k4xa1	55	Ribosomal protein S27ae {Thermoplasma acidophilum	99.87
d1wy8a1	76	Ubiquitin-like PHD and RING finger domain-containi	99.87
d1ttna1	80	Dendritic cell-derived ubiquitin-like protein {Hum	99.87
d1wx9a1	73	Large proline-rich protein BAT3 {Human (Homo sapie	99.86
d1m94a_	73	Ubiquitin-like modifier protein hub1 {Baker's yeas	99.86
d1uela_	95	Ubiquitin-like domain of Rad23 homolog B (Hhr23B)	99.86
d1z2ma1	76	Interferon-induced 15 kDa protein {Human (Homo sap	99.85
d1oqya4	77	Ubiquitin-like domain of Rad23 homolog A (Hhr23a)	99.85
d2bwfa1	73	DSK2 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.84
d1yqba1	84	Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	99.84
d1uh6a_	100	Ubiquitin-like protein 5, ubl5 {Mouse (Mus musculu	99.82
d1zkha1	86	Splicing factor 3 subunit 1, C-terminal domain {Hu	99.82
d1v5oa_	102	1700011n24rik protein {Mouse (Mus musculus) [TaxId	99.81
d1j8ca_	103	Ubiquitin-like N-terminal domain of PLIC-2 {Human	99.81
d1wx8a1	83	4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]	99.81
d1we6a_	111	Splicing factor 3 subunit 1, C-terminal domain {Th	99.8
d1se9a_	101	Hypothetical protein At3g01050 {Thale cress (Arabi	99.78
d1v2ya_	105	Ubiquitin-like protein 3300001g02rik {Mouse (Mus m	99.78
d1wiaa_	95	Ubiquitin-like protein bab25500 (2010008E23Rik) {M	99.76
d1wgha_	116	Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculu	99.76
d1wgga_	96	Ubiquitin carboxyl-terminal hydrolase 14 {Mouse (M	99.76
d1v86a_	95	hypothetical D7wsu128e protein {Mouse (Mus musculu	99.74
d1wjua_	100	NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens	99.73
d2c9wb1	103	Elongin B {Human (Homo sapiens) [TaxId: 9606]}	99.72
d1v5ta_	90	8430435i17rik protein {Mouse (Mus musculus) [TaxId	99.71
d1wxva1	81	Bag-family molecular chaperone regulator-1 {Human	99.71
d1wgda_	93	Homocysteine-responsive endoplasmic reticulum-resi	99.7
d1euvb_	79	SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomy	99.66
d1v6ea_	95	Ubiquitin-like domain of tubulin folding cofactor	99.64
d2uyzb1	77	SUMO-1 (smt3 homologue) {Human (Homo sapiens) [Tax	99.56
d1wjna_	97	Tubulin-folding protein TbcE {Mouse (Mus musculus)	99.53
d1t0ya_	90	Ubiquitin-like domain of tubulin folding cofactor	99.46
d1x1ma1	94	Ubiquitin-like protein 7 {Mouse (Mus musculus) [Ta	99.43
d1wm3a_	72	SUMO-2 {Human (Homo sapiens) [TaxId: 9606]}	99.04
d1wf9a1	94	NPL4-like protein 1 {Thale cress (Arabidopsis thal	98.93
d2al3a1	76	Tether containing UBX domain for GLUT4 (Tug) {Mous	98.13
d1h8ca_	82	Fas-associated factor 1, Faf1 {Human (Homo sapiens	97.9
d1i42a_	89	p47 {Rat (Rattus norvegicus) [TaxId: 10116]}	97.52
d1wj4a_	124	Hypothetical protein KIAA0794 {Human (Homo sapiens	97.39
d2cr5a1	96	UBX domain-containing protein 6 (Reproduction 8) {	97.16
d1vjka_	88	Molybdopterin synthase subunit MoaD {Pyrococcus fu	96.11
d1ef1a3	84	Moesin {Human (Homo sapiens) [TaxId: 9606]}	93.77
d1oeya_	82	Neutrophil cytosol factor 2 (p67phox component of	93.46
d1xo3a_	101	C9orf74 homolog {Mouse (Mus musculus) [TaxId: 1009	93.25
d1gg3a3	81	Erythroid membrane protein 4.1R {Human (Homo sapie	92.03
d1y8xb1	92	UBA3 {Human (Homo sapiens) [TaxId: 9606]}	92.0
d1zud21	65	Thiamin biosynthesis sulfur carrier protein ThiS {	91.17
d1ip9a_	85	Bud emergence mediator Bemp1 {Baker's yeast (Sacch	89.88
d1wgya_	104	Rap guanine nucleotide exchange factor 5, RapGEF5	89.57
d1h4ra3	84	Merlin {Human (Homo sapiens) [TaxId: 9606]}	89.08
d1v8ca1	87	MoaD-related protein, N-terminal domain {Thermus t	88.47
d1wgra_	100	Growth factor receptor-bound protein 7, GRB-7 {Hum	88.02
d1fm0d_	81	Molybdopterin synthase subunit MoaD {Escherichia c	85.95
d1j0ga_	92	Hypothetical protein 1810045k17 {Mouse (Mus muscul	81.89
d1wxma1	73	A-Raf proto-oncogene serine/threonine-protein kina	81.39
d1eo6a_	116	Golgi-associated ATPase enhancer of 16 kD, Gate-16	81.18
d3d32a1	118	GABA(A) receptor associated protein GABARAP {Human	80.92

>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=99.92  E-value=2e-25  Score=141.36  Aligned_cols=76  Identities=96%  Similarity=1.322  Sum_probs=75.0

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|+|++++|++++++|++++||.+||++|+...|+|+++|+|+|+|+.|+|+.+|++|||+++++|+|+++++||
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 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG   76 (76)
T ss_dssp             CEEEEEETTSCEEEEECCTTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEECTTCC
T ss_pred             CEEEEEcCCCCEEEEEECCCCcHHHHHHhhhhhcCCChHHEEeEECCeEcCCCCCHHHcCCCCCCEEEEEEecCCC
Confidence            8999999999999999999999999999999999999999999999999999999999999999999999999997

>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=99.91  E-value=1.1e-24  Score=138.73  Aligned_cols=75  Identities=33%  Similarity=0.593  Sum_probs=73.6

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG   75 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~g   75 (145)
                      |+|+|++.+|++++++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|+++++||+++|++|
T Consensus         3 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           3 MIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKRQGVPADQLRVIFAGKELPNHLTVQNCDLEQQSIVHIVQRPRR   77 (78)
T ss_dssp             EEEEEESSSSSCEEEEECTTCBHHHHHHHHHHHHTCCGGGEEEEETTEEECTTCBGGGSSCCTTCEEEEEESSCC
T ss_pred             eEEEEEcCCCCEEEEEEcccccHHHHHHHHHHHHCcChhHeEEEEeeeEcCCCCCHHHcCCCCCCEEEEEeccCC
Confidence            899999999999999999999999999999999999999999999999999999999999999999999999887

>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=99.91  E-value=3.5e-24  Score=134.59  Aligned_cols=73  Identities=62%  Similarity=0.943  Sum_probs=71.6

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEe
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRL   73 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~   73 (145)
                      |+|+||+++|++++++|++++||++||++|++..|+|+++|+|+|+|+.|+|+.+|++|+|++|++|++++|+
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 MLIKVKTLTGKEIEIDIEPTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLADDKTAKDYNIEGGSVLHLVLAL   73 (73)
T ss_dssp             CEEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECC
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhCCChHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEeeC
Confidence            8999999999999999999999999999999999999999999999999999999999999999999999875

>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=99.90  E-value=6.9e-24  Score=137.52  Aligned_cols=77  Identities=34%  Similarity=0.526  Sum_probs=74.8

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGA   77 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~   77 (145)
                      |+|+|++++|+++.++|++++||.+||++|++++|||+++|+|+|+|+.|+|+.+|++|+|.++++|+|+.+..+|.
T Consensus         8 mqI~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~~tL~~y~I~~~stl~l~~r~~~gp   84 (87)
T d1wh3a_           8 IQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIYGIQDSDTLILSKKKGSGP   84 (87)
T ss_dssp             EEEEEEETTTEEEEEEECSSSBHHHHHHHHHHHTCCCTTTEEEEETTEECCSSSBHHHHTCCTTEEEEEEECSCCCS
T ss_pred             EEEEEECCCCCEEEEEECCcCcHHHHHHHHHHHHCcChHHeEEEeeceEcCCCCcHHHcCCCCCCEEEEEecCCCCC
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999988765

>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=99.89  E-value=1.7e-23  Score=132.32  Aligned_cols=73  Identities=34%  Similarity=0.560  Sum_probs=71.3

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEe
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRL   73 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~   73 (145)
                      |+|+|++.+|++++++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||++|++|++++|+
T Consensus         4 ~qi~Vk~~~G~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~qrL~~~gk~L~d~~tL~~y~I~~~sti~l~lRL   76 (76)
T d1z2ma2           4 LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRL   76 (76)
T ss_dssp             EEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEECC
T ss_pred             EEEEEEcCCCCEEEEEECCCCcHHHHHHHHHHHhcCChhHeEEEECCeECCCCCcHHHcCCCCCCEEEEEEeC
Confidence            7999999999999999999999999999999999999999999999999999999999999999999999875

>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=99.88  E-value=1e-22  Score=128.82  Aligned_cols=73  Identities=37%  Similarity=0.647  Sum_probs=70.0

Q ss_pred             CEEEEEeCCCC-EEEEE-EcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEe
Q 032224            1 MQIFVKTLTGK-TITLE-VESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRL   73 (145)
Q Consensus         1 M~I~Vk~~~g~-~~~l~-V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~   73 (145)
                      |+|+|++++|+ +++++ +++++||++||++|++..|+|+++|+|+|+|+.|+|+.+|++|||+++++|||++|+
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 88885 999999999999999999999999999999999999999999999999999999875

>d2k4xa1 g.41.8.8 (A:1-55) Ribosomal protein S27ae {Thermoplasma acidophilum [TaxId: 2303]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zn-binding ribosomal proteins
family: Ribosomal protein S27a
domain: Ribosomal protein S27ae
species: Thermoplasma acidophilum [TaxId: 2303]

Probab=99.87  E-value=2.4e-24  Score=125.19  Aligned_cols=41  Identities=37%  Similarity=0.792  Sum_probs=38.6

Q ss_pred             eeeeeEEEcCCCcEEEecccCCCCCCCccEEeceeCCcccccCC
Q 032224          101 AVLQFYKVDDSGKVQRLRKECPNAECGAGTFMASHFDRHYCEFV  144 (145)
Q Consensus       101 ~v~k~~~v~~~~~~~~l~~~c~~~~c~~g~~ma~h~~~~~c~~~  144 (145)
                      ..++||+|| +|+|+|++++||  +||+|||||+|+||+|||||
T Consensus         2 kk~~~Y~vd-~gkv~r~~k~CP--~CG~GvFmA~H~dR~~CGKC   42 (55)
T d2k4xa1           2 QKRELYEIA-DGKLVRKHRFCP--RCGPGVFLAEHADRYSCGRC   42 (55)
T ss_dssp             CCCCCCCCC-CCCCCCSSCCCT--TTTTTCCCEECSSEEECTTT
T ss_pred             cceeEEEEc-CCEEEEecCcCc--CCCCcEEeeecCCCccccCC
Confidence            457899998 799999999999  99999999999999999998

>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=99.87  E-value=2.2e-22  Score=127.29  Aligned_cols=73  Identities=37%  Similarity=0.622  Sum_probs=69.8

Q ss_pred             CEEEEEeCCC-CEEEE-EEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEe
Q 032224            1 MQIFVKTLTG-KTITL-EVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRL   73 (145)
Q Consensus         1 M~I~Vk~~~g-~~~~l-~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~   73 (145)
                      |+|+|++++| +++.+ +|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||++|++|++++|+
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 MWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFDYDVGLNDIIQLLVRP   75 (76)
T ss_dssp             EEEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHSCCCTTTEEEEETTEECCSSSBHHHHTCCTTCEEEEEECC
T ss_pred             CEEEEEeCCCCceEEEeccCCCChHHHHHHHHHHHHCCCchhcEEEEEeeEecCCCCHHHcCCCCCCEEEEEEcc
Confidence            8999999998 57887 6999999999999999999999999999999999999999999999999999999875

>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=99.87  E-value=1.9e-22  Score=128.66  Aligned_cols=74  Identities=28%  Similarity=0.525  Sum_probs=71.3

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEec
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR   74 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~   74 (145)
                      |+|+||+.+|+++.++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|+++++|+|+++..
T Consensus         4 ~qi~Vk~~~G~~~~l~V~~~~tV~~lK~~I~~~~~ip~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lvi~~p   77 (80)
T d1ttna1           4 CQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELKIPKDYVVQVIVSQP   77 (80)
T ss_dssp             EEEEEEETTTEEEEEEECTTSHHHHHHHHHHHTTCCCSTTCEEEETTEECCTTSHHHHCCCSSSCEEEEECCCS
T ss_pred             EEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCcccEEEEECceEcCCCCcHHHcCCCCCCEEEEEecCC
Confidence            68999999999999999999999999999999999999999999999999999999999999999999998643

>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=99.86  E-value=9.6e-23  Score=128.00  Aligned_cols=72  Identities=35%  Similarity=0.613  Sum_probs=68.7

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEe
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRL   73 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~   73 (145)
                      |+|+|++++|+++.++|++++||.+||++|++..|+|+++|+|+|+|+.|+|+.+|++|+| ++++|||+++.
T Consensus         1 m~I~Vk~~~g~~~~l~V~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~~tL~dy~i-~~~ti~lv~r~   72 (73)
T d1wx9a1           1 LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYNV-GGKVIHLVERA   72 (73)
T ss_dssp             EEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHCCCTTTCCCEETTEECCSSSBHHHHTC-TTEEEBCCCSS
T ss_pred             CEEEEEcCCCCEEEEEECCCChHHHHHHHHHHHhCCChHHEEEEECCeEccCCCCHHHhCC-CCCEEEEEecC
Confidence            8999999999999999999999999999999999999999999999999999999999999 58999987653

>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=99.86  E-value=5.8e-22  Score=124.37  Aligned_cols=71  Identities=23%  Similarity=0.431  Sum_probs=68.8

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~   71 (145)
                      |+|+|++..|+++.++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||++|++|+|..
T Consensus         2 i~i~vk~~~Gk~~~v~V~~~~tV~~lK~~I~~~~~i~~~~q~Li~~Gk~L~d~~tL~~y~I~~gstl~L~~   72 (73)
T d1m94a_           2 IEVVVNDRLGKKVRVKCLAEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKDHISLEDYEVHDQTNLELYY   72 (73)
T ss_dssp             EEEEEEETTTEEEEEEECTTSBHHHHHHHHHHHHCCTTTSEEEESSSCEECTTSBHHHHTCCTTEEEEEEE
T ss_pred             eEEEEECCCCCEEEEEECCcCcHHHHHHHHHHhhcccccEEEEEEEeEEecccCcHHHcCCCCCCEEEEEE
Confidence            68999999999999999999999999999999999999999999999999999999999999999999863

>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=99.86  E-value=2.2e-21  Score=127.43  Aligned_cols=74  Identities=31%  Similarity=0.606  Sum_probs=70.4

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhC---CCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEec
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR   74 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~g---ip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~   74 (145)
                      |+|+|++++|+++.++|++++||++||++|++..|   +|+++|+|+|+|+.|+|+.+|++|||.++++|+++++..
T Consensus         1 M~I~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~~~~i~~~~qrLi~~Gk~L~d~~tL~~y~I~~~s~i~lv~~~~   77 (95)
T d1uela_           1 MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEYKIDEKNFVVVMVTKP   77 (95)
T ss_dssp             CEEEEEETTCCEEEEECCTTSBHHHHHHHHHHHHCTTTCCTTTEEEEETTEECCTTSBGGGGTCCSSSEEEEEESSC
T ss_pred             CEEEEEeCCCCEEEEEECCCccHHHHHHHHHhhhcccCCCccceEEEECCeEccCCCcHHHcCCCCCCEEEEEECCC
Confidence            99999999999999999999999999999999876   899999999999999999999999999999999988643

>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=99.85  E-value=2e-21  Score=122.77  Aligned_cols=72  Identities=33%  Similarity=0.444  Sum_probs=69.5

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeee--CCeeccCCCccccccccCCCEEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF--AGKQLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~--~G~~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      .+|+|++++|+++.++|++++||.+||++|++.+|+|+++|+|+|  +|+.|+|+.+|++|||++|++|+|+++
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 WDLTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVVD   74 (76)
T ss_dssp             CEEEEEESSSCEEEEECCSSCCHHHHHHHHHHHHCCCGGGEEEEEETTCCBCCSSSCSGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhccCCccEEEEEcCCCeeccCCCcHHHcCCCCCCEEEEEEE
Confidence            479999999999999999999999999999999999999999999  699999999999999999999999985

>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=99.85  E-value=1.5e-21  Score=123.53  Aligned_cols=72  Identities=32%  Similarity=0.578  Sum_probs=69.2

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhC---CCcCceeeeeCCeeccCCCccccccccCCCEEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~g---ip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      |+|+|++++|+++.++|++++||++||++|++..|   +|+++|+|+|+|+.|+|+.+|++|||+++++|++++.
T Consensus         3 ~~i~vk~l~g~~~~l~v~~~~TV~~lK~~i~~~~g~~~i~~~~qrLi~~Gk~L~D~~tL~~y~I~~~s~i~~~vs   77 (77)
T d1oqya4           3 VTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMVT   77 (77)
T ss_dssp             CCEEEEETTTEEEEECCCTTCBHHHHHHHHHHHTCSSSCCSTEEEEESSSSEECSSSBTTTTCCCTTSCEEEEEE
T ss_pred             EEEEEECCCCCEEEEEECCCCcHHHHHHHHHHhcCCCCCChHHEEeEECCcCccCCCcHHHcCCCCCCEEEEEEC
Confidence            78999999999999999999999999999999987   8999999999999999999999999999999998864

>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=99.84  E-value=5.9e-21  Score=119.67  Aligned_cols=71  Identities=34%  Similarity=0.558  Sum_probs=66.9

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      |+|+|++. ++.+.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||.+|++|+|+.+
T Consensus         2 i~I~Vk~~-~~~~~i~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~I~~g~~i~lV~~   72 (73)
T d2bwfa1           2 LNIHIKSG-QDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLVKS   72 (73)
T ss_dssp             EEEEEEET-TEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEEC
T ss_pred             EEEEEEeC-CeEEEEEECCCChHHHHHHHHHHHHCcChHHeEEEECCeEccCCCcHHHCCCCCCCEEEEEee
Confidence            68999975 567999999999999999999999999999999999999999999999999999999999864

>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=99.84  E-value=5.3e-21  Score=122.96  Aligned_cols=74  Identities=34%  Similarity=0.478  Sum_probs=69.1

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG   75 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~g   75 (145)
                      |+|+|++.+ ..+.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||.+|++|+|+++...
T Consensus         8 i~I~Vkt~~-~~~~~~V~~~~tV~~lK~~i~~~~gi~~~~qrL~~~Gk~L~D~~tL~~y~i~~gsti~lv~r~~~   81 (84)
T d1yqba1           8 IKVTVKTPK-DKEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIKRQH   81 (84)
T ss_dssp             EEEEEECSS-CEEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBHHHHTCCTTCEEEEEECCCC
T ss_pred             EEEEEEcCC-CcEEEEECCCCcHHHHHHHHHHHHCcCchhEEEEEeeeeccccCcHHHcCCCCCCEEEEEECCCC
Confidence            789999975 46899999999999999999999999999999999999999999999999999999999987543

>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=99.82  E-value=8.8e-21  Score=125.61  Aligned_cols=71  Identities=23%  Similarity=0.324  Sum_probs=68.7

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~   71 (145)
                      |+|+|++..|+++.|+|.+++||.+||++|++++|+|+++|+|+|+|+.|+|+.+|++|||++|++|+|..
T Consensus        29 i~V~V~~~~Gk~~~v~V~p~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~dygI~~GstI~L~~   99 (100)
T d1uh6a_          29 IEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHVSLGDYEIHDGMNLELYY   99 (100)
T ss_dssp             EEEEEECSSSSCEEEEEETTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCSSCBHHHHTCCTTEEEEEEC
T ss_pred             EEEEEECCCCCEEEEEECCcChHHHHHHHHHHHHCCCcceEEEEEEeecccCcCCHHHcCCCCCCEEEEEE
Confidence            48999999999999999999999999999999999999999999999999999999999999999999874

>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=99.82  E-value=2.5e-20  Score=120.33  Aligned_cols=68  Identities=31%  Similarity=0.646  Sum_probs=65.8

Q ss_pred             CCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecC
Q 032224            8 LTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG   75 (145)
Q Consensus         8 ~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~g   75 (145)
                      ++|++++++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||.+|++|+|+++++|
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 LNGQVLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMANGAVIHLALKERG   86 (86)
T ss_dssp             CSSCEEEEEECTTSBHHHHHHHHHHHTCCCTTTEEEEETTEEECTTSBHHHHTCCTTEEEEEEESCCC
T ss_pred             cCCeEEEEEECCCChHHHHHHHHHhhhcCChHHEEEEeCCcCcCCCCCHHHcCCCCCCEEEEEEecCC
Confidence            57899999999999999999999999999999999999999999999999999999999999999876

>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=99.81  E-value=2e-20  Score=124.36  Aligned_cols=78  Identities=22%  Similarity=0.411  Sum_probs=70.4

Q ss_pred             CEEEE----EeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeecc-CCCccccccccCCCEEEEEEEecC
Q 032224            1 MQIFV----KTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLADYNIQKESTLHLVLRLRG   75 (145)
Q Consensus         1 M~I~V----k~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~-d~~tL~~~gi~~~sti~l~~~~~g   75 (145)
                      |.|+|    +..++.+|.|+|++++||.+||+.|+.++|||+++|+|+|+|+.|. |+.+|++|||++|++|+|+.+..+
T Consensus         8 m~itV~~~~~~~~~~t~~l~V~~~~tV~~LK~~Ie~~~gip~~~Q~Li~~Gk~L~dd~~tL~~~gI~~g~~i~l~~r~~~   87 (102)
T d1v5oa_           8 MLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVVLLQKDNV   87 (102)
T ss_dssp             EEEEEEECCCCCCCCEEEEEECTTCBHHHHHHHHHHHTCCCGGGBCEEETTEEECCSSSBHHHHTCCTTEEEEECBCCCC
T ss_pred             EEEEEEecccCCCCCEEEEEECCcccHHHHHHHHHHHhCCCcceEEEEeCCeEeecccCCHHHcCCCCCCEEEEEECCCC
Confidence            78898    6677899999999999999999999999999999999999999995 668999999999999999877655


Q ss_pred             Ccc
Q 032224           76 GAK   78 (145)
Q Consensus        76 g~~   78 (145)
                      +..
T Consensus        88 ~~~   90 (102)
T d1v5oa_          88 GLR   90 (102)
T ss_dssp             CCS
T ss_pred             CCC
Confidence            543

>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=99.81  E-value=4.3e-20  Score=122.87  Aligned_cols=71  Identities=32%  Similarity=0.437  Sum_probs=67.1

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      |+|+|++.++ .+.|+|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||++|++|+|++|
T Consensus        33 i~V~Vk~~~~-~~~i~V~~~~tV~~LK~~I~~~~gi~~~~qrLi~~Gk~L~D~~tL~~~~I~~g~~I~lvlr  103 (103)
T d1j8ca_          33 IKVTVKTPKE-KEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQHGIHDGLTVHLVIK  103 (103)
T ss_dssp             EEEEEECSSC-EEEEEECTTCCHHHHHHHHHHHHCSCSSSEEEEETTEEESTTSCGGGTTCSSSEEEEEEEC
T ss_pred             EEEEEECCCc-cEEEEECCCChHHHHHHHHHHHHCcCHHHeeeeeeeecccCCCcHHHcCCCCCCEEEEEEC
Confidence            6899998765 6899999999999999999999999999999999999999999999999999999999875

>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=99.81  E-value=1.2e-20  Score=120.94  Aligned_cols=71  Identities=28%  Similarity=0.373  Sum_probs=66.8

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      |+|+|++.+ ..++++|++++||.+||++|++.+++|+++|+|+|+|+.|+|+.+|++|||++|++|+|++|
T Consensus        11 i~v~Vk~~~-~~~~i~v~~~~tV~~lK~~I~~~~~v~~~~qrL~f~Gk~L~d~~tL~~~gI~~gs~I~lv~r   81 (83)
T d1wx8a1          11 IRVSVKTPQ-DCHEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDILSQRGILDGSTVHVVVR   81 (83)
T ss_dssp             EEEEEECSS-SEEEEEEETTCCHHHHHHHHHHHTCSCTTTBCCEETTEECCTTSCHHHHTCCTTEEEECCBC
T ss_pred             EEEEEEcCC-CcEEEEECCCChHHHHHHHHHHHhCCChhHEEEEEEhhccccCCcHHHcCCCCCCEEEEEEe
Confidence            689999875 45789999999999999999999999999999999999999999999999999999999875

>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=99.80  E-value=1.5e-20  Score=126.74  Aligned_cols=69  Identities=33%  Similarity=0.510  Sum_probs=66.8

Q ss_pred             CCCEEEEEEcC-CCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCc
Q 032224            9 TGKTITLEVES-SDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGA   77 (145)
Q Consensus         9 ~g~~~~l~V~~-~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~   77 (145)
                      +|++++++|.+ ++||.+||++|++.+|+|++.|+|+|.|+.|+|+.+|++|+|++|++|+|+++++||.
T Consensus        39 ~G~~i~l~v~~~sdtV~~lK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~ynI~~gsti~L~lr~rGG~  108 (111)
T d1we6a_          39 DGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMSLAHYNVGAGEILTLSLRERSGP  108 (111)
T ss_dssp             SSCCEEEEESCSSSBHHHHHHHHHHHTTCCTTTSEEECSSSBCCTTSBTTTTTCSSSCEEEEECSSCCSS
T ss_pred             CCeEEEEEecCCccHHHHHHHHHHHHHCCCccceEEEEeeEEccccCCHHHcCCCCCCEEEEEeeCCCCC
Confidence            58999999986 8999999999999999999999999999999999999999999999999999999986

>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=99.78  E-value=6.1e-19  Score=116.49  Aligned_cols=76  Identities=25%  Similarity=0.417  Sum_probs=69.4

Q ss_pred             CEEEEEeCCCCEE-EEEEcCCCcHHHHHHHHHHH-----hCCC--cCceeeeeCCeeccCCCccccccccCCC------E
Q 032224            1 MQIFVKTLTGKTI-TLEVESSDTIDNVKAKIQDK-----EGIP--PDQQRLIFAGKQLEDGRTLADYNIQKES------T   66 (145)
Q Consensus         1 M~I~Vk~~~g~~~-~l~V~~~~TV~~LK~~I~~~-----~gip--~~~q~L~~~G~~L~d~~tL~~~gi~~~s------t   66 (145)
                      |+|.||.++|+.+ .+.|++++||.+||++|++.     .|+|  +++|+|+|+|+.|+|+.+|++|+|.+|+      +
T Consensus         8 i~I~~r~~~G~~i~~~~v~~s~TV~~lK~~I~~~~~~~k~~iP~~~~~qRLIf~Gk~L~D~~tL~dy~i~~g~~~~~~~t   87 (101)
T d1se9a_           8 LEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKTVKDYRSPVSNLAGAVTT   87 (101)
T ss_dssp             EEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTSBGGGGSCCTTSCTTCCEE
T ss_pred             EEEEEEeCCCCeecceecCccCHHHHHHHHHHHhccccccCCCCCcccEEEEECCeEecCCCCHHHcCCCCCCcCCCceE
Confidence            6899999999976 69999999999999999876     6788  7899999999999999999999999997      9


Q ss_pred             EEEEEEecCC
Q 032224           67 LHLVLRLRGG   76 (145)
Q Consensus        67 i~l~~~~~gg   76 (145)
                      +||++++..-
T Consensus        88 mHlVvrpp~~   97 (101)
T d1se9a_          88 MHVIIQAPVT   97 (101)
T ss_dssp             EEEEECCCSS
T ss_pred             EEEEeCCCCC
Confidence            9999987543

>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=99.78  E-value=3.7e-20  Score=123.63  Aligned_cols=74  Identities=23%  Similarity=0.416  Sum_probs=69.9

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCcee---------------eeeCCeeccCC-CccccccccCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQR---------------LIFAGKQLEDG-RTLADYNIQKE   64 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~---------------L~~~G~~L~d~-~tL~~~gi~~~   64 (145)
                      |+|+|++.+|+.++|+|++++||.+||++|++.+++|+++|+               |+|+|+.|.|+ .+|++|||.+|
T Consensus         8 M~v~Vk~~~G~~~~v~V~~~~TV~~LK~~I~~~~~ip~~~Qr~~~~~~~~~~~~~~~Li~~G~~L~d~~~tL~~~gI~~g   87 (105)
T d1v2ya_           8 MTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKKLRDYGIRNR   87 (105)
T ss_dssp             EEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHTTEEEESSSCEECCSSSBHHHHTCCSS
T ss_pred             EEEEEEeCCCCEEEEEECCCChHHHHHHHHHHHHCcCHHHhcccccccccccccceEEEECCEECcccCCCHHHcCCCCC
Confidence            899999999999999999999999999999999999999998               99999999765 68999999999


Q ss_pred             CEEEEEEEec
Q 032224           65 STLHLVLRLR   74 (145)
Q Consensus        65 sti~l~~~~~   74 (145)
                      ++|+|+.+++
T Consensus        88 ~~l~lv~r~~   97 (105)
T d1v2ya_          88 DEVSFIKKLG   97 (105)
T ss_dssp             EEEEEEECSC
T ss_pred             CEEEEEEecC
Confidence            9999998764

>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=99.76  E-value=8.5e-19  Score=114.93  Aligned_cols=75  Identities=25%  Similarity=0.337  Sum_probs=68.4

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeecc-CCCccccccccCCCEEEEEEEecCCcc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLADYNIQKESTLHLVLRLRGGAK   78 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~-d~~tL~~~gi~~~sti~l~~~~~gg~~   78 (145)
                      |+|+||+++|+.+.++|++++||.+||++|+   .+++++|+|+|+|+.|. |..+|++|+|.+|++|||+++..++..
T Consensus         8 m~i~vK~l~~~~~~v~v~~~~TV~~lK~~i~---~~~~~~qrLi~~Gk~L~dd~~tL~~y~i~~g~~v~l~~~~~~~~~   83 (95)
T d1wiaa_           8 INVRLKFLNDTEELAVARPEDTVGTLKSKYF---PGQESQMKLIYQGRLLQDPARTLSSLNITNNCVIHCHRSPPGAAV   83 (95)
T ss_dssp             EEEEEEETTTEEEEEEECSSSBHHHHHHHHS---SSTTTTCEEEETTEECCCSSCBTTTTTCCTTEEEEEECCCCCCCC
T ss_pred             EEEEEEcCCCCEEEEEECCcCcHHHHHHHHh---cCCcceeEEEECCEEcccCCCCHHHcCCCCCCEEEEEEcCCCCCC
Confidence            7999999999999999999999999999986   56889999999999996 568999999999999999988776654

>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=99.76  E-value=1.4e-18  Score=117.72  Aligned_cols=74  Identities=20%  Similarity=0.349  Sum_probs=67.0

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHH--------HHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKI--------QDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I--------~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      |+|+|+.++|+++.|.|++++||.+||++|        ++..++|+++|||+|.|+.|+|+.+|++|+|.+|++++|++.
T Consensus        17 i~i~v~~l~Gk~~~~~v~p~~TV~~lK~~I~~~~p~~~~e~~~~~~~~qRLiy~Gk~L~D~~tL~~~~i~~g~~~~lhlv   96 (116)
T d1wgha_          17 INLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTTVMHLV   96 (116)
T ss_dssp             EEEEEECSSSCEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSSCBTTTTTCCSSCEEEEEEE
T ss_pred             EEEEEEEcCCCEEEEEECCcchHHHHHHHHHhhcccccccccCCChHHeEEEECCEEecCCCCHHHcCCCCCCEEEEEEE
Confidence            579999999999999999999999999999        466789999999999999999999999999999998655554


Q ss_pred             ec
Q 032224           73 LR   74 (145)
Q Consensus        73 ~~   74 (145)
                      ++
T Consensus        97 ~r   98 (116)
T d1wgha_          97 AR   98 (116)
T ss_dssp             EC
T ss_pred             eC
Confidence            44

>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=99.76  E-value=6.7e-19  Score=115.66  Aligned_cols=70  Identities=19%  Similarity=0.270  Sum_probs=65.9

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~   71 (145)
                      |+|+|+..+++.+.++|++++||.+||++|++.+|||+++|+|+|+|+.|+|+ +|++|||++|++|+|+.
T Consensus         8 ~~I~VK~~~~~~~~v~v~~~~tV~~lK~~i~~~~gvp~~~QkLi~~Gk~L~d~-tL~~~gi~~g~~i~lv~   77 (96)
T d1wgga_           8 YSVTVKWGKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDD-DWGNIKMKNGMTVLMMG   77 (96)
T ss_dssp             EEEEEEETTEEEEEEEEESSSCHHHHHHHHHHHTCCCTTTSCCEETTEECCSS-CCCSCCCCSSCEEECCC
T ss_pred             eEEEEEeCCCCEEEEEECCCCcHHHHHHHhhhhcCccceeeEEeecCcccCCC-cHHHCCCCCCCEEEEEe
Confidence            58999998887789999999999999999999999999999999999999986 79999999999999874

>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=99.74  E-value=9.6e-19  Score=114.70  Aligned_cols=74  Identities=19%  Similarity=0.371  Sum_probs=67.1

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      |+|.|+ .+++++.|+|++++||.+||++|++.+|+|+++|+|+|+|+ |.|+.+|++|+|.++++|+|+.+..+|
T Consensus        18 i~v~V~-~~~k~~~i~v~~~~TV~~LK~~I~~~tgvp~~~q~Li~~g~-l~D~~tL~~~~I~~gs~i~lvgs~~~g   91 (95)
T d1v86a_          18 VDLKII-WNKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGL-VPEDKTLREIKVTSGAKIMVVGSTISG   91 (95)
T ss_dssp             EEEEEE-ETTEEEEEEECTTSBHHHHHHHHHHHHCSCSTTCCCBSSSB-CCSSSBHHHHCCCTTEEEEECCSSCCC
T ss_pred             EEEEEE-ECCEEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEeccc-ccCCCcHHHCCCCCCCEEEEEecCCCC
Confidence            567786 47889999999999999999999999999999999999996 999999999999999999998665544

>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=99.73  E-value=1.4e-18  Score=114.84  Aligned_cols=72  Identities=18%  Similarity=0.308  Sum_probs=65.7

Q ss_pred             CEEEE--EeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEE
Q 032224            1 MQIFV--KTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         1 M~I~V--k~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      |+|++  +...|+++.++|.+++||.+||++|++..|+|+++|+|+|+|+.|+|+.+|++|||+++++|+++..
T Consensus        18 i~V~~~~~~~~g~~~~lev~~~~TV~~LK~~I~~~~gi~~~~qkLi~~Gk~L~d~~tL~~~gI~~~s~i~vi~~   91 (100)
T d1wjua_          18 IEVFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQLGKTLEEQGVAHNVKAMVLEL   91 (100)
T ss_dssp             EEEECCTTTCCSSSEEEEEESSSBHHHHHHHHHHHTTCCSTTCEEEETTEECCTTSBHHHHTCCSSEEEEEECC
T ss_pred             EEEEEeeccCCCeEEEEEECCCcHHHHHHHHHHHHHCCCCeeEEEEEcccCcCCCcCHHHcCCCCCCEEEEEEc
Confidence            45666  4456899999999999999999999999999999999999999999999999999999999987754

>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=99.72  E-value=1e-17  Score=111.05  Aligned_cols=77  Identities=27%  Similarity=0.396  Sum_probs=68.2

Q ss_pred             EEEEEeCCCC-EEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCcccccccc-------CCCEEEEEEEe
Q 032224            2 QIFVKTLTGK-TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQ-------KESTLHLVLRL   73 (145)
Q Consensus         2 ~I~Vk~~~g~-~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~-------~~sti~l~~~~   73 (145)
                      +|||+...++ ++.++|++++||.+||++|++.+|||+++|+|+|+|+.|+|+.+|++|||.       ..+++++.++.
T Consensus         1 qifv~i~~~k~Ti~l~v~~~~TV~~lK~~I~~~~gip~~~QrLi~~Gk~L~D~~TL~dYgI~~~~~~~~~~~~~~l~~~~   80 (103)
T d2c9wb1           1 DVFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATVGLAFRA   80 (103)
T ss_dssp             CEEEEEEEBTEEEEEEECTTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBHHHHTCCTTTSBTTBCEEEEEEEEE
T ss_pred             CEEEEEeCCCEEEEEEeCCCCcHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCcccccccCCcEEEEEEec
Confidence            4777776665 788999999999999999999999999999999999999999999999995       45589999988


Q ss_pred             cCCcc
Q 032224           74 RGGAK   78 (145)
Q Consensus        74 ~gg~~   78 (145)
                      .|+..
T Consensus        81 ~~~~~   85 (103)
T d2c9wb1          81 DDTFE   85 (103)
T ss_dssp             TTEEC
T ss_pred             CCCcc
Confidence            77654

>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=99.71  E-value=3.9e-18  Score=110.64  Aligned_cols=73  Identities=21%  Similarity=0.408  Sum_probs=66.3

Q ss_pred             CEEEEEeCCCCEEEE-EEcCCCcHHHHHHHHHHHhCCCcCceeee---eCCeeccCCCccccccccCCCEEEEEEEec
Q 032224            1 MQIFVKTLTGKTITL-EVESSDTIDNVKAKIQDKEGIPPDQQRLI---FAGKQLEDGRTLADYNIQKESTLHLVLRLR   74 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l-~V~~~~TV~~LK~~I~~~~gip~~~q~L~---~~G~~L~d~~tL~~~gi~~~sti~l~~~~~   74 (145)
                      |+|+|+. .++.+.+ +|++++||.+||++|++.+|+|+++|+|+   |.|+.|+|+.+|++|+|++|++|+|+.+..
T Consensus         8 ~~i~Vk~-~~~~~~i~~v~~~~tV~~LK~~i~~~t~vp~~~QkLi~~~~~Gk~L~D~~tL~~~~i~~g~~i~lv~s~~   84 (90)
T d1v5ta_           8 LPIIVKW-GGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKLGALKLKPNTKIMMMGTRE   84 (90)
T ss_dssp             CCEEEEE-TTEEEEECSCCSSSBHHHHHHHHHHHTCCCTTTCEEESCEETTEECCTTSBHHHHTCCTTEEEEEECCCS
T ss_pred             EEEEEEE-CCeEEEEEEeCCCCcHHHHHHHHHHHHcCCHHHhhhhhhccCCcCCCCcCcHHHcCCCCCCEEEEEeeCC
Confidence            7899996 5677777 79999999999999999999999999999   589999999999999999999999986543

>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=99.71  E-value=1e-17  Score=106.68  Aligned_cols=71  Identities=24%  Similarity=0.423  Sum_probs=63.5

Q ss_pred             CEEEEEeCCCCEEEEEEc-----CCCcHHHHHHHHHHHhCCCcCceeeeeCCeecc-CCCccccccccCCCEEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVE-----SSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~-----~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~-d~~tL~~~gi~~~sti~l~~~   72 (145)
                      |.|+|+. .++.++++|.     +++||++||++|++.+|+|+++|+|+|+|+.|. |+.+|++|||++|++|+|+.+
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            6788865 5788888884     688999999999999999999999999999995 678999999999999999854

>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=99.70  E-value=1.9e-17  Score=108.03  Aligned_cols=75  Identities=28%  Similarity=0.442  Sum_probs=65.8

Q ss_pred             CEEEEEeCCCC--EEEEEEcCCCcHHHHHHHHHHHhC--CCcCceeeeeCCeeccCCCccccccccCC--CEEEEEEEec
Q 032224            1 MQIFVKTLTGK--TITLEVESSDTIDNVKAKIQDKEG--IPPDQQRLIFAGKQLEDGRTLADYNIQKE--STLHLVLRLR   74 (145)
Q Consensus         1 M~I~Vk~~~g~--~~~l~V~~~~TV~~LK~~I~~~~g--ip~~~q~L~~~G~~L~d~~tL~~~gi~~~--sti~l~~~~~   74 (145)
                      |+|+|++++++  .+.+++++++||.+||++|++..+  +|+++|+|+|+|+.|+|+.+|++|....+  .+|||++++.
T Consensus         8 i~l~Ik~~~~~~~~~~~~v~~~~TV~~LK~~I~~~~~~~~~~~~qrLIy~Gk~L~D~~~L~d~~~~~~~~~viHLV~~~~   87 (93)
T d1wgda_           8 VTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCLRDLLPKQEKRHVLHLVCNVK   87 (93)
T ss_dssp             CEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHSTTCCCTTTCEEEETTEECCSSSCHHHHSCSSSCSEEEEEECCCC
T ss_pred             EEEEEECCCCCceeEEEEcCCCCcHHHHHHHHHHHcCCCCChHHEEEEECCeEccCCCCHHHhCcccCCCCEEEEEecCC
Confidence            78999999775  488999999999999999999965  99999999999999999999999976544  4899987654


Q ss_pred             C
Q 032224           75 G   75 (145)
Q Consensus        75 g   75 (145)
                      .
T Consensus        88 ~   88 (93)
T d1wgda_          88 S   88 (93)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.66  E-value=2.2e-16  Score=99.83  Aligned_cols=74  Identities=14%  Similarity=0.332  Sum_probs=68.7

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      .|.|+. +|..+.+.|.+++++..|+++++++.|+++++|+|+|+|+.|+++.|+++|+|++|++|++++++.||
T Consensus         6 ~ikv~~-~~~~~~f~v~~~~~~~~l~~~~~~~~~i~~~~~~l~f~G~~l~~~~T~~~~~i~dgd~I~v~~~q~GG   79 (79)
T d1euvb_           6 NLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIGG   79 (79)
T ss_dssp             EEEEES-SSCEEEEEEETTSCTHHHHHHHHHHTTCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEECCBCC
T ss_pred             EEEECC-CCeEEEEEECCCCcHHHHHHHHHHHhCCChHhEEEEECCEEeCCCCCHHHCCCCCCCEEEEEEeccCC
Confidence            455544 67788899999999999999999999999999999999999999999999999999999999999997

>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=99.64  E-value=1.6e-16  Score=103.89  Aligned_cols=76  Identities=18%  Similarity=0.262  Sum_probs=67.0

Q ss_pred             CEEEEEeC-CCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCe-------eccCCCccccccccCCCEEEEEEE
Q 032224            1 MQIFVKTL-TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGK-------QLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~-~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~-------~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      |.|+|.+. ++..++.++++++||.+||++|+..+|+|++.|+|+|.|+       .++|+.+|++|+|.+|++|||+.+
T Consensus         8 v~v~I~s~~~~~~~E~r~~~~~TV~~LK~kle~~tGip~~~qrL~~~~~~~~~~~~l~~d~~~L~~y~i~dg~~ihlvd~   87 (95)
T d1v6ea_           8 VMVFISSSLNSFRSEKRYSRSLTIAEFKCKLELVVGSPASCMELELYGADDKFYSKLDQEDALLGSYPVDDGCRIHVIDH   87 (95)
T ss_dssp             EEEEEEETTSSSCEEEEECTTSBHHHHHHHHHHHTCSCTTTCBCEEECSSSCEEEECCCSSSBTTSSSCCTTCEEEEBCC
T ss_pred             EEEEEEECCCCcEEEEEeCCCCCHHHHHHHHHHHhCcCchhEEEEEeCCCCceeecccCCcCCHHHCCCCCCCEEEEEeC
Confidence            57899874 5557889999999999999999999999999999999876       578999999999999999999876


Q ss_pred             ecCC
Q 032224           73 LRGG   76 (145)
Q Consensus        73 ~~gg   76 (145)
                      ...+
T Consensus        88 ~p~~   91 (95)
T d1v6ea_          88 SGSG   91 (95)
T ss_dssp             SCCS
T ss_pred             CCCC
Confidence            5443

>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=99.56  E-value=6.7e-15  Score=92.46  Aligned_cols=75  Identities=17%  Similarity=0.425  Sum_probs=71.4

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecC
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG   75 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~g   75 (145)
                      |.|.|++.+|+.+.+.|.+++++..|++++++..|+|+++++|+|+|+.|.++.|++++++++|++|+++++..|
T Consensus         3 I~ikv~~~dg~~v~f~v~~~t~l~kl~~~y~~~~~~~~~~~~f~fdG~~l~~~~T~~~l~~edgD~Idv~~~q~G   77 (77)
T d2uyzb1           3 IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQTG   77 (77)
T ss_dssp             EEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCHHHHTCCTTEEEEEEECCCC
T ss_pred             EEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCChhHEEEEECCEECCCCCCHHHcCCCCCCEEEEEEecCC
Confidence            478899999999999999999999999999999999999999999999999999999999999999999987665

>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=99.53  E-value=1.3e-14  Score=94.97  Aligned_cols=69  Identities=19%  Similarity=0.274  Sum_probs=60.3

Q ss_pred             EEEEEeC---CCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCe-------ecc-CCCccccccccCCCEEEEE
Q 032224            2 QIFVKTL---TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGK-------QLE-DGRTLADYNIQKESTLHLV   70 (145)
Q Consensus         2 ~I~Vk~~---~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~-------~L~-d~~tL~~~gi~~~sti~l~   70 (145)
                      +|.|+..   +++.++++|++++||.+||..|+..+|+|++.|+|+|.|+       .|+ |+.+|.+|||++|++|+|.
T Consensus        11 ti~i~~~~~~~~~~~~~kv~~~~TV~~LK~~i~~~~gip~~~qrL~y~~~~~~~~~~~l~~d~~tL~~YgI~dg~~I~V~   90 (97)
T d1wjna_          11 TLKIKCSNQPERQILEKQLPDSMTVQKVKGLLSRLLKVPVSELLLSYESSKMPGREIELENDLQPLQFYSVENGDCLLVR   90 (97)
T ss_dssp             EEEEEESSCSSSCCEEEEEETTSBHHHHHHHHHTTTTCCTTTCEEEEECTTSCSCEEECCCSSSBSGGGTCCTTCEEEEE
T ss_pred             EEEEEeCCCCCCceEEEEcCCCCCHHHHHHHHHHHHCcChHHeEEEecCCCCCcccceecCCCcCHhhccCCCCCEEEEE
Confidence            5666654   3678999999999999999999999999999999999886       254 7799999999999999975

>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=99.46  E-value=1.2e-13  Score=89.15  Aligned_cols=71  Identities=15%  Similarity=0.221  Sum_probs=59.4

Q ss_pred             EEEEEeC-CCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCe-------eccCCCccccccccCCCEEEEEEE
Q 032224            2 QIFVKTL-TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGK-------QLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         2 ~I~Vk~~-~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~-------~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      .|.|.+. .+..++..+++++||.+||++|+..+|+|++.|+|+|.|+       .++|+.+|++|||.+|++|||+-.
T Consensus         6 ~l~it~~~t~~~~E~r~~~~~TV~~LK~kle~~~Gip~~~q~L~~~~~~~~~~~~l~dd~~~L~~ygi~dG~~Ihvvd~   84 (90)
T d1t0ya_           6 DLEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDGYRIHAVDV   84 (90)
T ss_dssp             EEEEEESSCCSCEEEEEETTSBHHHHHHHHHHHHCCCTTTEEEEEECSSSSEEEECCCCSSBTTTTTCCSSEEEEEEEC
T ss_pred             EEEEEECCCccEEEEecCCCCCHHHHHHHHHHHHCCChhheEEEEeCCCCCcccccccCCCCHHHCCCCCCCEEEEEeC
Confidence            3555542 2345788899999999999999999999999999998775       456889999999999999998643

>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=99.43  E-value=8.8e-14  Score=90.24  Aligned_cols=54  Identities=35%  Similarity=0.576  Sum_probs=48.9

Q ss_pred             CCCcHHHHHHHHHHHh--CCC-cCceeeeeCCeeccCCCccccccccCCCEEEEEEE
Q 032224           19 SSDTIDNVKAKIQDKE--GIP-PDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus        19 ~~~TV~~LK~~I~~~~--gip-~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      .++||.+||+.|++..  ++| |++|+|+|+|+.|+|+.+|++|+|++|++|||+.|
T Consensus        36 ~~~tV~~lK~~i~~~~~~~~P~p~~~rLIy~Gk~L~D~~tL~~y~I~~gstihLV~r   92 (94)
T d1x1ma1          36 GGYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLKDDQTLDFYGIQPGSTVHVLRK   92 (94)
T ss_dssp             CCCBHHHHHHHHHHHCTTTCCCSSSEEEEETTEECCTTCBHHHHTCCTTCEEEEEES
T ss_pred             CccCHHHHHHHHHHHcccCCCChhheEEEECCeEECCCccHHHcCCCCCCEEEEEEe
Confidence            4679999999999886  454 68999999999999999999999999999999875

>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=99.04  E-value=8.4e-10  Score=67.78  Aligned_cols=70  Identities=16%  Similarity=0.384  Sum_probs=65.9

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV   70 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~   70 (145)
                      +.|.|+..+|+.+.+.|..++++..|....++..+++++.++++|+|..|..+.|.+++++++|++|.+.
T Consensus         2 I~lkv~~~~g~~v~f~vk~~t~l~kl~~~y~~~~~~~~~~~~f~fdG~~i~~~~Tp~~l~med~D~Idv~   71 (72)
T d1wm3a_           2 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVF   71 (72)
T ss_dssp             EEEEEECTTSCEEEEEECTTSCTHHHHHHHHHHHTCCTTTCEEEETTEECCTTCCTTTTTCCTTEEEEEE
T ss_pred             EEEEEECCCCCEEEEEEcCCChHHHHHHHHHHHhCCCccceEEEECCEEcCCCCCHHHcCCCCCCEEEEE
Confidence            4678888889999999999999999999999999999999999999999999999999999999999874

>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=98.93  E-value=2.1e-09  Score=68.29  Aligned_cols=68  Identities=22%  Similarity=0.294  Sum_probs=55.1

Q ss_pred             EEEEeCCCCEEEEEEc-CCCcHHHHHHHHHHHhCCCcCceeeeeCC--------------eecc-CCCccccccccCCCE
Q 032224            3 IFVKTLTGKTITLEVE-SSDTIDNVKAKIQDKEGIPPDQQRLIFAG--------------KQLE-DGRTLADYNIQKEST   66 (145)
Q Consensus         3 I~Vk~~~g~~~~l~V~-~~~TV~~LK~~I~~~~gip~~~q~L~~~G--------------~~L~-d~~tL~~~gi~~~st   66 (145)
                      |.||+.+| +..|+|+ ++.||.+||..|++..+||.++|.|..+-              ..|. |..+|+++||.+|+.
T Consensus         3 iRiRsrdG-~eRv~v~~~~~Tl~~LK~~Ie~~L~VPv~~Q~LSl~~~llL~k~P~~~~~~~~l~d~~~~L~sl~i~hGsi   81 (94)
T d1wf9a1           3 LRVRSRDG-LERVSVDGPHITVSQLKTLIQDQLQIPIHNQTLSTNRNLLLAKSPSDFLAFTDMADPNLRISSLNLAHGSM   81 (94)
T ss_dssp             EEEECSSC-EEEEEECCTTSBHHHHHHHHHHHSCCCTTTCCCBSSGGGGTCCSHHHHTTCCSSCCTTCBGGGTCCCTTCE
T ss_pred             EEEEecCC-ceEEEecCCCCcHHHHHHHHHHHhCCCcccceeecChhhhccCCccccchhhhccCCccCHHHcCccCceE
Confidence            67888776 6678886 47899999999999999999999996541              2344 446799999999999


Q ss_pred             EEEEE
Q 032224           67 LHLVL   71 (145)
Q Consensus        67 i~l~~   71 (145)
                      |++..
T Consensus        82 vyL~y   86 (94)
T d1wf9a1          82 VYLAY   86 (94)
T ss_dssp             EECCC
T ss_pred             EEEEe
Confidence            98753

>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=98.13  E-value=7.9e-06  Score=49.82  Aligned_cols=69  Identities=19%  Similarity=0.224  Sum_probs=65.0

Q ss_pred             EEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEE
Q 032224            3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL   71 (145)
Q Consensus         3 I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~   71 (145)
                      |.|-..+|+...|.|.|++|+.++-+...+.+|+.+++-.|.|+++.|+-+..+.-.|+.+|+.+.|+-
T Consensus         3 V~Vl~~~~rR~~VKvtP~t~l~~VL~eaC~k~~~~~~~~~Lkh~~k~ldLsl~~R~sgLpnnakLELv~   71 (76)
T d2al3a1           3 VSVLAPNGRRHTVKVTPSTVLLQVLEDTCRRQDFNPSEYDLKFQRTVLDLSLQWRFANLPNNAKLEMVP   71 (76)
T ss_dssp             EEEECTTSCEEEECCCTTSBHHHHHHHHHHHTTCCGGGCEEEETTEEESSSCBHHHHCCCSSCEEEEEC
T ss_pred             EEEECCCCcEEEEEeCCCcCHHHHHHHHHHHhCCChhHceeeeCCEEcCccceeeecCCCCCCEEEEEE
Confidence            677788999999999999999999999999999999999999999999999999999999999999863

>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=97.90  E-value=4.1e-05  Score=47.09  Aligned_cols=68  Identities=21%  Similarity=0.393  Sum_probs=57.4

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee--eCCeec---cCCCccccccccCCCEEEEE
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQL---EDGRTLADYNIQKESTLHLV   70 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~--~~G~~L---~d~~tL~~~gi~~~sti~l~   70 (145)
                      +|.||.++|..+.-.+..++||.+|.+-|... +.++....|+  |-.+.+   +++.+|.+.|+.+.++|+|-
T Consensus         7 ~i~iRlPdG~~~~~~F~~~~tl~~v~~~v~~~-~~~~~~~~l~~~~Pr~~l~~~d~~~TL~e~gL~p~~~L~vq   79 (82)
T d1h8ca_           7 KLRIRTPSGEFLERRFLASNKLQIVFDFVASK-GFPWDEYKLLSTFPRRDVTQLDPNKSLLEVKLFPQETLFLE   79 (82)
T ss_dssp             EEEEECTTSCEEEEEECTTSBHHHHHHHHHHH-TCCSSSEEEEETTTTEETTTCCTTSBHHHHCCCSEEEEEEE
T ss_pred             EEEEECCCCCEEEEEECCCCcHHHHHHHHHhc-CCCCCceEEEecCcccccccccccCCHHHCCCCCCCEEEEE
Confidence            58899999999999999999999999999874 7777777776  566777   34689999999988888764

>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=97.52  E-value=0.00022  Score=44.42  Aligned_cols=65  Identities=18%  Similarity=0.351  Sum_probs=52.4

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHh-CCCcCceeeee--CCeec-cCCCccccccccCCCEE
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKE-GIPPDQQRLIF--AGKQL-EDGRTLADYNIQKESTL   67 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~-gip~~~q~L~~--~G~~L-~d~~tL~~~gi~~~sti   67 (145)
                      .|.||.++|..+...+.+++||.+|.+.+.... +.+.....|+.  --+.| +++.+|.++|+.+ ++|
T Consensus        16 ~I~iRlPdG~~~~~~F~~~~tl~dv~~~v~~~~~~~~~~~f~L~t~~Prr~l~d~~~TL~e~gL~~-s~v   84 (89)
T d1i42a_          16 NIQIRLADGGRLVQKFNHSHRISDIRLFIVDARPAMAATSFVLMTTFPNKELADENQTLKEANLLN-AVI   84 (89)
T ss_dssp             EEEEEETTTCCEEEEECSSSCGGGHHHHHHHHCTTTSSCCEEEEETTTTEECCCCSSCSGGGTTCC-SEE
T ss_pred             EEEEEcCCCCEEEEEECCchhHHHHHHHHHHhCccCCCCCEEEecCCCCcccCCCcCcHHHCCCcC-ceE
Confidence            578999999999999999999999999998764 55666677774  45667 4578999999985 454

>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=97.39  E-value=0.00034  Score=46.18  Aligned_cols=68  Identities=19%  Similarity=0.363  Sum_probs=54.9

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee--eCCeec---cCCCccccccccCCCEEEEE
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQL---EDGRTLADYNIQKESTLHLV   70 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~--~~G~~L---~d~~tL~~~gi~~~sti~l~   70 (145)
                      +|.||.++|+.+...+..++||.+|.+.|... +.+.....|+  |--+.|   +.+.+|.++||.+..+|+|-
T Consensus        45 ~l~iRlPdG~r~~r~F~~~~tl~~l~~~v~~~-~~~~~~~~L~~~fPr~~l~~~d~~~TL~e~gL~P~~~L~ve  117 (124)
T d1wj4a_          45 QLMLRYPDGKREQITLPEQAKLLALVKHVQSK-GYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQ  117 (124)
T ss_dssp             EEEEECTTSCEEEEEEETTSCHHHHHHHHHHH-HCCTTTEEEECSSSCCEETSSCSSSCTTTTTCCSSBCCEEE
T ss_pred             EEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc-ccCCcceEEeecccccccccccccCcHHHcCCCCCCEEEEE
Confidence            58899999999999999999999999999775 4555566665  455666   34689999999998888664

>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=97.16  E-value=0.00087  Score=41.95  Aligned_cols=68  Identities=19%  Similarity=0.260  Sum_probs=53.5

Q ss_pred             EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee--eCCeec--cCCCccccccccCCCEEEEE
Q 032224            2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQL--EDGRTLADYNIQKESTLHLV   70 (145)
Q Consensus         2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~--~~G~~L--~d~~tL~~~gi~~~sti~l~   70 (145)
                      +|.||..+|+.+.-.+..++||.+|..-+... +.......|+  |-.+.+  +.+.||.++|+.+.++|+|.
T Consensus        18 ~i~iRlPdG~r~~r~F~~~dtl~~l~~fv~~~-~~~~~~f~l~~~~Pr~~~~~d~~~TL~e~gl~p~~~L~v~   89 (96)
T d2cr5a1          18 TVALRCPNGRVLRRRFFKSWNSQVLLDWMMKV-GYHKSLYRLSTSFPRRALEVEGGSSLEDIGITVDTVLNVE   89 (96)
T ss_dssp             EEEEECTTSCEEEEEEESSSBTHHHHHHHHHH-TCCTTTEEEECSSSCCBCCCCSSCBHHHHTCSSCEEEEEE
T ss_pred             EEEEECCCCCEEEEEECCcccHHHHHHHHHHh-ccCcccceeecCCCceecCccCCCcHHHCCCCCCCEEEEe
Confidence            68899999999999999999999999999765 4445556665  333555  34689999999988888764

>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=96.11  E-value=0.032  Score=33.59  Aligned_cols=65  Identities=9%  Similarity=0.226  Sum_probs=46.4

Q ss_pred             CEEEEEeCC------C-CEEEEEEcCCCcHHHHHHHHHHHhCC-----------CcCceeeeeCCeeccCCCcccccccc
Q 032224            1 MQIFVKTLT------G-KTITLEVESSDTIDNVKAKIQDKEGI-----------PPDQQRLIFAGKQLEDGRTLADYNIQ   62 (145)
Q Consensus         1 M~I~Vk~~~------g-~~~~l~V~~~~TV~~LK~~I~~~~gi-----------p~~~q~L~~~G~~L~d~~tL~~~gi~   62 (145)
                      |+|+|+...      | ....++++...||.+|.+.+.++++-           .....++..||+..+++     .-|+
T Consensus         2 mkI~v~~Fa~lre~~G~~~~~~~~~~~~Tv~~l~~~L~~~~~~~~~~l~~~~~~~~~~i~iavN~~~~~~d-----~~L~   76 (88)
T d1vjka_           2 VKVKVKYFARFRQLAGVDEEEIELPEGARVRDLIEEIKKRHEKFKEEVFGEGYDEDADVNIAVNGRYVSWD-----EELK   76 (88)
T ss_dssp             EEEEEEECTHHHHHHSSSEEEEEECTTCBHHHHHHHHHHHCGGGGGSCBCSSSCTTSSBEEEETTBCCCTT-----CBCC
T ss_pred             eEEEEEEhHHHHHHhCCCeEEEECCCCCCHHHHHHHHHHHChHHHHHhhhccccccccEEEEEcceEcCCC-----cCcC
Confidence            788888775      4 46789999999999999999887531           11234555677766554     3466


Q ss_pred             CCCEEEEE
Q 032224           63 KESTLHLV   70 (145)
Q Consensus        63 ~~sti~l~   70 (145)
                      +|+.|-+.
T Consensus        77 ~gDevai~   84 (88)
T d1vjka_          77 DGDVVGVF   84 (88)
T ss_dssp             TTCEEEEE
T ss_pred             CCCEEEEe
Confidence            89988765

>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=93.77  E-value=0.24  Score=29.68  Aligned_cols=71  Identities=17%  Similarity=0.259  Sum_probs=51.3

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCc-Cceeeee---CCe--eccCCCccccccccCCCEEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP-DQQRLIF---AGK--QLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~-~~q~L~~---~G~--~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      |+|.|..+++ ++.++++..++..+|=+++.+..++.. +-.=|.|   .|.  -|+.++.|....++.+..+.+..+
T Consensus         2 ~~v~V~~LD~-~~~~~v~~~a~G~~l~~~Vc~~l~L~E~dYFGL~y~d~~~~~~WLd~~k~l~kq~~~~~~~~~l~F~   78 (84)
T d1ef1a3           2 ISVRVTTMDA-ELEFAIQPNTTGKQLFDQVVKTIGLREVWFFGLQYQDTKGFSTWLKLNKKVTAQDVRKESPLLFKFR   78 (84)
T ss_dssp             EEEEEEETTE-EEEEEECTTCBHHHHHHHHHHHHTCCCGGGEEEEEEBTTSCEEECCSSSBGGGSCBCCCSSEEEEEE
T ss_pred             EEEEEEEcCC-EEEEEEcCCChHHHHHHHHHHHcCCcccccceEEEECCCCCeEeccCCCchhhhccCCCCCEEEEEE
Confidence            6789999987 589999999999999999999999764 3334443   232  367777787766555554444443

>d1oeya_ d.15.2.2 (A:) Neutrophil cytosol factor 2 (p67phox component of NADPH oxidase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: CAD & PB1 domains
family: PB1 domain
domain: Neutrophil cytosol factor 2 (p67phox component of NADPH oxidase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.46  E-value=0.1  Score=31.36  Aligned_cols=37  Identities=11%  Similarity=0.238  Sum_probs=34.5

Q ss_pred             CCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeC
Q 032224           10 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFA   46 (145)
Q Consensus        10 g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~   46 (145)
                      --++.+++.+..+.++|.+.|+++...+++..+|.|.
T Consensus        13 ~fTVal~v~~G~~y~~L~~lvs~KL~l~~~~~~LSY~   49 (82)
T d1oeya_          13 KYTVVMKTQPGLPYSQVRDMVSKKLELRLEHTKLSYR   49 (82)
T ss_dssp             SSEEEEEECTTCCHHHHHHHHHHHTTCCGGGCCEEEC
T ss_pred             EEEEEEEccCCCCHHHHHHHHHHHhCCChhheEEEec
Confidence            3588899999999999999999999999999999995

>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=93.25  E-value=0.18  Score=31.18  Aligned_cols=75  Identities=17%  Similarity=0.192  Sum_probs=46.1

Q ss_pred             CEEEEEeCCC--------CEEEEEEcC---CCcHHHHHHHHHHHhCCCcCc-----------eeeeeCCeeccCCCcccc
Q 032224            1 MQIFVKTLTG--------KTITLEVES---SDTIDNVKAKIQDKEGIPPDQ-----------QRLIFAGKQLEDGRTLAD   58 (145)
Q Consensus         1 M~I~Vk~~~g--------~~~~l~V~~---~~TV~~LK~~I~~~~gip~~~-----------q~L~~~G~~L~d~~tL~~   58 (145)
                      |.|+|+...|        +...++++.   ..||.+|-+.+.+.+.-...+           ..++.+|...+.... -+
T Consensus         5 m~V~V~F~g~L~~lf~~~r~~~v~l~~~~~~~TV~dll~~L~~~~p~~~~~l~~~~~~lr~~v~v~vN~~di~~l~g-l~   83 (101)
T d1xo3a_           5 LCVKVEFGGGAELLFDGVKKHQVALPGQEEPWDIRNLLVWIKKNLLKERPELFIQGDSVRPGILVLINDADWELLGE-LD   83 (101)
T ss_dssp             CEEEEEECSSGGGGGTTCCCEEEECCSSSCCCCHHHHHHHHHHHHCCSCGGGSCCTTSCCSSEEEEETTEEHHHHTT-TS
T ss_pred             eEEEEEEechHHHHhCCcceEEEEcCCCCCCcCHHHHHHHHHHhCCcchhhhhccCcCeeeeEEEEEcCcceeccCC-Cc
Confidence            7888887541        345666653   479999999998887532211           223344443211000 15


Q ss_pred             ccccCCCEEEEEEEecCC
Q 032224           59 YNIQKESTLHLVLRLRGG   76 (145)
Q Consensus        59 ~gi~~~sti~l~~~~~gg   76 (145)
                      +.|++|+.|.++....||
T Consensus        84 t~l~dgDeV~~~p~v~GG  101 (101)
T d1xo3a_          84 YQLQDQDSILFISTLHGG  101 (101)
T ss_dssp             CCCCTTCEEEEEETTCCC
T ss_pred             cCcCCCCEEEEeCCCCCC
Confidence            678999999988777776

>d1gg3a3 d.15.1.4 (A:1-81) Erythroid membrane protein 4.1R {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: Erythroid membrane protein 4.1R
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.03  E-value=0.25  Score=29.37  Aligned_cols=38  Identities=13%  Similarity=0.109  Sum_probs=35.7

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCc
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP   38 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~   38 (145)
                      |+..|..++|+.+.++++..++..+|=+++.+..++..
T Consensus         1 ~~C~V~lLD~~~~~~~v~~~~~G~~l~~~Vc~~l~l~E   38 (81)
T d1gg3a3           1 MHCKVSLLDDTVYECVVEKHAKGQDLLKRVCEHLNLLE   38 (81)
T ss_dssp             CEEEEECTTSCEEEEECCTTCCHHHHHHHHHHHHTTCS
T ss_pred             CEEEEEecCCCEEEEEECCCCcHHHHHHHHHHHcCCcc
Confidence            78899999999999999999999999999999999764

>d1y8xb1 c.111.1.2 (B:349-440) UBA3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Activating enzymes of the ubiquitin-like proteins
superfamily: Activating enzymes of the ubiquitin-like proteins
family: Ubiquitin activating enzymes (UBA)
domain: UBA3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.00  E-value=0.13  Score=31.61  Aligned_cols=57  Identities=12%  Similarity=0.272  Sum_probs=38.5

Q ss_pred             EEEEcCCCcHHHHHHHHHHHhCCCcC--ce---------eeeeCCe-eccC------CCccccccccCCCEEEEE
Q 032224           14 TLEVESSDTIDNVKAKIQDKEGIPPD--QQ---------RLIFAGK-QLED------GRTLADYNIQKESTLHLV   70 (145)
Q Consensus        14 ~l~V~~~~TV~~LK~~I~~~~gip~~--~q---------~L~~~G~-~L~d------~~tL~~~gi~~~sti~l~   70 (145)
                      .+++++++|+.+|-+.+.+.-.+...  .+         .|+..+- .|+.      +.+|.++|+.+|..|.|.
T Consensus         4 ~l~~~~~~TL~~li~~L~e~p~~qlk~Psltt~~~g~~ktLYm~~pp~Lee~Tr~NL~k~L~eLgl~dG~ei~Vt   78 (92)
T d1y8xb1           4 NIQFSPSAKLQEVLDYLTNSASLQMKSPAITATLEGKNRTLYMQSVTSIEERTRPNLSKTLKELGLVDGQELAVA   78 (92)
T ss_dssp             CEECCTTCBHHHHHHHHHHCTTCCCSSCEEEEEETTEEEEEECSSCHHHHHHHHHHHHSBSGGGTCCTTCEEEEE
T ss_pred             eEEcCCCCcHHHHHHHHhhChHhhccCCceeeecCCCccEEEecCcHHHHHHhhhccccCHHHhCCcCCCEEEEe
Confidence            47889999999999999986432221  11         2222221 1332      368999999999999876

>d1zud21 d.15.3.2 (2:2-66) Thiamin biosynthesis sulfur carrier protein ThiS {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: ThiS
domain: Thiamin biosynthesis sulfur carrier protein ThiS
species: Escherichia coli [TaxId: 562]

Probab=91.17  E-value=0.42  Score=27.04  Aligned_cols=61  Identities=11%  Similarity=0.182  Sum_probs=43.0

Q ss_pred             CCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224            9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus         9 ~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      +|+.  .++++..||.+|-+.    .++++...-+..|+..+.-+ ...+.-+++|+.|.++--..||
T Consensus         5 Ng~~--~~~~~~~tl~~ll~~----l~~~~~~vaV~vN~~ivpk~-~~~~~~L~~gD~ieIv~~v~GG   65 (65)
T d1zud21           5 NDQA--MQCAAGQTVHELLEQ----LDQRQAGAALAINQQIVPRE-QWAQHIVQDGDQILLFQVIAGG   65 (65)
T ss_dssp             TTEE--ECCCTTCBHHHHHHH----HTCCCTTEEEEETTEECCGG-GTTTCBCCTTCEEEEEECCCCC
T ss_pred             CCEE--EEcCCCCcHHHHHHH----cCCCCCcEEEEECCEEcCHH-HHhhccCCCCCEEEEEEEecCC
Confidence            4444  456778899998875    57888878888999988532 2345667789999877554444

>d1ip9a_ d.15.2.2 (A:) Bud emergence mediator Bemp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: CAD & PB1 domains
family: PB1 domain
domain: Bud emergence mediator Bemp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=89.88  E-value=0.57  Score=27.90  Aligned_cols=43  Identities=14%  Similarity=0.139  Sum_probs=33.9

Q ss_pred             EEEEeC-CCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCC
Q 032224            3 IFVKTL-TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG   47 (145)
Q Consensus         3 I~Vk~~-~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G   47 (145)
                      |.||.. ++..+.+.++++.|..+|.++|+.++++.  ..+|-|..
T Consensus        13 ikVKv~~~~D~~~~~l~~~it~~dL~~kI~~rf~~~--~~~lkY~D   56 (85)
T d1ip9a_          13 TKIKFYYKDDIFALMLKGDTTYKELRSKIAPRIDTD--NFKLQTKL   56 (85)
T ss_dssp             EEEEECBTTCCEEEEECSCCCHHHHHHHHHHHHTSS--CEEEEECC
T ss_pred             EEEEEEECCcEEEEEeCCCCCHHHHHHHHHHHhCCC--ceEEEEEc
Confidence            455555 56688999999999999999999999764  46776643

>d1wgya_ d.15.1.5 (A:) Rap guanine nucleotide exchange factor 5, RapGEF5 {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: Rap guanine nucleotide exchange factor 5, RapGEF5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.57  E-value=1.1  Score=27.75  Aligned_cols=67  Identities=10%  Similarity=0.176  Sum_probs=47.4

Q ss_pred             EEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee---eCCee--ccCC-C-ccccccccCCCEEEEEEEe
Q 032224            5 VKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI---FAGKQ--LEDG-R-TLADYNIQKESTLHLVLRL   73 (145)
Q Consensus         5 Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~---~~G~~--L~d~-~-tL~~~gi~~~sti~l~~~~   73 (145)
                      |-..+..-.++.++.+.|+.++++.++++.+.+.+++.|+   ++|..  |.++ . -...+++  ++.|++..+.
T Consensus        14 VY~~Dhsy~tlr~~v~~sa~eI~~~vaeKl~~~~e~L~LV~V~SsGEr~~lkp~d~sV~TsL~l--N~rLFvc~~d   87 (104)
T d1wgya_          14 VYITEHSYVSVKAKVSSIAQEILKVVAEKIQYAEEDLALVAITFSGEKHELQPNDLVISKSLEA--SGRIYVYRKD   87 (104)
T ss_dssp             EECSSSCEEEECCCTTCBSHHHHHHHHHHHTSCGGGEEEEEECSSCCCCBCCTTSBSSCCSSCS--SCEEEEEECC
T ss_pred             EEecCCcEEEEEeeccCcHHHHHHHHHHHhCCCCCceEEEEEccCCcEEeeCccceeEEeeeee--cceEEEechh
Confidence            3344556678899999999999999999999998887776   67763  4433 2 2334444  6677776553

>d1h4ra3 d.15.1.4 (A:20-103) Merlin {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: Merlin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.08  E-value=1.3  Score=26.17  Aligned_cols=71  Identities=11%  Similarity=0.155  Sum_probs=50.2

Q ss_pred             CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCc-eeeee--CCe--eccCCCccccccccCCCEEEEEEE
Q 032224            1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQ-QRLIF--AGK--QLEDGRTLADYNIQKESTLHLVLR   72 (145)
Q Consensus         1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~-q~L~~--~G~--~L~d~~tL~~~gi~~~sti~l~~~   72 (145)
                      |.|.|..++++ ++++++..++..+|=+++.+..++...+ .=|.|  .|.  -|+.+..|....+..+..+.+.++
T Consensus         3 ~~v~V~lLD~~-le~~v~~~a~G~~L~d~Vc~~L~L~E~~YFGL~y~~~~~~~WLd~~k~l~kq~~~~~~~~~~~F~   78 (84)
T d1h4ra3           3 FTVRIVTMDAE-MEFNCEMKWKGKDLFDLVCRTLGLRETWFFGLQYTIKDTVAWLKMDKKVLDHDVSKEEPVTFHFL   78 (84)
T ss_dssp             EEEEEECSSCE-EEEEEETTCBHHHHHHHHHHHHTCCCGGGEEEEEEETTEEEECCTTSBGGGSSCCCSSSEEEEEE
T ss_pred             EEEEEEEcCCc-EEEEEcCCChHHHHHHHHHHHcCCcccccceEEEecCCceEEccCCCchhhhccCCCCCEEEEEE
Confidence            46788889874 7899999999999999999999975422 23332  333  466777777776555555555443

>d1v8ca1 d.15.3.1 (A:1-87) MoaD-related protein, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: MoaD
domain: MoaD-related protein, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=88.47  E-value=0.44  Score=28.27  Aligned_cols=61  Identities=18%  Similarity=0.298  Sum_probs=39.7

Q ss_pred             EEEEcCCCcHHHHHHHHHHHhC-C---------CcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224           14 TLEVESSDTIDNVKAKIQDKEG-I---------PPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus        14 ~l~V~~~~TV~~LK~~I~~~~g-i---------p~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      .++++ ..||.+|.+.+.+.+. +         ......+..+|+...+...+ +.-|.+|+.|.++....||
T Consensus        17 e~~v~-~~Tv~~ll~~L~~~~p~l~~~l~~~~~~~~~v~i~vng~~i~~~~~~-~~~l~~gdeV~i~PpvsGG   87 (87)
T d1v8ca1          17 QLELP-GATVGEVLENLVRAYPALKEELFEGEGLAERVSVFLEGRDVRYLQGL-STPLSPGATLDLFPPVAGG   87 (87)
T ss_dssp             EEECC-CSBHHHHHHHHHHHCGGGHHHHEETTEECTTCEEEETTEEGGGTTGG-GCBCCTTCEEEEECSCCSE
T ss_pred             EEEEc-CCCHHHHHHHHHHHCHHHHHHhcccccccceEEEEEcCeeeecccCC-cccCCCCCEEEEECCCCCC
Confidence            45665 4699999999987652 1         01224566777766543322 3457889999988766665

>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=88.02  E-value=0.56  Score=28.70  Aligned_cols=54  Identities=20%  Similarity=0.281  Sum_probs=39.4

Q ss_pred             EEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCce-eee--e--CC--eeccCCCcc
Q 032224            3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQ-RLI--F--AG--KQLEDGRTL   56 (145)
Q Consensus         3 I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q-~L~--~--~G--~~L~d~~tL   56 (145)
                      |.|=..+|.+..|.|++++|+.|+-+.+.++.+++.+.. -|+  +  .|  +.|+|...+
T Consensus        12 vkv~~~dg~~k~l~V~~~tTa~eV~~~l~~K~~~~~~~~f~L~E~~~~~~leR~L~d~E~v   72 (100)
T d1wgra_          12 VKVYSEDGACRSVEVAAGATARHVCEMLVQRAHALSDETWGLVECHPHLALERGLEDHESV   72 (100)
T ss_dssp             EEEEETTSCEEEEEECTTCCHHHHHHHHHCSSSCCCCCCCCEEEEETTTTEEEEECSSSCH
T ss_pred             EEEEecCCCEEEEEECCCCcHHHHHHHHHHHhCCCCCCCeEEEEecCCCcceeecCchHhH
Confidence            444457899999999999999999999999999865442 222  2  23  567776543

>d1fm0d_ d.15.3.1 (D:) Molybdopterin synthase subunit MoaD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: MoaD
domain: Molybdopterin synthase subunit MoaD
species: Escherichia coli [TaxId: 562]

Probab=85.95  E-value=0.73  Score=26.88  Aligned_cols=59  Identities=5%  Similarity=0.144  Sum_probs=38.9

Q ss_pred             EEEEEEcCCCcHHHHHHHHHHHhC-----CCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224           12 TITLEVESSDTIDNVKAKIQDKEG-----IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus        12 ~~~l~V~~~~TV~~LK~~I~~~~g-----ip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      ...+++ +..|+.+|++.+.++..     +.....++..+++..+++.     -|++|+.|-+.....||
T Consensus        18 ~~~~~~-~~~tv~~l~~~L~~~~~~~~~~l~~~~~~vavn~~~~~~~~-----~l~~gdevAi~PPVsGG   81 (81)
T d1fm0d_          18 ATEVAA-DFPTVEALRQHMAAQSDRWALALEDGKLLAAVNQTLVSFDH-----PLTDGDEVAFFPPVTGG   81 (81)
T ss_dssp             EEEECS-CCSBHHHHHHHHHTTCHHHHHHHCCTTCEEEETTEECCTTC-----BCCTTCEEEEECCCCCC
T ss_pred             eEEecC-CCCCHHHHHHHHHHhCchHHHHhcCCcEEEecCceecCCCC-----CcCCCCEEEEECCCCCC
Confidence            455554 34689999999976542     2233456667777665544     45689999887766665

>d1j0ga_ d.15.1.6 (A:) Hypothetical protein 1810045k17 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: BM-002-like
domain: Hypothetical protein 1810045k17
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=81.89  E-value=2.6  Score=24.89  Aligned_cols=65  Identities=20%  Similarity=0.260  Sum_probs=51.7

Q ss_pred             EEE-EEEcCCCcHHHHHHHHHHHhCCCcCceeee-eCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224           12 TIT-LEVESSDTIDNVKAKIQDKEGIPPDQQRLI-FAGKQLEDGRTLADYNIQKESTLHLVLRLRGG   76 (145)
Q Consensus        12 ~~~-l~V~~~~TV~~LK~~I~~~~gip~~~q~L~-~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg   76 (145)
                      .|. +.|+.......+-.-.++++.+|+..--++ -+|--+...++-...=++.|+.|.|+.|.+-|
T Consensus        24 pfkvlsVpE~aPftAVlkfaAEeFkV~~~TSAiITndGvGINP~QtAg~vFlKhGselrliPRDRVG   90 (92)
T d1j0ga_          24 PYKVLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGSELRIIPRDRVG   90 (92)
T ss_dssp             CEEEEEEETTSBHHHHHHHHHHHTTCCSSSEEEECTTSCCCCCSSBHHHHHHHTCSEEEEEECCSSC
T ss_pred             ccEEEecCccCchHHHHHHHHHHcCCCccceeEEecCccccChhhccchhhhhcCceeeeccccccc
Confidence            444 689999988888888899999998766555 55666777788777778999999999887655

>d1wxma1 d.15.1.5 (A:8-80) A-Raf proto-oncogene serine/threonine-protein kinase {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: A-Raf proto-oncogene serine/threonine-protein kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.39  E-value=3.3  Score=23.82  Aligned_cols=42  Identities=12%  Similarity=0.073  Sum_probs=37.6

Q ss_pred             EEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee
Q 032224            3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI   44 (145)
Q Consensus         3 I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~   44 (145)
                      |.|-.++|+.-.+.+.|..||.++-..+.++-|+.++...++
T Consensus         3 iRv~LPngq~T~V~vrpG~tir~~L~k~l~kRgl~~~~~~V~   44 (73)
T d1wxma1           3 VKVYLPNKQRTVVTVRDGMSVYDSLDKALKVRGLNQDCCVVY   44 (73)
T ss_dssp             EEEECSSSCEEEEECCSSCBSHHHHHHHHHTTTCCSSSEEEE
T ss_pred             EEEEcCCCCeEEEEecCCCCHHHHHHHHHHHcCCCHHHEEEE
Confidence            566678899999999999999999999999999999887775

>d1eo6a_ d.15.1.3 (A:) Golgi-associated ATPase enhancer of 16 kD, Gate-16 {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: GABARAP-like
domain: Golgi-associated ATPase enhancer of 16 kD, Gate-16
species: Cow (Bos taurus) [TaxId: 9913]

Probab=81.18  E-value=1  Score=28.50  Aligned_cols=59  Identities=14%  Similarity=0.129  Sum_probs=43.8

Q ss_pred             EEEEcCCCcHHHHHHHHHHHhCCCcCc-eeeeeCCeeccCCCccccccc---cCCCEEEEEEE
Q 032224           14 TLEVESSDTIDNVKAKIQDKEGIPPDQ-QRLIFAGKQLEDGRTLADYNI---QKESTLHLVLR   72 (145)
Q Consensus        14 ~l~V~~~~TV~~LK~~I~~~~gip~~~-q~L~~~G~~L~d~~tL~~~gi---~~~sti~l~~~   72 (145)
                      .+-|+.+.||++|...|..+.+++++. +-|+.++..+..+.+|++.=-   .++.-|++...
T Consensus        48 KfLVP~dltv~qf~~vIRkrl~l~~~~alflfv~~~l~~~s~~i~~lY~~~KdeDGfLYi~Ys  110 (116)
T d1eo6a_          48 KYLVPSDITVAQFMWIIRKRIQLPSEKAIFLFVDKTVPQSSLTMGQLYEKEKDEDGFLYVAYS  110 (116)
T ss_dssp             EEEEETTSBHHHHHHHHHHHHTCCTTSCCEEEBTTBCCCTTSBHHHHHHHHCCTTSCEEEEEE
T ss_pred             EEeecCCCcHHHHHHHHHHHcCCCccceEEEEECCcccchhhhHHHHHHHcCCCCcEEEEEEe
Confidence            457889999999999999999998754 455567777778888876511   24556777654

>d3d32a1 d.15.1.3 (A:1-118) GABA(A) receptor associated protein GABARAP {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: GABARAP-like
domain: GABA(A) receptor associated protein GABARAP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.92  E-value=1  Score=28.59  Aligned_cols=59  Identities=10%  Similarity=0.055  Sum_probs=43.9

Q ss_pred             EEEEcCCCcHHHHHHHHHHHhCCCcCc-eeeeeCCeeccCCCcccccc--c-cCCCEEEEEEE
Q 032224           14 TLEVESSDTIDNVKAKIQDKEGIPPDQ-QRLIFAGKQLEDGRTLADYN--I-QKESTLHLVLR   72 (145)
Q Consensus        14 ~l~V~~~~TV~~LK~~I~~~~gip~~~-q~L~~~G~~L~d~~tL~~~g--i-~~~sti~l~~~   72 (145)
                      .+-|+.+.||++|...|..+.+++++. +-|+.++..+..+.+++++=  - .++.-|++...
T Consensus        50 KflVp~d~tv~qf~~~iRkrl~l~~~~alflfvn~~~~~~~~ti~~lY~~~kdeDGfLYi~Ys  112 (118)
T d3d32a1          50 KYLVPSDLTVGQFYFLIRKRIHLRAEDALFFFVNNVIPPTSATMGQLYQEHHEEDFFLYIAYS  112 (118)
T ss_dssp             EEEEETTCBHHHHHHHHHHHHTCCTTSCCEEEBTTBCCCTTCBHHHHHHHHCCTTSCEEEEEE
T ss_pred             eEEecCCccHHHHHHHHHHHhCCCccceEEEEECCcccCccccHHHHHHHhCCCCcEEEEEEe
Confidence            357889999999999999999998866 55666777777778877651  1 23556777654