Citrus Sinensis ID: 024447

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------
Protein Sequence
MMMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDLTNPESNSAIQVTNFFS
Secondary Structure (PSIPRED)
ccHHHHcHHHHHHHHHHHcHHHHHHHHHHHHHHHHcccHHHHHHcccHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHcccHHHHHHHHccccccHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHccccccHHHHHHHHHccccHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHccccHHHHHHHHHHccccHHHHHHHHcccccccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHccHHHHHHHHHHHHHHHHcHHcccHHHHHHHHHHHHHHHHHcccHHHHHHHHccccHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHccccHHHHHHHHHccccHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHccccHHHHHHHHHHccccHHHHHHHHccHHHcHHHHHHHccc
Coil and Loop (DISEMBL)
MMMGLMLHANAKSLIKRHMYKDALEVLTMGeeafslcdpkvlefvdngpllqiDMVWCYFMLRDISWLSEAGIRLRKAREGierahgkdssrvrllqagrhpELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFqlqvpdesLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQkrygltplkkaVDIEKIKELVSIGFEKELVAEALRRNENDSQkalddltnpesnsaIQVTNFFS
Flexible Loop (DISEMBL)
MMMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAregierahgkdssrvrllqAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIdflveekakrvkeredneqrrkeimeqkrygltplkkavdieKIKELVSIGFEKELVAEALRRNENDSQkalddltnpesnsaiqvtnffs
Low Complexity Region (SEG)
MMMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLveekakrvkereDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDLTNPESNSAIQVTNFFS
Disordered region (IsUnstruct)
******LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKA****************LLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLV*************************YGLTPLKKAVDIEKIKELVSIGFEKELVA*********************************
Disordered Region (DISOPRED)
MMMGLM*HANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQF*****************QVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEK**********************************EKIKELVSIGFEKELVAEALRRNENDSQKALDDLTNPESN**********
Disordered Region (DISEMBL)
MMMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGI*********RVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAK***********RKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDLTNPESNSAIQVTNFFS
Disordered Region (DISPRO)
MMMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDLTNPESNSAIQVTNFFS
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MMMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKxxxxxxxxxxxxxxxxxxxxxRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDLTNPESNSAIQVTNFFS
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	267	2.2.26 [Sep-21-2011]
P54729	614	NEDD8 ultimate buster 1 O	yes	no	0.880	0.382	0.280	8e-22
Q9Y5A7	615	NEDD8 ultimate buster 1 O	yes	no	0.655	0.284	0.308	5e-21

>sp|P54729|NUB1_MOUSE NEDD8 ultimate buster 1 OS=Mus musculus GN=Nub1 PE=1 SV=2

 Score =  104 bits (259), Expect = 8e-22,   Method: Compositional matrix adjust.
 Identities = 72/257 (28%), Positives = 128/257 (49%), Gaps = 22/257 (8%)

Query: 1   MMMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYF 60
           +M+ +  H   ++ +KR  Y  AL  L   +  F  C  ++L+ VDN  +LQ+D+VWCYF
Sbjct: 233 LMLAMGYHEKGRAFLKRKEYGIALPCLLDADRYFCECK-ELLDTVDNYAVLQLDIVWCYF 291

Query: 61  MLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYH 120
            L  +  L +A  +L  A++  +  +G++  R+  ++     E  L LR+ LL+G+  YH
Sbjct: 292 RLEQLECLDDAEKKLNLAQKCFKNCYGENHQRLVHIKGNCGKEKVLFLRLYLLQGIQNYH 351

Query: 121 SGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLV 180
           SG  ++AR  L  A+  F +L +    +  ++ +GF  Q+A+  LR C  +V  A   + 
Sbjct: 352 SGNGEEAREYLNKARQLFKELYIDPSKVHNLLQLGFTAQEARLGLRACDGNVDHAATHI- 410

Query: 181 EEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEAL--- 237
                          RR+E+ + ++      K+   +E +  L  +G+  +   +AL   
Sbjct: 411 -------------SNRREELAQIRK--EEKEKRRRRLENVNTLRGMGYSTQAAKQALHQA 455

Query: 238 RRNENDSQKALDDLTNP 254
           R N +D+ K L  L+NP
Sbjct: 456 RGNLDDALKVL--LSNP 470

Specific down-regulator of the NEDD8 conjugation system. Recruits NEDD8, UBD, and their conjugates to the proteasome for degradation.
Mus musculus (taxid: 10090)

>sp|Q9Y5A7|NUB1_HUMAN NEDD8 ultimate buster 1 OS=Homo sapiens GN=NUB1 PE=1 SV=2

 Score =  101 bits (252), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 54/175 (30%), Positives = 94/175 (53%)

Query: 1   MMMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYF 60
           +M+ +  H   ++ +KR  Y  AL  L   ++ F  C  ++L+ VDN  +LQ+D+VWCYF
Sbjct: 233 LMLAMGYHEKGRAFLKRKEYGIALPCLLDADKYFCECCRELLDTVDNYAVLQLDIVWCYF 292

Query: 61  MLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYH 120
            L  +  L +A  +L  A++  +  +G++  R+  ++     E  L LR+ LL+G+  YH
Sbjct: 293 RLEQLECLDDAEKKLNLAQKCFKNCYGENHQRLVHIKGNCGKEKVLFLRLYLLQGIRNYH 352

Query: 121 SGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSA 175
           SG   +A   L  A+  F +L +    +  ++ +GF  Q+A+  LR C  +V  A
Sbjct: 353 SGNDVEAYEYLNKARQLFKELYIDPSKVDNLLQLGFTAQEARLGLRACDGNVDHA 407

Specific down-regulator of the NEDD8 conjugation system. Recruits NEDD8, UBD, and their conjugates to the proteasome for degradation. Isoform 1 promotes the degradation of NEDD8 more efficiently than isoform 2.

Homo sapiens (taxid: 9606)

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	267
388521561	557	unknown [Lotus japonicus]	0.977	0.468	0.743	1e-111
356556537	555	PREDICTED: uncharacterized protein LOC10	0.985	0.473	0.749	1e-108
255583086	559	NEDD8 ultimate buster, putative [Ricinus	0.977	0.466	0.750	1e-107
356530579	556	PREDICTED: NEDD8 ultimate buster 1-like	0.985	0.473	0.745	1e-106
224142489	578	predicted protein [Populus trichocarpa]	0.977	0.451	0.731	1e-105
225463067	552	PREDICTED: NEDD8 ultimate buster 1 [Viti	0.981	0.474	0.767	1e-105
297831800	570	ubiquitin-associated /TS-N domain-contai	0.981	0.459	0.664	1e-104
224120288	566	predicted protein [Populus trichocarpa]	0.977	0.461	0.735	1e-104
20198241	538	hypothetical protein [Arabidopsis thalia	0.977	0.485	0.670	1e-103
42569006	562	ubiquitin-associated (UBA)/TS-N domain-c	0.973	0.462	0.673	1e-103

>gi|388521561|gb|AFK48842.1| unknown [Lotus japonicus]

 Score =  406 bits (1044), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 194/261 (74%), Positives = 229/261 (87%)

Query: 1   MMMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYF 60
           +MMGLMLHA  K LI++  YKDALEVL MGEE+FSLCDPKV+E +DN P+LQIDMVWCYF
Sbjct: 139 VMMGLMLHAKGKRLIRQGNYKDALEVLIMGEESFSLCDPKVIELIDNVPILQIDMVWCYF 198

Query: 61  MLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYH 120
           M+RDI  LS+AG RL  AR GIERAHGKDS R+R+LQ G +PELALHLRMELLEGV AYH
Sbjct: 199 MIRDIRCLSDAGKRLEMARAGIERAHGKDSLRLRILQGGCYPELALHLRMELLEGVVAYH 258

Query: 121 SGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLV 180
           +GQ +K+RN L SA+AKF QLQVPDE+LSLVMSMGFKE+ AKRALR+ +QDVGSAIDFLV
Sbjct: 259 TGQLEKSRNVLASARAKFAQLQVPDEALSLVMSMGFKERGAKRALRMNNQDVGSAIDFLV 318

Query: 181 EEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRN 240
            EKAK++++RE++ +RR EI EQK YG+TP KKAVDI+++KELVSIGFEKEL AEALRRN
Sbjct: 319 AEKAKKMQKREEDIRRRNEIREQKSYGMTPSKKAVDIDRLKELVSIGFEKELAAEALRRN 378

Query: 241 ENDSQKALDDLTNPESNSAIQ 261
           END+Q+ALDDLTNPE+N A+Q
Sbjct: 379 ENDTQQALDDLTNPETNLALQ 399

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356556537|ref|XP_003546581.1| PREDICTED: uncharacterized protein LOC100804062 [Glycine max]

 Score =  397 bits (1021), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 197/263 (74%), Positives = 234/263 (88%)

Query: 1   MMMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYF 60
           +MMGLMLHA  K LI++  YKDALEVL+MGEE+FSLCDPKV+E +DN P+LQIDMVWCYF
Sbjct: 143 VMMGLMLHAKGKRLIRQGNYKDALEVLSMGEESFSLCDPKVIELIDNVPILQIDMVWCYF 202

Query: 61  MLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYH 120
           M+RDI WLS+AG RL  AREGIERAHGKDS R+RLLQ GR+PELALHLR+ELLEGV AYH
Sbjct: 203 MIRDIKWLSDAGKRLEMAREGIERAHGKDSFRLRLLQGGRYPELALHLRLELLEGVVAYH 262

Query: 121 SGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLV 180
           +GQF+K++  L SA+ KF QLQVPDE+LSLVMSMGF E+DAKRALR+ +QDVG AIDFL 
Sbjct: 263 TGQFEKSKQTLASARTKFIQLQVPDEALSLVMSMGFAERDAKRALRMNNQDVGGAIDFLA 322

Query: 181 EEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRN 240
           EEK K++++RE++ +RR EI EQKRYG+TPLKKAVD+E++KELVSIGF+KEL AEALRRN
Sbjct: 323 EEKTKKLRKREEDIRRRNEIKEQKRYGMTPLKKAVDLERLKELVSIGFDKELAAEALRRN 382

Query: 241 ENDSQKALDDLTNPESNSAIQVT 263
           END+QKALDDLTNPE+NSA+QV 
Sbjct: 383 ENDTQKALDDLTNPETNSALQVN 405

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255583086|ref|XP_002532310.1| NEDD8 ultimate buster, putative [Ricinus communis] gi|223527979|gb|EEF30062.1| NEDD8 ultimate buster, putative [Ricinus communis]

 Score =  395 bits (1014), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 196/261 (75%), Positives = 231/261 (88%)

Query: 1   MMMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYF 60
           +MMGLMLHAN K LI+R M+KDALEVLTMGEEAFSLC+PK +E VDN  +LQIDMVWCYF
Sbjct: 147 IMMGLMLHANGKGLIRRQMFKDALEVLTMGEEAFSLCNPKSIELVDNISILQIDMVWCYF 206

Query: 61  MLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYH 120
           MLRDI+WLS AG+RL KAREG+ERAHGKDSSR RLLQAGR  EL+L+LR+ELLEGV AYH
Sbjct: 207 MLRDIAWLSVAGVRLEKAREGLERAHGKDSSRFRLLQAGRSSELSLYLRLELLEGVVAYH 266

Query: 121 SGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLV 180
           SGQFDK R  LTSAQ +FFQL+VPDE+LS+VM MGFKE DAKRALR+ +QD+ SAI+FLV
Sbjct: 267 SGQFDKCRKYLTSAQERFFQLRVPDEALSIVMGMGFKENDAKRALRMSNQDIESAINFLV 326

Query: 181 EEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRN 240
           EEK ++ K+ ED+ +RR EI EQ+RYG T LKKAVD++++KELVS+GFEKEL AEALRRN
Sbjct: 327 EEKERKAKKMEDDIRRRAEIREQRRYGETALKKAVDLQRLKELVSLGFEKELAAEALRRN 386

Query: 241 ENDSQKALDDLTNPESNSAIQ 261
           ENDS+KALDDLTNP++N+AIQ
Sbjct: 387 ENDSEKALDDLTNPQTNTAIQ 407

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356530579|ref|XP_003533858.1| PREDICTED: NEDD8 ultimate buster 1-like [Glycine max]

 Score =  392 bits (1006), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 196/263 (74%), Positives = 233/263 (88%)

Query: 1   MMMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYF 60
           +MMGLMLHA  K LI++  YKDALEVL+MGEE+FSLCDPKV+E +DN P+LQIDMVWCYF
Sbjct: 144 VMMGLMLHAKGKRLIRQGNYKDALEVLSMGEESFSLCDPKVIELIDNVPILQIDMVWCYF 203

Query: 61  MLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYH 120
           M+RDI WLS+AG RL  AREGIERAHGKDS R+RLLQ GR+PELALHLR+ELLEGV AYH
Sbjct: 204 MIRDIRWLSDAGKRLEMAREGIERAHGKDSFRLRLLQVGRYPELALHLRLELLEGVVAYH 263

Query: 121 SGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLV 180
            GQ +K++  L SA+ KF QLQVPDE+LSLVMSMGF E+DAKRALR+ +QDVG AIDFL 
Sbjct: 264 IGQLEKSKKTLASARTKFIQLQVPDEALSLVMSMGFVERDAKRALRMNNQDVGGAIDFLA 323

Query: 181 EEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRN 240
           EEKAK++++RE++ +RR EI EQK+YG+TPLKKAVD+E++KELVSIGF+KEL AEALRRN
Sbjct: 324 EEKAKKLQKREEDIRRRNEIKEQKQYGMTPLKKAVDLERLKELVSIGFDKELAAEALRRN 383

Query: 241 ENDSQKALDDLTNPESNSAIQVT 263
           END+QKALDDLTNPE+NSA+QV 
Sbjct: 384 ENDTQKALDDLTNPETNSALQVN 406

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224142489|ref|XP_002324589.1| predicted protein [Populus trichocarpa] gi|222866023|gb|EEF03154.1| predicted protein [Populus trichocarpa]

 Score =  388 bits (996), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 191/261 (73%), Positives = 231/261 (88%)

Query: 1   MMMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYF 60
           +M GLMLH + K  I++ M+ DALEVLTMGEEAFSLC+PK +E VDN P+LQIDMVWCYF
Sbjct: 153 IMTGLMLHTSGKRFIRKQMFTDALEVLTMGEEAFSLCNPKSIELVDNIPILQIDMVWCYF 212

Query: 61  MLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYH 120
           MLRDI+W++ AG+RL+KAREG+ERAHGKDSSR RLLQAGR  ELAL+LR+ELLEGV AYH
Sbjct: 213 MLRDIAWIAVAGLRLKKAREGLERAHGKDSSRFRLLQAGRTSELALYLRLELLEGVVAYH 272

Query: 121 SGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLV 180
           SGQF+K+R  L SAQ KFFQLQVPDE+LSLVMSMGF E DAKRALR+ +QD+ SA++FLV
Sbjct: 273 SGQFNKSRKFLASAQEKFFQLQVPDEALSLVMSMGFGEWDAKRALRMSNQDIQSAVNFLV 332

Query: 181 EEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRN 240
            E+ KR ++RED+ +RR EIMEQKRYG+TPLKKAVD++++ E+VSIGFEKEL AEALR+N
Sbjct: 333 VEREKREQKREDDIRRRNEIMEQKRYGVTPLKKAVDLQRLTEVVSIGFEKELAAEALRKN 392

Query: 241 ENDSQKALDDLTNPESNSAIQ 261
           END+QKALDDLTNPE+N+A+Q
Sbjct: 393 ENDTQKALDDLTNPEANTALQ 413

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225463067|ref|XP_002268993.1| PREDICTED: NEDD8 ultimate buster 1 [Vitis vinifera] gi|296084548|emb|CBI25569.3| unnamed protein product [Vitis vinifera]

 Score =  386 bits (991), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 201/262 (76%), Positives = 240/262 (91%)

Query: 1   MMMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYF 60
           +MMGLMLHANAK +IK+  YKDALEVL+MGEEAFSLC+PKV+E VDN P+LQIDMVWCYF
Sbjct: 142 VMMGLMLHANAKQMIKKENYKDALEVLSMGEEAFSLCNPKVIELVDNVPILQIDMVWCYF 201

Query: 61  MLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYH 120
           MLRDI WLSEAGIRL KAREGIER+HGKD+SRVR+LQ GR+PELALHLR+ELLEGV ++H
Sbjct: 202 MLRDIRWLSEAGIRLAKAREGIERSHGKDASRVRVLQNGRYPELALHLRLELLEGVVSFH 261

Query: 121 SGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLV 180
           SGQF+K++  LTSAQAK+FQLQVPDE+LSL+MSMG+KE+++KRALR+ +Q +  AIDFLV
Sbjct: 262 SGQFEKSKKVLTSAQAKYFQLQVPDEALSLLMSMGYKERNSKRALRMSNQQLDLAIDFLV 321

Query: 181 EEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRN 240
           EEKAK+ K+RE++ QRR EIMEQKRYG+TPL+KAVD++ +  LVSIGFEKEL AEALRRN
Sbjct: 322 EEKAKKEKKREEDIQRRNEIMEQKRYGMTPLRKAVDLQSLHMLVSIGFEKELAAEALRRN 381

Query: 241 ENDSQKALDDLTNPESNSAIQV 262
           END+QKALDDLTNPE+NSAIQ+
Sbjct: 382 ENDTQKALDDLTNPETNSAIQL 403

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297831800|ref|XP_002883782.1| ubiquitin-associated /TS-N domain-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297329622|gb|EFH60041.1| ubiquitin-associated /TS-N domain-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  384 bits (985), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 174/262 (66%), Positives = 226/262 (86%)

Query: 1   MMMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYF 60
           +MMGLMLH  AKS I+  MY DA+EVL M EE+F LCDPK+LE VDN P+++ID+VWCYF
Sbjct: 142 VMMGLMLHTKAKSFIEMEMYSDAVEVLAMAEESFLLCDPKILELVDNLPMMEIDIVWCYF 201

Query: 61  MLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYH 120
           +LRD+  LS+AG+RL +AR+G+ERAHGKD SRVRLLQAG+ PE+AL+LR+ELLEGV AYH
Sbjct: 202 LLRDVKCLSDAGVRLERARKGLERAHGKDLSRVRLLQAGQSPEMALYLRLELLEGVVAYH 261

Query: 121 SGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLV 180
           +GQ+DKA NAL SA AKF QLQ+PDE+LSLVM MGF+E+DAKRALR+ +QD+ S++DFL+
Sbjct: 262 TGQYDKALNALKSAHAKFLQLQIPDETLSLVMGMGFQEKDAKRALRLNNQDIASSVDFLI 321

Query: 181 EEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRN 240
           EE+AKR ++RE + QR++EI+EQK+YG+TP+KKAVD++ ++ LVSIG+ ++L AE+LRRN
Sbjct: 322 EERAKRAQKREQDLQRQQEILEQKKYGVTPMKKAVDMQMLERLVSIGYARDLAAESLRRN 381

Query: 241 ENDSQKALDDLTNPESNSAIQV 262
           END QKALD LT+P+ NS IQ 
Sbjct: 382 ENDIQKALDILTDPKVNSTIQA 403

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224120288|ref|XP_002331011.1| predicted protein [Populus trichocarpa] gi|222872941|gb|EEF10072.1| predicted protein [Populus trichocarpa]

 Score =  382 bits (982), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 192/261 (73%), Positives = 229/261 (87%)

Query: 1   MMMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYF 60
           +M GLMLH + K  I++ M+ DALEVLTMGEEAFSLC+PK +E VDN P+LQIDMVWCYF
Sbjct: 145 IMTGLMLHTSGKRFIRKQMFSDALEVLTMGEEAFSLCNPKSIELVDNIPILQIDMVWCYF 204

Query: 61  MLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYH 120
           ML+DI+WLS AG+RL KAREG+ERAHGKDSSR RLLQAG   ELAL+LR+ELLEGV AYH
Sbjct: 205 MLQDIAWLSVAGLRLEKAREGLERAHGKDSSRFRLLQAGCSSELALYLRLELLEGVVAYH 264

Query: 121 SGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLV 180
           SGQFDK+R  LTSAQAKFFQLQVPDE+LS+VMS+GF EQDAKRALR+ +QDV SA++FLV
Sbjct: 265 SGQFDKSRKFLTSAQAKFFQLQVPDEALSVVMSIGFGEQDAKRALRMSNQDVQSAVNFLV 324

Query: 181 EEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRN 240
            E+ KR ++RED+ +RR EI +QKRYG+TPLKKAVD++K+ ELVSIGFEKEL AEALR+N
Sbjct: 325 LEREKREQKREDDIRRRNEIKQQKRYGVTPLKKAVDLQKLTELVSIGFEKELAAEALRKN 384

Query: 241 ENDSQKALDDLTNPESNSAIQ 261
           EN SQ+ALDDLTNPE+N+ +Q
Sbjct: 385 ENGSQEALDDLTNPEANTELQ 405

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|20198241|gb|AAM15479.1| hypothetical protein [Arabidopsis thaliana] gi|110735108|gb|ABG89124.1| NUB1 [synthetic construct]

 Score =  382 bits (980), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 175/261 (67%), Positives = 224/261 (85%)

Query: 2   MMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFM 61
           MMGLMLH  AKSLI+  MY DA+EVL M EE+F LCDPK+LE VDN P+++ID+VWCYF+
Sbjct: 119 MMGLMLHTKAKSLIEIEMYSDAVEVLAMAEESFLLCDPKILELVDNLPMMEIDIVWCYFL 178

Query: 62  LRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHS 121
           LRDI  LS+AG+RL +AR+G+ERAHGKD SRVRLLQAG+ PE+A++LR+ELLEGV AYH+
Sbjct: 179 LRDIKCLSDAGVRLVRARKGLERAHGKDLSRVRLLQAGQSPEMAIYLRLELLEGVVAYHT 238

Query: 122 GQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE 181
           GQ DKA NAL SA AKF QLQ+PDE+LSLVM MGF+E+DAKRALR+ +QD+ S++DFL+E
Sbjct: 239 GQNDKALNALKSAHAKFLQLQIPDETLSLVMGMGFQEKDAKRALRLNNQDIASSVDFLIE 298

Query: 182 EKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRNE 241
           E+AK+ ++RE + QR+ EI+EQK+YG+TP+KKAVD++ ++ LVSIG+ +EL AE+LRRNE
Sbjct: 299 ERAKKAQKREQDLQRQSEILEQKKYGVTPMKKAVDMQMLERLVSIGYARELAAESLRRNE 358

Query: 242 NDSQKALDDLTNPESNSAIQV 262
           ND QKALD LT+P+ NS IQ 
Sbjct: 359 NDIQKALDILTDPKVNSTIQA 379

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|42569006|ref|NP_178939.2| ubiquitin-associated (UBA)/TS-N domain-containing protein [Arabidopsis thaliana] gi|63147404|gb|AAY34175.1| At2g12550 [Arabidopsis thaliana] gi|330251110|gb|AEC06204.1| ubiquitin-associated (UBA)/TS-N domain-containing protein [Arabidopsis thaliana]

 Score =  381 bits (978), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 175/260 (67%), Positives = 224/260 (86%)

Query: 2   MMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFM 61
           MMGLMLH  AKSLI+  MY DA+EVL M EE+F LCDPK+LE VDN P+++ID+VWCYF+
Sbjct: 143 MMGLMLHTKAKSLIEIEMYSDAVEVLAMAEESFLLCDPKILELVDNLPMMEIDIVWCYFL 202

Query: 62  LRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHS 121
           LRDI  LS+AG+RL +AR+G+ERAHGKD SRVRLLQAG+ PE+A++LR+ELLEGV AYH+
Sbjct: 203 LRDIKCLSDAGVRLVRARKGLERAHGKDLSRVRLLQAGQSPEMAIYLRLELLEGVVAYHT 262

Query: 122 GQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE 181
           GQ DKA NAL SA AKF QLQ+PDE+LSLVM MGF+E+DAKRALR+ +QD+ S++DFL+E
Sbjct: 263 GQNDKALNALKSAHAKFLQLQIPDETLSLVMGMGFQEKDAKRALRLNNQDIASSVDFLIE 322

Query: 182 EKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRNE 241
           E+AK+ ++RE + QR+ EI+EQK+YG+TP+KKAVD++ ++ LVSIG+ +EL AE+LRRNE
Sbjct: 323 ERAKKAQKREQDLQRQSEILEQKKYGVTPMKKAVDMQMLERLVSIGYARELAAESLRRNE 382

Query: 242 NDSQKALDDLTNPESNSAIQ 261
           ND QKALD LT+P+ NS IQ
Sbjct: 383 NDIQKALDILTDPKVNSTIQ 402

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	267
TAIR|locus:2060754	562	NUB1 "homolog of human NUB1" [	0.973	0.462	0.65	1.6e-88
FB|FBgn0031161	646	CG15445 [Drosophila melanogast	0.985	0.407	0.292	1.9e-26
ZFIN|ZDB-GENE-060929-724	593	zgc:153057 "zgc:153057" [Danio	0.865	0.389	0.287	6.4e-25
UNIPROTKB|F1SSM7	563	NUB1 "Uncharacterized protein"	0.895	0.424	0.289	1.4e-23
UNIPROTKB|E1BZ00	616	NUB1 "Uncharacterized protein"	0.895	0.387	0.273	5e-23
ZFIN|ZDB-GENE-080212-11	583	nub1 "negative regulator of ub	0.865	0.396	0.271	7.1e-23
UNIPROTKB|Q05B69	614	NUB1 "Negative regulator of ub	0.895	0.389	0.281	1.3e-22
MGI|MGI:1889001	614	Nub1 "negative regulator of ub	0.880	0.382	0.291	1.7e-22
RGD|1359489	613	Nub1 "negative regulator of ub	0.880	0.383	0.280	9.8e-22
UNIPROTKB|Q9Y5A7	615	NUB1 "NEDD8 ultimate buster 1"	0.895	0.388	0.281	1.6e-21

TAIR|locus:2060754 NUB1 "homolog of human NUB1" [Arabidopsis thaliana (taxid:3702)]

 Score = 884 (316.2 bits), Expect = 1.6e-88, P = 1.6e-88
 Identities = 169/260 (65%), Positives = 213/260 (81%)

Query:     2 MMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFM 61
             MMGLMLH  AKSLI+  MY DA+EVL M EE+F LCDPK+LE VDN P+++ID+VWCYF+
Sbjct:   143 MMGLMLHTKAKSLIEIEMYSDAVEVLAMAEESFLLCDPKILELVDNLPMMEIDIVWCYFL 202

Query:    62 LRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHS 121
             LRDI  LS+AG+RL +AR+G+ERAHGKD SRVRLLQAG+ PE+A++LR+ELLEGV AYH+
Sbjct:   203 LRDIKCLSDAGVRLVRARKGLERAHGKDLSRVRLLQAGQSPEMAIYLRLELLEGVVAYHT 262

Query:   122 GQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLXX 181
             GQ DKA NAL SA AKF QLQ+PDE+LSLVM MGF+E+DAKRALR+ +QD+ S++DFL  
Sbjct:   263 GQNDKALNALKSAHAKFLQLQIPDETLSLVMGMGFQEKDAKRALRLNNQDIASSVDFLIE 322

Query:   182 XXXXXXXXXXDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRNE 241
                        + QR+ EI+EQK+YG+TP+KKAVD++ ++ LVSIG+ +EL AE+LRRNE
Sbjct:   323 ERAKKAQKREQDLQRQSEILEQKKYGVTPMKKAVDMQMLERLVSIGYARELAAESLRRNE 382

Query:   242 NDSQKALDDLTNPESNSAIQ 261
             ND QKALD LT+P+ NS IQ
Sbjct:   383 NDIQKALDILTDPKVNSTIQ 402

GO:0005634 "nucleus" evidence=ISM

FB|FBgn0031161 CG15445 [Drosophila melanogaster (taxid:7227)]

 Score = 306 (112.8 bits), Expect = 1.9e-26, P = 1.9e-26
 Identities = 79/270 (29%), Positives = 140/270 (51%)

Query:     1 MMMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYF 60
             ++MGL     A++ + R  +++AL +L   +E FS C  K LE VDN  LL +D+VWCYF
Sbjct:   239 LLMGLGFCEKARAAMNRKHFEEALLLLLEADEHFSTCGSKFLESVDNYALLNLDIVWCYF 298

Query:    61 MLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYH 120
              L++++ L +A  RL +       ++G +  R+  L+    PE AL +R++LL+GV  +H
Sbjct:   299 CLKNVTQLPDAEHRLARCSRNFGISYGDNLERLYSLKGKDCPERALIMRLKLLQGVIFFH 358

Query:   121 SGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQD--VGSAIDF 178
                 ++A     +A+    +L++ ++ L+L++ MGF+  +A+ ALR C     V  A+ F
Sbjct:   359 QNLRNQAFECFEAAKTLLNELKINNDQLALLVDMGFEPSEARMALRSCKGGTAVEQAVQF 418

Query:   179 LXXXXXXXXXXXXDNEQRRKEIMEQKRYGLTPLKKA--VDIEKIKELVSIGFEKELVAEA 236
             +              + +  E   ++R   +  K    V+   +  L  +GFE  L   A
Sbjct:   419 IHERRQQLKNARM--KYKASERAMERRLKRSNSKDCTWVNPRSVCSLADMGFESGLATIA 476

Query:   237 LRRNENDSQKALDDLTNPESNSAIQVTNFF 266
             L+R+ ND  +A++ L   ES+     + +F
Sbjct:   477 LQRSNNDILQAVE-LLQTESDELTGASPWF 505

GO:0022008 "neurogenesis" evidence=IMP

ZFIN|ZDB-GENE-060929-724 zgc:153057 "zgc:153057" [Danio rerio (taxid:7955)]

 Score = 291 (107.5 bits), Expect = 6.4e-25, P = 6.4e-25
 Identities = 71/247 (28%), Positives = 122/247 (49%)

Query:     1 MMMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYF 60
             +++ +  H   ++L+K+  +  AL  L   +E F+ C+  +L  VDN  +LQ+DMVWCY 
Sbjct:   236 LILAMGFHEKGRALMKKRDHSAALPYLVHADEQFNKCNSAILHTVDNYAVLQLDMVWCYQ 295

Query:    61 MLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYH 120
              L  +  L +A  RL KA +   R +GK+ SR++ ++     E  L LR+ LL+ V  Y 
Sbjct:   296 ALEQMQCLDDAWERLGKAEQCFNRCYGKERSRLQQIKGHTGGEEVLFLRLHLLQTVLMYV 355

Query:   121 SGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLX 180
              G  + A++ L   + ++ QL +  + L  +   GF EQ+A+  LR C  DV  A   + 
Sbjct:   356 KGHKNTAQDKLRDVEHRYSQLNLDPQKLQQLQDKGFSEQEARLGLRACRGDVSEAEKLIL 415

Query:   181 XXXXXXXXXXXDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRN 240
                           ++ K++++ K       K+   ++ I  LV +GF++     AL + 
Sbjct:   416 ------------QRKKEKQVLKLKEQD----KRRRRLQDINTLVELGFKRRDAQRALHQA 459

Query:   241 ENDSQKA 247
               D  KA
Sbjct:   460 RGDVDKA 466

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0003674 "molecular_function" evidence=ND

UNIPROTKB|F1SSM7 NUB1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 278 (102.9 bits), Expect = 1.4e-23, P = 1.4e-23
 Identities = 74/256 (28%), Positives = 127/256 (49%)

Query:     1 MMMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYF 60
             +M+ +  H   ++ +KR  Y  AL  L   ++ F  C  ++L+ VDN  +LQ+D+VWCYF
Sbjct:   232 LMLAMGYHEKGRAFLKRKEYGIALPFLLDADKYFCKCCTELLDTVDNYAVLQLDIVWCYF 291

Query:    61 MLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYH 120
              L  +  L +A  +L  A+   +  +G++  R+  ++     E  L LR+ LL+G+  YH
Sbjct:   292 RLEQLECLDDAEKKLSLAQTCFKNCYGENHQRLVHIKGNCGKEKVLFLRLYLLQGIRNYH 351

Query:   121 SGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLX 180
             SG+ ++AR+ L  A+  F +L +    +  +M +GF  Q+A+  LR C  +V  A   + 
Sbjct:   352 SGRGEEARDYLNKARQLFKELYIDPSKVHSLMQLGFTAQEARLGLRACDGNVDHAAAHIT 411

Query:   181 XXXXXXXXXXXDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRN 240
                           Q RKE  E+KR  L         E +  L  +G+      +AL + 
Sbjct:   412 NRREELA-------QIRKEEKEKKRRRL---------ENVNCLKGMGYSAHAARQALHQA 455

Query:   241 ENDSQKALDDL-TNPE 255
               + ++AL  L +NP+
Sbjct:   456 AGNLEEALKILISNPQ 471

GO:0034612 "response to tumor necrosis factor" evidence=IEA

GO:0034341 "response to interferon-gamma" evidence=IEA

GO:0032436 "positive regulation of proteasomal ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

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

UNIPROTKB|E1BZ00 NUB1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 274 (101.5 bits), Expect = 5.0e-23, P = 5.0e-23
 Identities = 70/256 (27%), Positives = 128/256 (50%)

Query:     1 MMMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYF 60
             +++ +  H   ++L+K+  Y+ AL  L   ++ F  C  ++L  VDN  +LQ+D+VWCYF
Sbjct:   234 LVLAMGYHEKGRALMKKKEYEIALPYLLDADKHFCECSTELLNTVDNYAVLQLDIVWCYF 293

Query:    61 MLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYH 120
              L  +  L +A  +L  A+   +R +G++  R+  ++     E  L LR+ LL+G+  YH
Sbjct:   294 RLEQLDCLDDAEKKLTTAQRCFQRCYGENHERLIDIKGSYGREKVLFLRLYLLQGIGHYH 353

Query:   121 SGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLX 180
             SG+  +A   +  A   + +L +  E +  +  +GF EQ+A+ ALR C  +V  A + + 
Sbjct:   354 SGREKEAAEYIQKASRLYEELYIDPEKVYRLALLGFSEQEARLALRACHGNVEHAANLIT 413

Query:   181 XXXXXXXXXXXDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRN 240
                        +  + + +I  ++R      K+   +E I  L S+G+ +     AL   
Sbjct:   414 -----------NRREEKAQIRREER-----AKRRQRLEDINTLKSMGYSERAAQVALHYA 457

Query:   241 ENDSQKALDD-LTNPE 255
             + +  +A    L NPE
Sbjct:   458 QGNLDQAFKYILDNPE 473

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

GO:0016567 "protein ubiquitination" evidence=IEA

GO:0032436 "positive regulation of proteasomal ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0034341 "response to interferon-gamma" evidence=IEA

GO:0034612 "response to tumor necrosis factor" evidence=IEA

ZFIN|ZDB-GENE-080212-11 nub1 "negative regulator of ubiquitin-like proteins 1" [Danio rerio (taxid:7955)]

 Score = 272 (100.8 bits), Expect = 7.1e-23, P = 7.1e-23
 Identities = 67/247 (27%), Positives = 119/247 (48%)

Query:     1 MMMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYF 60
             +++ +  H   ++L+K+  +  AL  L    E F  C+  +L  VDN  +LQ+D+VWCY 
Sbjct:   226 LILAMGFHERGRALMKKRDHSAALSYLLRANEQFKKCNSAILHTVDNYAVLQLDVVWCYQ 285

Query:    61 MLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYH 120
              L  +  L +A  RL +A    ++ +G+  SR++ ++     E  L LR+ LL+ V  + 
Sbjct:   286 ALEQMECLDDAQERLEEAERCFQKCYGEKQSRLQQIKGHTGGEEVLFLRLHLLQTVLMFV 345

Query:   121 SGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLX 180
              G  ++A + L   +  + QL +  + L  +   GF EQ+A+  LR C  DV  A + + 
Sbjct:   346 KGNENQALDKLRDVEHLYSQLNLDPQKLQQLQDKGFSEQEARLGLRACRGDVSEAENLIS 405

Query:   181 XXXXXXXXXXXDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRN 240
                           ++ K++++ K       K+   ++ I  LV +GFE+     AL + 
Sbjct:   406 ------------QRKKEKQVLKLKEQD----KRRRRLQDINTLVELGFERRDAQRALHQA 449

Query:   241 ENDSQKA 247
               D  KA
Sbjct:   450 RGDVDKA 456

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0003674 "molecular_function" evidence=ND

UNIPROTKB|Q05B69 NUB1 "Negative regulator of ubiquitin-like proteins 1" [Bos taurus (taxid:9913)]

 Score = 270 (100.1 bits), Expect = 1.3e-22, P = 1.3e-22
 Identities = 72/256 (28%), Positives = 126/256 (49%)

Query:     1 MMMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYF 60
             +M+ +  H   ++ +KR  +  AL  L   +  F  C  ++L+ VDN  +LQ+D+VWCYF
Sbjct:   232 LMLAMGYHEKGRAFLKRKEHGIALPCLLDADRYFCECCTELLDTVDNYAVLQLDIVWCYF 291

Query:    61 MLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYH 120
              L  +  L +A  +L+ A+E   + +G++  R+  ++     E  L LR+ LL+G+  YH
Sbjct:   292 RLGQLECLDDAEKKLKLAQECFRKCYGENHQRLLHIKGNCGKEKVLFLRLYLLQGIRNYH 351

Query:   121 SGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLX 180
             SG  ++A   L  A+  F +L +    +  +M +GF  Q+A+  LR C  +V  A   + 
Sbjct:   352 SGNGEEAYENLNKARQLFKELYIDPSKVHNLMQLGFSAQEARLGLRACDGNVDHAAVHIA 411

Query:   181 XXXXXXXXXXXDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRN 240
                        + +Q +KE  E+K+  L         E I  L  +G+      +AL + 
Sbjct:   412 NRRE-------ELDQIKKEEREKKKRRL---------ENINHLKGMGYSMRAARQALHQA 455

Query:   241 ENDSQKALDDLT-NPE 255
               + ++AL  L  NP+
Sbjct:   456 AGNLEEALKILLHNPQ 471

GO:0034612 "response to tumor necrosis factor" evidence=IEA

GO:0034341 "response to interferon-gamma" evidence=IEA

GO:0032436 "positive regulation of proteasomal ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

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

MGI|MGI:1889001 Nub1 "negative regulator of ubiquitin-like proteins 1" [Mus musculus (taxid:10090)]

 Score = 269 (99.8 bits), Expect = 1.7e-22, P = 1.7e-22
 Identities = 75/257 (29%), Positives = 126/257 (49%)

Query:     1 MMMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYF 60
             +M+ +  H   ++ +KR  Y  AL  L   +  F  C  ++L+ VDN  +LQ+D+VWCYF
Sbjct:   233 LMLAMGYHEKGRAFLKRKEYGIALPCLLDADRYFCECK-ELLDTVDNYAVLQLDIVWCYF 291

Query:    61 MLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYH 120
              L  +  L +A  +L  A++  +  +G++  R+  ++     E  L LR+ LL+G+  YH
Sbjct:   292 RLEQLECLDDAEKKLNLAQKCFKNCYGENHQRLVHIKGNCGKEKVLFLRLYLLQGIQNYH 351

Query:   121 SGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLX 180
             SG  ++AR  L  A+  F +L +    +  ++ +GF  Q+A+  LR C  +V  A   + 
Sbjct:   352 SGNGEEAREYLNKARQLFKELYIDPSKVHNLLQLGFTAQEARLGLRACDGNVDHAATHIS 411

Query:   181 XXXXXXXXXXXDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEAL--- 237
                           Q RKE  E++R  L         E +  L  +G+  +   +AL   
Sbjct:   412 NRREELA-------QIRKEEKEKRRRRL---------ENVNTLRGMGYSTQAAKQALHQA 455

Query:   238 RRNENDSQKALDDLTNP 254
             R N +D+ K L  L+NP
Sbjct:   456 RGNLDDALKVL--LSNP 470

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0005634 "nucleus" evidence=IEA

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

GO:0016567 "protein ubiquitination" evidence=ISO

GO:0032436 "positive regulation of proteasomal ubiquitin-dependent protein catabolic process" evidence=ISO

RGD|1359489 Nub1 "negative regulator of ubiquitin-like proteins 1" [Rattus norvegicus (taxid:10116)]

 Score = 262 (97.3 bits), Expect = 9.8e-22, P = 9.8e-22
 Identities = 72/257 (28%), Positives = 126/257 (49%)

Query:     1 MMMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYF 60
             +M+ +  H   ++ +KR  Y  AL  L   +  F  C  ++L+ VDN  +LQ+D+VWCYF
Sbjct:   232 LMLAMGYHEKGRAFLKRKEYGIALPCLLDADRYFCECK-ELLDTVDNYAVLQLDIVWCYF 290

Query:    61 MLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYH 120
              L  +  L +A  +L  A+      +G++  R+  ++     E  L LR+ LL+G+  YH
Sbjct:   291 RLEQLECLDDAEKKLNLAQTCFTNCYGENHQRLVNIKGNCGKEKVLFLRLYLLQGIRNYH 350

Query:   121 SGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLX 180
             SG  ++AR  L  A+  F +L +    +  ++ +GF  Q+A+  LR C  +V  A   + 
Sbjct:   351 SGNGEEAREYLNKARQLFKELYIDPSKVHNLLQLGFTAQEARLGLRACDGNVDHAATHIS 410

Query:   181 XXXXXXXXXXXDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEAL--- 237
                            RR+E+ + ++      K+   +E +  L  +G+  +   +AL   
Sbjct:   411 --------------NRREELAQIRKEEKEKRKRR--LESVNTLRGMGYSTQAAKQALHQA 454

Query:   238 RRNENDSQKALDDLTNP 254
             R N +D+ K L  L+NP
Sbjct:   455 RGNLDDALKIL--LSNP 469

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

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

GO:0008150 "biological_process" evidence=ND

GO:0016567 "protein ubiquitination" evidence=IEA;ISO

GO:0032436 "positive regulation of proteasomal ubiquitin-dependent protein catabolic process" evidence=IEA;ISO

GO:0034341 "response to interferon-gamma" evidence=IEA;ISO

GO:0034612 "response to tumor necrosis factor" evidence=IEA;ISO

UNIPROTKB|Q9Y5A7 NUB1 "NEDD8 ultimate buster 1" [Homo sapiens (taxid:9606)]

 Score = 260 (96.6 bits), Expect = 1.6e-21, P = 1.6e-21
 Identities = 72/256 (28%), Positives = 122/256 (47%)

Query:     1 MMMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYF 60
             +M+ +  H   ++ +KR  Y  AL  L   ++ F  C  ++L+ VDN  +LQ+D+VWCYF
Sbjct:   233 LMLAMGYHEKGRAFLKRKEYGIALPCLLDADKYFCECCRELLDTVDNYAVLQLDIVWCYF 292

Query:    61 MLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYH 120
              L  +  L +A  +L  A++  +  +G++  R+  ++     E  L LR+ LL+G+  YH
Sbjct:   293 RLEQLECLDDAEKKLNLAQKCFKNCYGENHQRLVHIKGNCGKEKVLFLRLYLLQGIRNYH 352

Query:   121 SGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLX 180
             SG   +A   L  A+  F +L +    +  ++ +GF  Q+A+  LR C  +V  A   + 
Sbjct:   353 SGNDVEAYEYLNKARQLFKELYIDPSKVDNLLQLGFTAQEARLGLRACDGNVDHAATHIT 412

Query:   181 XXXXXXXXXXXDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRN 240
                           Q RKE  E+KR  L         E I+ L  +G+      + L   
Sbjct:   413 NRREELA-------QIRKEEKEKKRRRL---------ENIRFLKGMGYSTHAAQQVLHAA 456

Query:   241 ENDSQKALDDL-TNPE 255
               +  +AL  L +NP+
Sbjct:   457 SGNLDEALKILLSNPQ 472


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.320   0.134   0.376    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      267       255   0.00085  114 3  11 22  0.43    33
                                                     32  0.48    36


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  10
  No. of states in DFA:  599 (64 KB)
  Total size of DFA:  172 KB (2101 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  21.50u 0.10s 21.60t   Elapsed:  00:00:01
  Total cpu time:  21.50u 0.10s 21.60t   Elapsed:  00:00:01
  Start:  Fri May 10 07:35:53 2013   End:  Fri May 10 07:35:54 2013

GO:0005634 "nucleus" evidence=IEA

GO:0034612 "response to tumor necrosis factor" evidence=IEP

GO:0034341 "response to interferon-gamma" evidence=IEP

GO:0016567 "protein ubiquitination" evidence=IMP

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

GO:0032436 "positive regulation of proteasomal ubiquitin-dependent protein catabolic process" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: gw1.XVIII.3460.1 hypothetical protein (523 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	267
cd00194	38	cd00194, UBA, Ubiquitin Associated domain	5e-06
pfam00627	37	pfam00627, UBA, UBA/TS-N domain	3e-05
smart00165	37	smart00165, UBA, Ubiquitin associated domain	1e-04
pfam00627	37	pfam00627, UBA, UBA/TS-N domain	0.002

>gnl|CDD|238116 cd00194, UBA, Ubiquitin Associated domain

 Score = 42.1 bits (100), Expect = 5e-06
 Identities = 13/37 (35%), Positives = 26/37 (70%)

Query: 145 DESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE 181
           +E L  ++ MGF  ++A++ALR  + +V  A+++L+E
Sbjct: 2   EEKLEQLLEMGFSREEARKALRATNNNVERAVEWLLE 38

The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins. Length = 38

>gnl|CDD|201355 pfam00627, UBA, UBA/TS-N domain

 Score = 40.1 bits (95), Expect = 3e-05
 Identities = 12/37 (32%), Positives = 24/37 (64%)

Query: 143 VPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFL 179
           + +E +  +  MGF  ++AK+ALR  + +V  A+++L
Sbjct: 1   IDEELIKQLREMGFSREEAKKALRATNGNVERAVEYL 37

This small domain is composed of three alpha helices. This family includes the previously defined UBA and TS-N domains. The UBA-domain (ubiquitin associated domain) is a novel sequence motif found in several proteins having connections to ubiquitin and the ubiquitination pathway. The structure of the UBA domain consists of a compact three helix bundle. This domain is found at the N terminus of EF-TS hence the name TS-N. The structure of EF-TS is known and this domain is implicated in its interaction with EF-TU. The domain has been found in non EF-TS proteins such as alpha-NAC and MJ0280. Length = 37

>gnl|CDD|197551 smart00165, UBA, Ubiquitin associated domain

 Score = 38.2 bits (90), Expect = 1e-04
 Identities = 11/36 (30%), Positives = 22/36 (61%)

Query: 144 PDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFL 179
            +E +  ++ MGF  ++A +ALR  + +V  A ++L
Sbjct: 1   DEEKIDQLLEMGFSREEALKALRAANGNVERAAEYL 36

Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin. Length = 37

>gnl|CDD|201355 pfam00627, UBA, UBA/TS-N domain

 Score = 34.7 bits (81), Expect = 0.002
 Identities = 13/37 (35%), Positives = 23/37 (62%)

Query: 215 VDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDL 251
           +D E IK+L  +GF +E   +ALR    + ++A++ L
Sbjct: 1   IDEELIKQLREMGFSREEAKKALRATNGNVERAVEYL 37

This small domain is composed of three alpha helices. This family includes the previously defined UBA and TS-N domains. The UBA-domain (ubiquitin associated domain) is a novel sequence motif found in several proteins having connections to ubiquitin and the ubiquitination pathway. The structure of the UBA domain consists of a compact three helix bundle. This domain is found at the N terminus of EF-TS hence the name TS-N. The structure of EF-TS is known and this domain is implicated in its interaction with EF-TU. The domain has been found in non EF-TS proteins such as alpha-NAC and MJ0280. Length = 37

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	267
KOG2561	568	consensus Adaptor protein NUB1, contains UBA domai	100.0
KOG0944	763	consensus Ubiquitin-specific protease UBP14 [Postt	99.79
KOG2561	568	consensus Adaptor protein NUB1, contains UBA domai	99.63
COG5207	749	UBP14 Isopeptidase T [Posttranslational modificati	99.56
PF00627	37	UBA: UBA/TS-N domain; InterPro: IPR000449 UBA doma	99.23
PF00627	37	UBA: UBA/TS-N domain; InterPro: IPR000449 UBA doma	99.11
cd00194	38	UBA Ubiquitin Associated domain. The UBA domain is	99.09
smart00165	37	UBA Ubiquitin associated domain. Present in Rad23,	99.08
KOG0944	763	consensus Ubiquitin-specific protease UBP14 [Postt	99.04
cd00194	38	UBA Ubiquitin Associated domain. The UBA domain is	98.86
smart00165	37	UBA Ubiquitin associated domain. Present in Rad23,	98.85
TIGR00601	378	rad23 UV excision repair protein Rad23. All protei	98.65
COG5207	749	UBP14 Isopeptidase T [Posttranslational modificati	98.28
KOG0011	340	consensus Nucleotide excision repair factor NEF2,	97.96
TIGR00601	378	rad23 UV excision repair protein Rad23. All protei	97.6
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.45
KOG0011	340	consensus Nucleotide excision repair factor NEF2,	96.4
PF02845	42	CUE: CUE domain; InterPro: IPR003892 This domain m	96.05
PF02845	42	CUE: CUE domain; InterPro: IPR003892 This domain m	95.95
PF14555	43	UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A	95.71
smart00546	43	CUE Domain that may be involved in binding ubiquit	95.66
PF14555	43	UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A	95.65
PF09288	55	UBA_3: Fungal ubiquitin-associated domain ; InterP	95.44
smart00546	43	CUE Domain that may be involved in binding ubiquit	95.28
PRK09377	290	tsf elongation factor Ts; Provisional	94.59
TIGR02552	135	LcrH_SycD type III secretion low calcium response	94.48
TIGR00116	290	tsf translation elongation factor Ts. This protein	94.46
PRK06369	115	nac nascent polypeptide-associated complex protein	94.34
PRK12332	198	tsf elongation factor Ts; Reviewed	94.31
KOG2689	290	consensus Predicted ubiquitin regulatory protein [	94.1
KOG0418	200	consensus Ubiquitin-protein ligase [Posttranslatio	93.99
TIGR00264	116	alpha-NAC-related protein. This hypothetical prote	93.75
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	93.61
CHL00098	200	tsf elongation factor Ts	93.34
KOG0418	200	consensus Ubiquitin-protein ligase [Posttranslatio	93.24
PRK06369	115	nac nascent polypeptide-associated complex protein	93.13
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	92.14
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	92.01
TIGR00264	116	alpha-NAC-related protein. This hypothetical prote	91.87
KOG0010	493	consensus Ubiquitin-like protein [Posttranslationa	90.03
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	90.0
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	89.88
PF09288	55	UBA_3: Fungal ubiquitin-associated domain ; InterP	89.8
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	89.77
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	89.43
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	89.35
PF07499	47	RuvA_C: RuvA, C-terminal domain; InterPro: IPR0111	88.73
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	88.25
KOG0010	493	consensus Ubiquitin-like protein [Posttranslationa	87.94
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	87.76
COG1308	122	EGD2 Transcription factor homologous to NACalpha-B	87.46
KOG3450	119	consensus Huntingtin interacting protein HYPK [Gen	86.82
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	86.63
PF07499	47	RuvA_C: RuvA, C-terminal domain; InterPro: IPR0111	86.38
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	86.1
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	85.97
PF11626	87	Rap1_C: TRF2-interacting telomeric protein/Rap1 -	85.6
COG0264	296	Tsf Translation elongation factor Ts [Translation,	85.36
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	83.73
COG1308	122	EGD2 Transcription factor homologous to NACalpha-B	83.34
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	82.12
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	81.99
PRK12370	553	invasion protein regulator; Provisional	81.98
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	81.12
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	80.46

>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=100.00  E-value=3.3e-88  Score=642.51  Aligned_cols=256  Identities=53%  Similarity=0.869  Sum_probs=248.5

Q ss_pred             CchhhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 024447            1 MMMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKARE   80 (267)
Q Consensus         1 l~~~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~   80 (267)
                      ||||||||||||++|+|++|++||++|++|||+||+|+||||++|||||+||||||||||+||||+|||||+.||.+|++
T Consensus       160 lmmglg~hekaRa~m~re~y~eAl~~LleADe~F~~Cd~klLe~VDNyallnLDIVWCYfrLknitcL~DAe~RL~ra~k  239 (568)
T KOG2561|consen  160 LMMGLGLHEKARAAMEREMYSEALLVLLEADESFSLCDSKLLELVDNYALLNLDIVWCYFRLKNITCLPDAEVRLVRARK  239 (568)
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhhHHHHHhhcchhhhhcchhheehhhcccccCChHHHHHHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhCCCCHHH
Q 024447           81 GIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQD  160 (267)
Q Consensus        81 ~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MGF~~~~  160 (267)
                      +|.+|||+|++||++|||+++||++||||||||||||+||+|++++|.+.|+.|.+.+.+++++++.++.+++|||.++.
T Consensus       240 gf~~syGenl~Rl~~lKg~~spEraL~lRL~LLQGV~~yHqg~~deAye~le~a~~~l~elki~d~~lsllv~mGfeesd  319 (568)
T KOG2561|consen  240 GFERSYGENLSRLRSLKGGQSPERALILRLELLQGVVAYHQGQRDEAYEALESAHAKLLELKINDETLSLLVGMGFEESD  319 (568)
T ss_pred             hhhhhhhhhhHhhhhccCCCChhHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHeeccchHHHHHHHcCCCchH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHhhcCCCCCCCcCCHHHHHHHHhCCCCHHHHHHHHHHc
Q 024447          161 AKRALRICSQDVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRN  240 (267)
Q Consensus       161 Ar~ALr~~~gdve~A~~wL~~~~~d~~~~~~~~~e~~~~~~~~~~~~~~~~~~~vd~e~v~~L~~MGF~~~~A~~ALr~t  240 (267)
                      ||+|||.|+|||+.|++||.++++...++|+++..+.+++.++++++.|++++||+|++|+.|++|||+++.|.+||+++
T Consensus       320 aRlaLRsc~g~Vd~AvqfI~erre~laq~R~k~~a~Ere~~~r~k~~n~~~~~wvn~rs~~rL~~mGyer~la~eaL~r~  399 (568)
T KOG2561|consen  320 ARLALRSCNGDVDSAVQFIIERREKLAQKREKDLAREREILERKKYGNTPMKKWVNPRSLERLVSMGYERELAAEALRRN  399 (568)
T ss_pred             HHHHHHhccccHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCcccccCHHHHHHHHhcchHhHHHHHHHHhc
Confidence            99999999999999999999999999998877776666666788999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHhccCCCc
Q 024447          241 ENDSQKALDDLTNPES  256 (267)
Q Consensus       241 ~ndve~AldlL~~pd~  256 (267)
                      +||+++|+++|++|.+
T Consensus       400 ~Ndi~~aldllq~esd  415 (568)
T KOG2561|consen  400 ENDIQKALDLLQDESD  415 (568)
T ss_pred             cCcHHHHHHhcCCcch
Confidence            9999999999987644

>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]

Probab=99.79  E-value=1.1e-19  Score=180.83  Aligned_cols=110  Identities=21%  Similarity=0.325  Sum_probs=90.4

Q ss_pred             hhccCCCChhhHhhHHhCCCCHHHHHHHHHHhCC-CHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHhhcCCCCCCCcC
Q 024447          137 KFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQ-DVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAV  215 (267)
Q Consensus       137 ~~~~l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~g-dve~A~~wL~~~~~d~~~~~~~~~e~~~~~~~~~~~~~~~~~~~v  215 (267)
                      +..++..|+..|.+|++|||+++.|+|||..|+| +.|.|++||++||+|++.+.+      ..   .......++...|
T Consensus       564 ~~~~~~~d~s~i~qL~~MGFp~eac~rAly~tgN~~aEaA~NWl~~HMdDpd~~~p------~v---vp~~~~~a~~~~~  634 (763)
T KOG0944|consen  564 ETSEFAADRSVISQLVEMGFPEEACRRALYYTGNSGAEAASNWLMEHMDDPDIDDP------FV---VPGNSPKADAREV  634 (763)
T ss_pred             ccCccchhHHHHHHHHHcCCCHHHHHHHHhhhcCccHHHHHHHHHHhccCcccCCc------ee---cCCCCCccccCCC
Confidence            3344567899999999999999999999999965 799999999999999986531      11   1111122223369


Q ss_pred             CHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHH-hccCCC
Q 024447          216 DIEKIKELVSIGFEKELVAEALRRNENDSQKALD-DLTNPE  255 (267)
Q Consensus       216 d~e~v~~L~~MGF~~~~A~~ALr~t~ndve~Ald-lL~~pd  255 (267)
                      +++.|.++++|||++.+|++||+.++|||++|+| +|+|||
T Consensus       635 ~e~~v~si~smGf~~~qa~~aL~~~n~nveravDWif~h~d  675 (763)
T KOG0944|consen  635 DEESVASIVSMGFSRNQAIKALKATNNNVERAVDWIFSHMD  675 (763)
T ss_pred             ChhHheeeeeecCcHHHHHHHHHhcCccHHHHHHHHHhccc
Confidence            9999999999999999999999999999999999 577988

>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=99.63  E-value=1.3e-15  Score=146.62  Aligned_cols=159  Identities=27%  Similarity=0.308  Sum_probs=133.3

Q ss_pred             CHHHHHHHHHHHHHHHHHHhCCCHHHHHHHH--cCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccC---
Q 024447           67 WLSEAGIRLRKAREGIERAHGKDSSRVRLLQ--AGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQL---  141 (267)
Q Consensus        67 ~l~dA~~rL~~ae~~f~r~yG~~~~rl~~lk--g~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l---  141 (267)
                      +=..|-+.|..|-..|...- ++.+.+..+.  |+-..++++.||        + |.|+++.|..++...++++++.   
T Consensus       282 ~~deAye~le~a~~~l~elk-i~d~~lsllv~mGfeesdaRlaLR--------s-c~g~Vd~AvqfI~erre~laq~R~k  351 (568)
T KOG2561|consen  282 QRDEAYEALESAHAKLLELK-INDETLSLLVGMGFEESDARLALR--------S-CNGDVDSAVQFIIERREKLAQKREK  351 (568)
T ss_pred             CcHHHHHHHHHHHHHHHHee-ccchHHHHHHHcCCCchHHHHHHH--------h-ccccHHHHHHHHHHHHHHHHHHHHh
Confidence            34688999999999988766 9999999998  899999999999        6 9999999999886654443322   


Q ss_pred             ---------------------CCChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhhhhhhhhhhhhHHHHHHH
Q 024447          142 ---------------------QVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAKRVKEREDNEQRRKEI  200 (267)
Q Consensus       142 ---------------------~vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~~d~~~~~~~~~e~~~~~  200 (267)
                                           +||+..|..|++|||+...|..||+.++||+..|++.+..+.++...+++         
T Consensus       352 ~~a~Ere~~~r~k~~n~~~~~wvn~rs~~rL~~mGyer~la~eaL~r~~Ndi~~aldllq~esdel~~n~~---------  422 (568)
T KOG2561|consen  352 DLAREREILERKKYGNTPMKKWVNPRSLERLVSMGYERELAAEALRRNENDIQKALDLLQDESDELESNKP---------  422 (568)
T ss_pred             hHHHHHHHHHHHHhcCCCcccccCHHHHHHHHhcchHhHHHHHHHHhccCcHHHHHHhcCCcchhhhccCC---------
Confidence                                 56899999999999999999999999999999999988777665432211         


Q ss_pred             HHHhhcCCCCCCCcCCHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhccC
Q 024447          201 MEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDLTN  253 (267)
Q Consensus       201 ~~~~~~~~~~~~~~vd~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL~~  253 (267)
                               +....||..+|.+|++|||++-.|+.||+.++||++.|.++|++
T Consensus       423 ---------~~p~~vd~~~la~Lv~mGF~e~~A~~ALe~~gnn~~~a~~~L~~  466 (568)
T KOG2561|consen  423 ---------KRPEQVDGISLAELVSMGFEEGKARSALEAGGNNEDTAQRLLSA  466 (568)
T ss_pred             ---------CCCcccchhhHHHHHHhccccchHHHHHHhcCCcHHHHHHHHHH
Confidence                     11134788999999999999999999999999999999997764

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

Probab=99.56  E-value=4.2e-15  Score=145.13  Aligned_cols=103  Identities=25%  Similarity=0.308  Sum_probs=86.1

Q ss_pred             CCCChhhHhhHHhCCCCHHHHHHHHHHhCC-CHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHhhcCCCCCCCcCCHHH
Q 024447          141 LQVPDESLSLVMSMGFKEQDAKRALRICSQ-DVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEK  219 (267)
Q Consensus       141 l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~g-dve~A~~wL~~~~~d~~~~~~~~~e~~~~~~~~~~~~~~~~~~~vd~e~  219 (267)
                      +..|...|.+|++||||..+|.|||-.|+| |.|.||+|||+||+||+.+.+      ..   +++. -....+.||..+
T Consensus       555 ~t~Nqs~I~qL~~mGfp~~~~~rAL~~tgNqDaEsAMNWLFqHMdDPdlndP------~~---~~~~-vPKkDkeVdE~~  624 (749)
T COG5207         555 FTDNQSLIRQLVDMGFPEEDAARALGITGNQDAESAMNWLFQHMDDPDLNDP------FV---PPPN-VPKKDKEVDESK  624 (749)
T ss_pred             cCchHHHHHHHHHcCCCHHHHHHHHhhccCcchHHHHHHHHhhccCcccCCC------CC---CCCC-CCcccccccHHH
Confidence            556788999999999999999999999987 899999999999999986532      11   1111 112234799999


Q ss_pred             HHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhccC
Q 024447          220 IKELVSIGFEKELVAEALRRNENDSQKALDDLTN  253 (267)
Q Consensus       220 v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL~~  253 (267)
                      +..|.+|||...+|++||-.++||++++++|..|
T Consensus       625 ~~Slle~Gln~n~~Rkal~~~n~d~~r~V~w~~N  658 (749)
T COG5207         625 ARSLLENGLNPNLCRKALMDMNTDSKRRVVWCIN  658 (749)
T ss_pred             HHHHHHcCCCHHHHHHHHHHccCCchheEEEEEe
Confidence            9999999999999999999999999999997554

>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []

Probab=99.23  E-value=8.7e-12  Score=81.81  Aligned_cols=37  Identities=38%  Similarity=0.776  Sum_probs=34.5

Q ss_pred             CChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHH
Q 024447          143 VPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFL  179 (267)
Q Consensus       143 vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL  179 (267)
                      +|++.|.+|++|||++..|++||++|+||++.|++||
T Consensus         1 i~~~~v~~L~~mGf~~~~~~~AL~~~~~nve~A~~~L   37 (37)
T PF00627_consen    1 IDEEKVQQLMEMGFSREQAREALRACNGNVERAVDWL   37 (37)
T ss_dssp             SHHHHHHHHHHHTS-HHHHHHHHHHTTTSHHHHHHHH
T ss_pred             CCHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHhC
Confidence            4788999999999999999999999999999999997

The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....

>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []

Probab=99.11  E-value=8e-11  Score=77.21  Aligned_cols=37  Identities=38%  Similarity=0.644  Sum_probs=33.6

Q ss_pred             CCHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhc
Q 024447          215 VDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDL  251 (267)
Q Consensus       215 vd~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL  251 (267)
                      ++++.|.+|++|||+++.|++||+.++||+++|+++|
T Consensus         1 i~~~~v~~L~~mGf~~~~~~~AL~~~~~nve~A~~~L   37 (37)
T PF00627_consen    1 IDEEKVQQLMEMGFSREQAREALRACNGNVERAVDWL   37 (37)
T ss_dssp             SHHHHHHHHHHHTS-HHHHHHHHHHTTTSHHHHHHHH
T ss_pred             CCHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHhC
Confidence            3568899999999999999999999999999999986

The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....

>cd00194 UBA Ubiquitin Associated domain

Probab=99.09  E-value=1.6e-10  Score=75.64  Aligned_cols=38  Identities=34%  Similarity=0.710  Sum_probs=35.6

Q ss_pred             ChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHh
Q 024447          144 PDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE  181 (267)
Q Consensus       144 d~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~  181 (267)
                      +++.|++|++|||+++.|+.||+.|+||++.|++||++
T Consensus         1 ~~~~v~~L~~mGf~~~~~~~AL~~~~~d~~~A~~~L~~   38 (38)
T cd00194           1 DEEKLEQLLEMGFSREEARKALRATNNNVERAVEWLLE   38 (38)
T ss_pred             CHHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHhC
Confidence            36789999999999999999999999999999999974

The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.

>smart00165 UBA Ubiquitin associated domain

Probab=99.08  E-value=1.6e-10  Score=75.25  Aligned_cols=37  Identities=30%  Similarity=0.618  Sum_probs=34.9

Q ss_pred             ChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHH
Q 024447          144 PDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLV  180 (267)
Q Consensus       144 d~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~  180 (267)
                      ++++|++|++|||+++.|+.||+.|+||+++|++||+
T Consensus         1 ~~~~v~~L~~mGf~~~~a~~aL~~~~~d~~~A~~~L~   37 (37)
T smart00165        1 DEEKIDQLLEMGFSREEALKALRAANGNVERAAEYLL   37 (37)
T ss_pred             CHHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHC
Confidence            4678999999999999999999999999999999985

Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.

>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]

Probab=99.04  E-value=1.5e-10  Score=116.34  Aligned_cols=83  Identities=22%  Similarity=0.254  Sum_probs=69.5

Q ss_pred             HHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhH-hhHhhhccCCCChhhHhhHHhCCCCHHHHHHHHHHhCCCHHH
Q 024447           96 LQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALT-SAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGS  174 (267)
Q Consensus        96 lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~-~a~~~~~~l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~  174 (267)
                      ..|+++.|.|+        .|+.-|+.|.|.+.+... .---....-.++++.|.++++|||++.+|+.||+++||||++
T Consensus       594 ~tgN~~aEaA~--------NWl~~HMdDpd~~~p~vvp~~~~~a~~~~~~e~~v~si~smGf~~~qa~~aL~~~n~nver  665 (763)
T KOG0944|consen  594 YTGNSGAEAAS--------NWLMEHMDDPDIDDPFVVPGNSPKADAREVDEESVASIVSMGFSRNQAIKALKATNNNVER  665 (763)
T ss_pred             hhcCccHHHHH--------HHHHHhccCcccCCceecCCCCCccccCCCChhHheeeeeecCcHHHHHHHHHhcCccHHH
Confidence            56999999999        999999999999887532 110011111679999999999999999999999999999999


Q ss_pred             HHHHHHhhhhhh
Q 024447          175 AIDFLVEEKAKR  186 (267)
Q Consensus       175 A~~wL~~~~~d~  186 (267)
                      |++|||+|++++
T Consensus       666 avDWif~h~d~~  677 (763)
T KOG0944|consen  666 AVDWIFSHMDIP  677 (763)
T ss_pred             HHHHHHhccccc
Confidence            999999999944

>cd00194 UBA Ubiquitin Associated domain

Probab=98.86  E-value=4.5e-09  Score=68.69  Aligned_cols=36  Identities=33%  Similarity=0.575  Sum_probs=33.6

Q ss_pred             HHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhcc
Q 024447          217 IEKIKELVSIGFEKELVAEALRRNENDSQKALDDLT  252 (267)
Q Consensus       217 ~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL~  252 (267)
                      ++.|++|++|||+++.|+.||+.++||+++|+++|.
T Consensus         2 ~~~v~~L~~mGf~~~~~~~AL~~~~~d~~~A~~~L~   37 (38)
T cd00194           2 EEKLEQLLEMGFSREEARKALRATNNNVERAVEWLL   37 (38)
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHh
Confidence            467999999999999999999999999999999764

The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.

>smart00165 UBA Ubiquitin associated domain

Probab=98.85  E-value=5.4e-09  Score=68.01  Aligned_cols=35  Identities=34%  Similarity=0.557  Sum_probs=33.1

Q ss_pred             HHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhc
Q 024447          217 IEKIKELVSIGFEKELVAEALRRNENDSQKALDDL  251 (267)
Q Consensus       217 ~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL  251 (267)
                      ++.|++|++|||+++.|+.||+.++||+++|+++|
T Consensus         2 ~~~v~~L~~mGf~~~~a~~aL~~~~~d~~~A~~~L   36 (37)
T smart00165        2 EEKIDQLLEMGFSREEALKALRAANGNVERAAEYL   36 (37)
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHH
Confidence            46799999999999999999999999999999976

Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.

>TIGR00601 rad23 UV excision repair protein Rad23

Probab=98.65  E-value=2.2e-07  Score=89.70  Aligned_cols=39  Identities=23%  Similarity=0.556  Sum_probs=36.7

Q ss_pred             hhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447          145 DESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEK  183 (267)
Q Consensus       145 ~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~  183 (267)
                      ++.|+.||+|||+++++++|||++-||.|+||+||++..
T Consensus       157 e~~I~~i~eMGf~R~qV~~ALRAafNNPdRAVEYL~tGI  195 (378)
T TIGR00601       157 ETTIEEIMEMGYEREEVERALRAAFNNPDRAVEYLLTGI  195 (378)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHhCCHHHHHHHHHhCC
Confidence            579999999999999999999999999999999998763

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).

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

Probab=98.28  E-value=1.9e-07  Score=92.22  Aligned_cols=86  Identities=12%  Similarity=0.110  Sum_probs=69.7

Q ss_pred             HHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhCCCCHHHHHHHHHHhCCC
Q 024447           92 RVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQD  171 (267)
Q Consensus        92 rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~gd  171 (267)
                      |-.-+.|++..|-||        +|++-|+.|+|-..+..+...--...-.||+.++..|.+|||+++.||+||-..+||
T Consensus       577 rAL~~tgNqDaEsAM--------NWLFqHMdDPdlndP~~~~~~vPKkDkeVdE~~~~Slle~Gln~n~~Rkal~~~n~d  648 (749)
T COG5207         577 RALGITGNQDAESAM--------NWLFQHMDDPDLNDPFVPPPNVPKKDKEVDESKARSLLENGLNPNLCRKALMDMNTD  648 (749)
T ss_pred             HHHhhccCcchHHHH--------HHHHhhccCcccCCCCCCCCCCCcccccccHHHHHHHHHcCCCHHHHHHHHHHccCC
Confidence            344456999999999        999999999988777543211111112689999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhh
Q 024447          172 VGSAIDFLVEEKAK  185 (267)
Q Consensus       172 ve~A~~wL~~~~~d  185 (267)
                      ++++|.|+++|++.
T Consensus       649 ~~r~V~w~~N~~D~  662 (749)
T COG5207         649 SKRRVVWCINDDDG  662 (749)
T ss_pred             chheEEEEEeCCCC
Confidence            99999999997654

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

Probab=97.96  E-value=3.8e-05  Score=72.51  Aligned_cols=41  Identities=22%  Similarity=0.500  Sum_probs=37.6

Q ss_pred             CChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447          143 VPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEK  183 (267)
Q Consensus       143 vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~  183 (267)
                      ..+..|.++|+|||.+++..+|||+.=||.|+||+||.+..
T Consensus       134 ~~e~~V~~Im~MGy~re~V~~AlRAafNNPeRAVEYLl~GI  174 (340)
T KOG0011|consen  134 EYEQTVQQIMEMGYDREEVERALRAAFNNPERAVEYLLNGI  174 (340)
T ss_pred             hhHHHHHHHHHhCccHHHHHHHHHHhhCChhhhHHHHhcCC
Confidence            46688999999999999999999999999999999998754

>TIGR00601 rad23 UV excision repair protein Rad23

Probab=97.60  E-value=5.8e-05  Score=73.06  Aligned_cols=37  Identities=32%  Similarity=0.529  Sum_probs=34.3

Q ss_pred             CHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhcc
Q 024447          216 DIEKIKELVSIGFEKELVAEALRRNENDSQKALDDLT  252 (267)
Q Consensus       216 d~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL~  252 (267)
                      ....|++|++|||+|+++.+|||.+-||-+||+++|.
T Consensus       156 ~e~~I~~i~eMGf~R~qV~~ALRAafNNPdRAVEYL~  192 (378)
T TIGR00601       156 RETTIEEIMEMGYEREEVERALRAAFNNPDRAVEYLL  192 (378)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHhCCHHHHHHHHH
Confidence            3678999999999999999999999999999999655

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).

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.45  E-value=0.023  Score=41.36  Aligned_cols=75  Identities=17%  Similarity=0.117  Sum_probs=62.2

Q ss_pred             hhhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 024447            3 MGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGI   82 (267)
Q Consensus         3 ~~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f   82 (267)
                      ++..+...|....+.++|++|+.++-.|-+.+..-+++-.    .+|..-..|.|||..+++   .++|...+++|-+.+
T Consensus         4 ~a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~----~~a~~~~~lg~~~~~~g~---~~~A~~~~~~al~i~   76 (78)
T PF13424_consen    4 TANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHP----DTANTLNNLGECYYRLGD---YEEALEYYQKALDIF   76 (78)
T ss_dssp             HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHH----HHHHHHHHHHHHHHHTTH---HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCH----HHHHHHHHHHHHHHHcCC---HHHHHHHHHHHHhhh
Confidence            5778899999999999999999999999988877776432    246777889999999887   789999999998887


Q ss_pred             HH
Q 024447           83 ER   84 (267)
Q Consensus        83 ~r   84 (267)
                      ++
T Consensus        77 ~k   78 (78)
T PF13424_consen   77 EK   78 (78)
T ss_dssp             HH
T ss_pred             cC
Confidence            64

...

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

Probab=96.40  E-value=0.0034  Score=59.56  Aligned_cols=42  Identities=26%  Similarity=0.495  Sum_probs=36.7

Q ss_pred             CCHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhcc--CCCc
Q 024447          215 VDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDLT--NPES  256 (267)
Q Consensus       215 vd~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL~--~pd~  256 (267)
                      ...+.|.++++|||+++.+..|||..=||-+||+++|-  .|++
T Consensus       134 ~~e~~V~~Im~MGy~re~V~~AlRAafNNPeRAVEYLl~GIP~~  177 (340)
T KOG0011|consen  134 EYEQTVQQIMEMGYDREEVERALRAAFNNPERAVEYLLNGIPED  177 (340)
T ss_pred             hhHHHHHHHHHhCccHHHHHHHHHHhhCChhhhHHHHhcCCccc
Confidence            35578999999999999999999999999999999554  4664

>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs)

Probab=96.05  E-value=0.018  Score=38.46  Aligned_cols=38  Identities=26%  Similarity=0.350  Sum_probs=33.5

Q ss_pred             hhhHhhHHhC--CCCHHHHHHHHHHhCCCHHHHHHHHHhh
Q 024447          145 DESLSLVMSM--GFKEQDAKRALRICSQDVGSAIDFLVEE  182 (267)
Q Consensus       145 ~~~l~~L~~M--GF~~~~Ar~ALr~~~gdve~A~~wL~~~  182 (267)
                      ++.|.+|.+|  .+++...+.+|.+++||++.|++.|++.
T Consensus         2 ~~~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~LL~~   41 (42)
T PF02845_consen    2 EEMVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDALLEM   41 (42)
T ss_dssp             HHHHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence            4678899999  7999999999999999999999999874

CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.

>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs)

Probab=95.95  E-value=0.015  Score=38.83  Aligned_cols=34  Identities=26%  Similarity=0.537  Sum_probs=30.0

Q ss_pred             HHHHHHHhC--CCCHHHHHHHHHHcCCCHHHHHH-hc
Q 024447          218 EKIKELVSI--GFEKELVAEALRRNENDSQKALD-DL  251 (267)
Q Consensus       218 e~v~~L~~M--GF~~~~A~~ALr~t~ndve~Ald-lL  251 (267)
                      +.|.+|.+|  .++++..+.+|+.++||++.|++ +|
T Consensus         3 ~~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~LL   39 (42)
T PF02845_consen    3 EMVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDALL   39 (42)
T ss_dssp             HHHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHHH
T ss_pred             HHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            568899999  89999999999999999999999 44

CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.

>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A

Probab=95.71  E-value=0.021  Score=38.36  Aligned_cols=37  Identities=27%  Similarity=0.437  Sum_probs=27.7

Q ss_pred             HHHHHHhC-CCCHHHHHHHHHHcCCCHHHHHH-hccCCC
Q 024447          219 KIKELVSI-GFEKELVAEALRRNENDSQKALD-DLTNPE  255 (267)
Q Consensus       219 ~v~~L~~M-GF~~~~A~~ALr~t~ndve~Ald-lL~~pd  255 (267)
                      +|.+.++. |.+++.|+.-|+.+++|++.|++ .+.+++
T Consensus         3 ~i~~F~~iTg~~~~~A~~~L~~~~wdle~Av~~y~~~~~   41 (43)
T PF14555_consen    3 KIAQFMSITGADEDVAIQYLEANNWDLEAAVNAYFDDGE   41 (43)
T ss_dssp             HHHHHHHHH-SSHHHHHHHHHHTTT-HHHHHHHHHHSS-
T ss_pred             HHHHHHHHHCcCHHHHHHHHHHcCCCHHHHHHHHHhCCC
Confidence            45555544 88999999999999999999999 566654

>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs)

Probab=95.66  E-value=0.032  Score=37.30  Aligned_cols=36  Identities=17%  Similarity=0.392  Sum_probs=31.1

Q ss_pred             HHHHHHHHhC--CCCHHHHHHHHHHcCCCHHHHHH-hcc
Q 024447          217 IEKIKELVSI--GFEKELVAEALRRNENDSQKALD-DLT  252 (267)
Q Consensus       217 ~e~v~~L~~M--GF~~~~A~~ALr~t~ndve~Ald-lL~  252 (267)
                      .+.+.+|.+|  .+++..++..|+.++||++.|++ +|.
T Consensus         3 ~~~v~~L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~LL~   41 (43)
T smart00546        3 DEALHDLKDMFPNLDEEVIKAVLEANNGNVEATINNLLE   41 (43)
T ss_pred             HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHc
Confidence            4668899999  67788999999999999999999 544

CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)

>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A

Probab=95.65  E-value=0.022  Score=38.31  Aligned_cols=40  Identities=23%  Similarity=0.287  Sum_probs=30.3

Q ss_pred             hhHhhHHh-CCCCHHHHHHHHHHhCCCHHHHHHHHHhhhhh
Q 024447          146 ESLSLVMS-MGFKEQDAKRALRICSQDVGSAIDFLVEEKAK  185 (267)
Q Consensus       146 ~~l~~L~~-MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~~d  185 (267)
                      ++|.+.++ .|.++..|+.-|..+++|++.|++-.++..+.
T Consensus         2 e~i~~F~~iTg~~~~~A~~~L~~~~wdle~Av~~y~~~~~~   42 (43)
T PF14555_consen    2 EKIAQFMSITGADEDVAIQYLEANNWDLEAAVNAYFDDGEA   42 (43)
T ss_dssp             HHHHHHHHHH-SSHHHHHHHHHHTTT-HHHHHHHHHHSS-S
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHcCCCHHHHHHHHHhCCCC
Confidence            45555554 38899999999999999999999988887644

>PF09288 UBA_3: Fungal ubiquitin-associated domain ; InterPro: IPR015368 This C-terminal domain is found in ubiquitin binding proteins, it adopts a structure consisting of a three alpha-helix bundle

Probab=95.44  E-value=0.016  Score=41.60  Aligned_cols=27  Identities=33%  Similarity=0.647  Sum_probs=21.8

Q ss_pred             CCHHHHHHHHhCCCCHHHHHHHHHHcC
Q 024447          215 VDIEKIKELVSIGFEKELVAEALRRNE  241 (267)
Q Consensus       215 vd~e~v~~L~~MGF~~~~A~~ALr~t~  241 (267)
                      .|++.|+++++|||+++.+.+|||+-+
T Consensus         8 i~~~lVd~F~~mGF~~dkVvevlrrlg   34 (55)
T PF09288_consen    8 IDKDLVDQFENMGFERDKVVEVLRRLG   34 (55)
T ss_dssp             -SHHHHHHHHHHT--HHHHHHHHHHS-
T ss_pred             CCHHHHHHHHHcCCcHHHHHHHHHHhC
Confidence            688999999999999999999999753

This domain is predominantly found in fungi []. ; PDB: 1TTE_A.

>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs)

Probab=95.28  E-value=0.045  Score=36.56  Aligned_cols=39  Identities=28%  Similarity=0.348  Sum_probs=33.5

Q ss_pred             ChhhHhhHHhC--CCCHHHHHHHHHHhCCCHHHHHHHHHhh
Q 024447          144 PDESLSLVMSM--GFKEQDAKRALRICSQDVGSAIDFLVEE  182 (267)
Q Consensus       144 d~~~l~~L~~M--GF~~~~Ar~ALr~~~gdve~A~~wL~~~  182 (267)
                      .++.+.+|.+|  .++...++..|+.++||++.|++-|++.
T Consensus         2 ~~~~v~~L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~LL~~   42 (43)
T smart00546        2 NDEALHDLKDMFPNLDEEVIKAVLEANNGNVEATINNLLEG   42 (43)
T ss_pred             hHHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence            45678899999  5668999999999999999999988753

CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)

>PRK09377 tsf elongation factor Ts; Provisional

Probab=94.59  E-value=0.057  Score=50.74  Aligned_cols=41  Identities=22%  Similarity=0.298  Sum_probs=35.9

Q ss_pred             CChhhHhhHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447          143 VPDESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEEK  183 (267)
Q Consensus       143 vd~~~l~~L~~M-GF~~~~Ar~ALr~~~gdve~A~~wL~~~~  183 (267)
                      +....|..|-++ |.+.-+|++||..++||++.|++||..+.
T Consensus         4 is~~~IK~LR~~Tgagm~dCKkAL~e~~gD~ekAi~~Lrk~G   45 (290)
T PRK09377          4 ITAALVKELRERTGAGMMDCKKALTEADGDIEKAIEWLRKKG   45 (290)
T ss_pred             cCHHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHhc
Confidence            566778888776 89999999999999999999999997654

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=94.48  E-value=0.36  Score=38.11  Aligned_cols=95  Identities=19%  Similarity=0.203  Sum_probs=61.3

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA   85 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~   85 (267)
                      .++..|..+++.++|++|+..+-.+=+           .-.+++-...=+.+||+.+++.          ..|...|.++
T Consensus        19 ~~~~~a~~~~~~~~~~~A~~~~~~~~~-----------~~p~~~~~~~~la~~~~~~~~~----------~~A~~~~~~~   77 (135)
T TIGR02552        19 QIYALAYNLYQQGRYDEALKLFQLLAA-----------YDPYNSRYWLGLAACCQMLKEY----------EEAIDAYALA   77 (135)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHH-----------hCCCcHHHHHHHHHHHHHHHHH----------HHHHHHHHHH
Confidence            356788999999999999988744322           2233444455568888888654          3444445444


Q ss_pred             hCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           86 HGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        86 yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                      ...++.               ....+...|++.+..|+.+.|...+..+-.
T Consensus        78 ~~~~p~---------------~~~~~~~la~~~~~~g~~~~A~~~~~~al~  113 (135)
T TIGR02552        78 AALDPD---------------DPRPYFHAAECLLALGEPESALKALDLAIE  113 (135)
T ss_pred             HhcCCC---------------ChHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            432221               122334458888999999999988875544

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>TIGR00116 tsf translation elongation factor Ts

Probab=94.46  E-value=0.063  Score=50.47  Aligned_cols=41  Identities=24%  Similarity=0.229  Sum_probs=35.8

Q ss_pred             CChhhHhhHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447          143 VPDESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEEK  183 (267)
Q Consensus       143 vd~~~l~~L~~M-GF~~~~Ar~ALr~~~gdve~A~~wL~~~~  183 (267)
                      +..+.|..|-++ |.+.-+|++||..++||+++|++||..+.
T Consensus         3 isa~~IK~LRe~Tgagm~dCKkAL~e~~gDiekAi~~LRkkG   44 (290)
T TIGR00116         3 ITAQLVKELRERTGAGMMDCKKALTEANGDFEKAIKNLRESG   44 (290)
T ss_pred             CCHHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHhc
Confidence            456678888776 89999999999999999999999997754

This protein is found in Bacteria, mitochondria, and chloroplasts.

>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed

Probab=94.34  E-value=0.085  Score=43.27  Aligned_cols=41  Identities=32%  Similarity=0.545  Sum_probs=36.4

Q ss_pred             CCCChhhHhhHHh-CCCCHHHHHHHHHHhCCCHHHHHHHHHh
Q 024447          141 LQVPDESLSLVMS-MGFKEQDAKRALRICSQDVGSAIDFLVE  181 (267)
Q Consensus       141 l~vd~~~l~~L~~-MGF~~~~Ar~ALr~~~gdve~A~~wL~~  181 (267)
                      ..++++.|..+++ -|-|+..|+.||..|+||+-.|+-+|.+
T Consensus        73 ~~i~~edI~lv~~q~gvs~~~A~~AL~~~~gDl~~AI~~L~~  114 (115)
T PRK06369         73 VEIPEEDIELVAEQTGVSEEEARKALEEANGDLAEAILKLSS  114 (115)
T ss_pred             CCCCHHHHHHHHHHHCcCHHHHHHHHHHcCCcHHHHHHHHhc
Confidence            5689999998876 4899999999999999999999988854

>PRK12332 tsf elongation factor Ts; Reviewed

Probab=94.31  E-value=0.081  Score=47.12  Aligned_cols=41  Identities=24%  Similarity=0.325  Sum_probs=35.3

Q ss_pred             CChhhHhhHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447          143 VPDESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEEK  183 (267)
Q Consensus       143 vd~~~l~~L~~M-GF~~~~Ar~ALr~~~gdve~A~~wL~~~~  183 (267)
                      ++.+.|..|-++ |.+.-+|++||..++||++.|++||....
T Consensus         3 i~a~~ik~LR~~tga~~~~ck~AL~~~~gd~~~A~~~lr~~g   44 (198)
T PRK12332          3 ITAKLVKELREKTGAGMMDCKKALEEANGDMEKAIEWLREKG   44 (198)
T ss_pred             CCHHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHhh
Confidence            455677777765 89999999999999999999999997754

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

Probab=94.10  E-value=0.042  Score=51.16  Aligned_cols=40  Identities=23%  Similarity=0.478  Sum_probs=35.0

Q ss_pred             HhhHHhCCCCHHHHHHHHHHhCC-CHHHHHHHH-Hhhhhhhh
Q 024447          148 LSLVMSMGFKEQDAKRALRICSQ-DVGSAIDFL-VEEKAKRV  187 (267)
Q Consensus       148 l~~L~~MGF~~~~Ar~ALr~~~g-dve~A~~wL-~~~~~d~~  187 (267)
                      +++|++|||+...+-+||.-++| +++.|+.|| ..|-+++.
T Consensus         4 ~~~l~~mgfps~k~e~al~~~~n~~~e~al~wl~~d~~~d~~   45 (290)
T KOG2689|consen    4 AQSLEEMGFPSGKAEKALAVYGNRGIEQALDWLEMDHAGDPI   45 (290)
T ss_pred             HHHHHHhcCchhhhhhHhhhhccccHHHHHHHHHhcccCCCc
Confidence            37899999999999999998854 899999999 88877765

>KOG0418 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]

Probab=93.99  E-value=0.086  Score=46.61  Aligned_cols=41  Identities=17%  Similarity=0.234  Sum_probs=35.5

Q ss_pred             CCCCcCCHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHh
Q 024447          210 PLKKAVDIEKIKELVSIGFEKELVAEALRRNENDSQKALDD  250 (267)
Q Consensus       210 ~~~~~vd~e~v~~L~~MGF~~~~A~~ALr~t~ndve~Aldl  250 (267)
                      ......+..+|+.|.+|||++..+..+|+..+-|++.|...
T Consensus       156 ~~~~~~~~~~v~~l~~mGf~~~~~i~~L~~~~w~~~~a~~~  196 (200)
T KOG0418|consen  156 LPDDPWDKKKVDSLIEMGFSELEAILVLSGSDWNLADATEQ  196 (200)
T ss_pred             CCCCchhHHHHHHHHHhcccHHHHHHHhhccccchhhhhHh
Confidence            33344577999999999999999999999999999999883

>TIGR00264 alpha-NAC-related protein

Probab=93.75  E-value=0.11  Score=42.66  Aligned_cols=39  Identities=31%  Similarity=0.557  Sum_probs=34.9

Q ss_pred             CCChhhHhhHHh-CCCCHHHHHHHHHHhCCCHHHHHHHHH
Q 024447          142 QVPDESLSLVMS-MGFKEQDAKRALRICSQDVGSAIDFLV  180 (267)
Q Consensus       142 ~vd~~~l~~L~~-MGF~~~~Ar~ALr~~~gdve~A~~wL~  180 (267)
                      .++++.|..+++ -|-|+..|++||..|+||+-.|+-+|.
T Consensus        76 ~i~~eDI~lV~eq~gvs~e~A~~AL~~~~gDl~~AI~~L~  115 (116)
T TIGR00264        76 EITEDDIELVMKQCNVSKEEARRALEECGGDLAEAIMKLE  115 (116)
T ss_pred             CCCHHHHHHHHHHhCcCHHHHHHHHHHcCCCHHHHHHHhh
Confidence            589999998876 589999999999999999999998874

This hypothetical protein is found so far only in the Archaea. Its C-terminal domain of about 40 amino acids is homologous to the C-termini of the nascent polypeptide-associated complex alpha chain (alpha-NAC) and its yeast ortholog Egd2p and to the huntingtin-interacting protein HYPK. It shows weaker similarity, possibly through shared structural constraints rather than through homology, with the amino-terminal domain of elongation factor Ts. Alpha-NAC plays a role in preventing nascent polypeptides from binding inappropriately to membrane-targeting apparatus during translation, but is also active as a transcription regulator.

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=93.61  E-value=0.73  Score=31.32  Aligned_cols=92  Identities=23%  Similarity=0.247  Sum_probs=58.2

Q ss_pred             hhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHh
Q 024447            7 LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAH   86 (267)
Q Consensus         7 l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~y   86 (267)
                      ++..|..++..++|++|+.++..+=+..           ++.......+.+||...+          +...|.+.|.++.
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-----------~~~~~~~~~~~~~~~~~~----------~~~~a~~~~~~~~   61 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-----------PDNADAYYNLAAAYYKLG----------KYEEALEDYEKAL   61 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-----------CccHHHHHHHHHHHHHHH----------HHHHHHHHHHHHH
Confidence            5678999999999999999987664332           122256678888988863          4455566666655


Q ss_pred             CCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhh
Q 024447           87 GKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSA  134 (267)
Q Consensus        87 G~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a  134 (267)
                      -..+...               ......+.+.+..|+.+.|...+..+
T Consensus        62 ~~~~~~~---------------~~~~~~~~~~~~~~~~~~a~~~~~~~   94 (100)
T cd00189          62 ELDPDNA---------------KAYYNLGLAYYKLGKYEEALEAYEKA   94 (100)
T ss_pred             hCCCcch---------------hHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            3222111               12223355566677788887776644

>CHL00098 tsf elongation factor Ts

Probab=93.34  E-value=0.14  Score=45.65  Aligned_cols=37  Identities=22%  Similarity=0.237  Sum_probs=31.4

Q ss_pred             hHhhHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447          147 SLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEEK  183 (267)
Q Consensus       147 ~l~~L~~M-GF~~~~Ar~ALr~~~gdve~A~~wL~~~~  183 (267)
                      .|..|-++ |.+..+|++||..++||++.|++||..+.
T Consensus         4 ~ik~LR~~Tgag~~dck~AL~e~~gd~~~A~~~Lr~~g   41 (200)
T CHL00098          4 LVKELRDKTGAGMMDCKKALQEANGDFEKALESLRQKG   41 (200)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHhh
Confidence            45556554 89999999999999999999999997754

>KOG0418 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]

Probab=93.24  E-value=0.08  Score=46.81  Aligned_cols=39  Identities=21%  Similarity=0.294  Sum_probs=34.9

Q ss_pred             CChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHh
Q 024447          143 VPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE  181 (267)
Q Consensus       143 vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~  181 (267)
                      .+..+|..|.+|||++.++..+|...+-|++.|.+.+++
T Consensus       161 ~~~~~v~~l~~mGf~~~~~i~~L~~~~w~~~~a~~~~~s  199 (200)
T KOG0418|consen  161 WDKKKVDSLIEMGFSELEAILVLSGSDWNLADATEQLLS  199 (200)
T ss_pred             hhHHHHHHHHHhcccHHHHHHHhhccccchhhhhHhhcc
Confidence            356899999999999999999999989999999988765

>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed

Probab=93.13  E-value=0.19  Score=41.27  Aligned_cols=40  Identities=23%  Similarity=0.301  Sum_probs=35.5

Q ss_pred             cCCHHHHHHHHhC-CCCHHHHHHHHHHcCCCHHHHHHhccC
Q 024447          214 AVDIEKIKELVSI-GFEKELVAEALRRNENDSQKALDDLTN  253 (267)
Q Consensus       214 ~vd~e~v~~L~~M-GF~~~~A~~ALr~t~ndve~AldlL~~  253 (267)
                      .++.+.|+.+++- |-+++.|++||+.++||+-.|+-.|+.
T Consensus        74 ~i~~edI~lv~~q~gvs~~~A~~AL~~~~gDl~~AI~~L~~  114 (115)
T PRK06369         74 EIPEEDIELVAEQTGVSEEEARKALEEANGDLAEAILKLSS  114 (115)
T ss_pred             CCCHHHHHHHHHHHCcCHHHHHHHHHHcCCcHHHHHHHHhc
Confidence            4788999998875 999999999999999999999986653

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=92.14  E-value=6.1  Score=36.19  Aligned_cols=74  Identities=18%  Similarity=0.164  Sum_probs=50.3

Q ss_pred             hhhhhhHhHHHHHHhh-chHHHHHHHHhhhhhhccCChhhhhh-cc----chhhhhhhHHHHHHHhCCCCCHHHHHHHHH
Q 024447            3 MGLMLHANAKSLIKRH-MYKDALEVLTMGEEAFSLCDPKVLEF-VD----NGPLLQIDMVWCYFMLRDISWLSEAGIRLR   76 (267)
Q Consensus         3 ~~~~l~ek~r~~~~~~-~y~~al~~ll~ad~~f~~c~~~~l~~-vD----n~a~l~ldivwcy~~l~~~~~l~dA~~rL~   76 (267)
                      ++.++++-|+++++++ +|++|...|-+|=+.++.+ .+.... .|    .+.+|. =+|=||+-...-.....|..-|.
T Consensus        34 La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~-~~~~~~~~~~~elr~~iL~-~La~~~l~~~~~~~~~ka~~~l~  111 (278)
T PF08631_consen   34 LARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKP-GKMDKLSPDGSELRLSILR-LLANAYLEWDTYESVEKALNALR  111 (278)
T ss_pred             HHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhh-hhccccCCcHHHHHHHHHH-HHHHHHHcCCChHHHHHHHHHHH
Confidence            5678999999999999 9999999999999888774 222121 11    234443 36777777666655555555444


Q ss_pred             HH
Q 024447           77 KA   78 (267)
Q Consensus        77 ~a   78 (267)
                      ..
T Consensus       112 ~l  113 (278)
T PF08631_consen  112 LL  113 (278)
T ss_pred             HH
Confidence            44

It is also involved in sporulation [].

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=92.01  E-value=2.5  Score=31.83  Aligned_cols=103  Identities=15%  Similarity=0.138  Sum_probs=63.9

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA   85 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~   85 (267)
                      .+..+|..+++.++|++|...+..+-+.+..+.        +.+-..+-+..||+..++   ...|...+..+-..    
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~--------~~~~~~~~l~~~~~~~~~---~~~A~~~~~~~~~~----   68 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKST--------YAPNAHYWLGEAYYAQGK---YADAAKAFLAVVKK----   68 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcc--------ccHHHHHHHHHHHHhhcc---HHHHHHHHHHHHHH----
Confidence            467899999999999999999998877665432        223344557777777664   33444444333321    


Q ss_pred             hCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhh
Q 024447           86 HGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKF  138 (267)
Q Consensus        86 yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~  138 (267)
                         ++       ++.....+++     .-+.+.++.|+.++|...+..+-...
T Consensus        69 ---~p-------~~~~~~~~~~-----~~~~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        69 ---YP-------KSPKAPDALL-----KLGMSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             ---CC-------CCCcccHHHH-----HHHHHHHHhCChHHHHHHHHHHHHHC
Confidence               11       1111122222     23666778899999998887665543

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>TIGR00264 alpha-NAC-related protein

Probab=91.87  E-value=0.32  Score=39.99  Aligned_cols=39  Identities=21%  Similarity=0.236  Sum_probs=33.9

Q ss_pred             cCCHHHHHHHHhC-CCCHHHHHHHHHHcCCCHHHHHHhcc
Q 024447          214 AVDIEKIKELVSI-GFEKELVAEALRRNENDSQKALDDLT  252 (267)
Q Consensus       214 ~vd~e~v~~L~~M-GF~~~~A~~ALr~t~ndve~AldlL~  252 (267)
                      .++.+.|+.+++- |-+++.|++||+.++||+-.|+-.|+
T Consensus        76 ~i~~eDI~lV~eq~gvs~e~A~~AL~~~~gDl~~AI~~L~  115 (116)
T TIGR00264        76 EITEDDIELVMKQCNVSKEEARRALEECGGDLAEAIMKLE  115 (116)
T ss_pred             CCCHHHHHHHHHHhCcCHHHHHHHHHHcCCCHHHHHHHhh
Confidence            3788889888765 99999999999999999999987554

This hypothetical protein is found so far only in the Archaea. Its C-terminal domain of about 40 amino acids is homologous to the C-termini of the nascent polypeptide-associated complex alpha chain (alpha-NAC) and its yeast ortholog Egd2p and to the huntingtin-interacting protein HYPK. It shows weaker similarity, possibly through shared structural constraints rather than through homology, with the amino-terminal domain of elongation factor Ts. Alpha-NAC plays a role in preventing nascent polypeptides from binding inappropriately to membrane-targeting apparatus during translation, but is also active as a transcription regulator.

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

Probab=90.03  E-value=0.37  Score=48.19  Aligned_cols=34  Identities=29%  Similarity=0.496  Sum_probs=29.7

Q ss_pred             HHHHHHHhCCCC-HHHHHHHHHHcCCCHHHHHHhc
Q 024447          218 EKIKELVSIGFE-KELVAEALRRNENDSQKALDDL  251 (267)
Q Consensus       218 e~v~~L~~MGF~-~~~A~~ALr~t~ndve~AldlL  251 (267)
                      ..+++|-+|||. ++...+||+.|+|||++|++.|
T Consensus       456 ~QLeQL~~MGF~nre~nlqAL~atgGdi~aAverl  490 (493)
T KOG0010|consen  456 TQLEQLNDMGFLDREANLQALRATGGDINAAVERL  490 (493)
T ss_pred             HHHHHHHhcCCccHHHHHHHHHHhcCcHHHHHHHH
Confidence            568999999985 5589999999999999999943

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=90.00  E-value=7.5  Score=32.53  Aligned_cols=65  Identities=14%  Similarity=0.018  Sum_probs=44.6

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAR   79 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae   79 (267)
                      +..++.+|....+.++|++|+.++.+|=+.-...        .+.+.....+..||+.+++.   +.|...+.+|-
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~--------~~~~~~~~~la~~~~~~g~~---~~A~~~~~~al   99 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDP--------NDRSYILYNMGIIYASNGEH---DKALEYYHQAL   99 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcc--------chHHHHHHHHHHHHHHcCCH---HHHHHHHHHHH
Confidence            4567889999999999999999998875532111        12355667888888887654   44544444433

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=89.88  E-value=9.4  Score=31.26  Aligned_cols=61  Identities=11%  Similarity=-0.126  Sum_probs=40.2

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKARE   80 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~   80 (267)
                      .+...|...++.++|++|+..+-.|-+...           +.+....-++|+|+..+   ..++|...+.++-.
T Consensus        67 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~-----------~~~~~~~~~~~~~~~~g---~~~~A~~~~~~~~~  127 (234)
T TIGR02521        67 AYLALALYYQQLGELEKAEDSFRRALTLNP-----------NNGDVLNNYGTFLCQQG---KYEQAMQQFEQAIE  127 (234)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-----------CCHHHHHHHHHHHHHcc---cHHHHHHHHHHHHh
Confidence            345578888999999999999888765432           22234455688888765   45566665555543

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>PF09288 UBA_3: Fungal ubiquitin-associated domain ; InterPro: IPR015368 This C-terminal domain is found in ubiquitin binding proteins, it adopts a structure consisting of a three alpha-helix bundle

Probab=89.80  E-value=0.32  Score=34.94  Aligned_cols=27  Identities=19%  Similarity=0.350  Sum_probs=21.8

Q ss_pred             CChhhHhhHHhCCCCHHHHHHHHHHhC
Q 024447          143 VPDESLSLVMSMGFKEQDAKRALRICS  169 (267)
Q Consensus       143 vd~~~l~~L~~MGF~~~~Ar~ALr~~~  169 (267)
                      +|.+.|.+..+|||+......||+.-|
T Consensus         8 i~~~lVd~F~~mGF~~dkVvevlrrlg   34 (55)
T PF09288_consen    8 IDKDLVDQFENMGFERDKVVEVLRRLG   34 (55)
T ss_dssp             -SHHHHHHHHHHT--HHHHHHHHHHS-
T ss_pred             CCHHHHHHHHHcCCcHHHHHHHHHHhC
Confidence            588999999999999999999999865

This domain is predominantly found in fungi []. ; PDB: 1TTE_A.

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=89.77  E-value=2  Score=36.00  Aligned_cols=77  Identities=17%  Similarity=0.024  Sum_probs=61.2

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCC----CCCHHHHHHHHHHHHH
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRD----ISWLSEAGIRLRKARE   80 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~----~~~l~dA~~rL~~ae~   80 (267)
                      ..++-.|....+.++|++|+..+..|=+..           .+++.....+.+||+.+.+    ......|..++.+|.+
T Consensus        73 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~-----------p~~~~~~~~lg~~~~~~g~~~~a~~~~~~A~~~~~~A~~  141 (172)
T PRK02603         73 YILYNMGIIYASNGEHDKALEYYHQALELN-----------PKQPSALNNIAVIYHKRGEKAEEAGDQDEAEALFDKAAE  141 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-----------cccHHHHHHHHHHHHHcCChHhHhhCHHHHHHHHHHHHH
Confidence            467788999999999999999887654432           2345555688999999887    5778999999999999


Q ss_pred             HHHHHhCCCHHH
Q 024447           81 GIERAHGKDSSR   92 (267)
Q Consensus        81 ~f~r~yG~~~~r   92 (267)
                      .+++..+.++.-
T Consensus       142 ~~~~a~~~~p~~  153 (172)
T PRK02603        142 YWKQAIRLAPNN  153 (172)
T ss_pred             HHHHHHhhCchh
Confidence            999988777764

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=89.43  E-value=2.8  Score=37.55  Aligned_cols=76  Identities=24%  Similarity=0.200  Sum_probs=55.7

Q ss_pred             chhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchh
Q 024447           47 NGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDK  126 (267)
Q Consensus        47 n~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~  126 (267)
                      ..|.+.|=|.|+|.-+.|   -.....-|++|-+.|+++| ++.        ..+.+.-=-.++-.|=|-+.+.-|+.++
T Consensus       116 ~~A~l~LrlAWlyR~~~~---~~~E~~fl~~Al~~y~~a~-~~e--------~~~~~~~~~~~l~YLigeL~rrlg~~~e  183 (214)
T PF09986_consen  116 KKAGLCLRLAWLYRDLGD---EENEKRFLRKALEFYEEAY-ENE--------DFPIEGMDEATLLYLIGELNRRLGNYDE  183 (214)
T ss_pred             HHHHHHHHHHHHhhccCC---HHHHHHHHHHHHHHHHHHH-HhC--------cCCCCCchHHHHHHHHHHHHHHhCCHHH
Confidence            569999999999988888   6677788999999999999 222        1111111112244566888999999999


Q ss_pred             HhhhhHhh
Q 024447          127 ARNALTSA  134 (267)
Q Consensus       127 A~~~l~~a  134 (267)
                      |...+...
T Consensus       184 A~~~fs~v  191 (214)
T PF09986_consen  184 AKRWFSRV  191 (214)
T ss_pred             HHHHHHHH
Confidence            99887654

>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)

Probab=89.35  E-value=5.6  Score=40.27  Aligned_cols=94  Identities=16%  Similarity=0.027  Sum_probs=50.9

Q ss_pred             hhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHh
Q 024447            7 LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAH   86 (267)
Q Consensus         7 l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~y   86 (267)
                      +.-.|...+.+++|++|+..+-.|=+..           .+++-..+-+.|||+.+++   .++|..-+.++       .
T Consensus       334 ~~~lg~~~~~~g~~~eA~~~~~kal~l~-----------P~~~~~~~~la~~~~~~g~---~~eA~~~~~~a-------l  392 (615)
T TIGR00990       334 LNLRGTFKCLKGKHLEALADLSKSIELD-----------PRVTQSYIKRASMNLELGD---PDKAEEDFDKA-------L  392 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-----------CCcHHHHHHHHHHHHHCCC---HHHHHHHHHHH-------H
Confidence            4445666666677777776665443221           2334445566777776543   33444443333       2


Q ss_pred             CCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           87 GKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        87 G~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                      -.++          ....+++     ..|.+.+..|+.++|...+.++-.
T Consensus       393 ~~~p----------~~~~~~~-----~lg~~~~~~g~~~~A~~~~~kal~  427 (615)
T TIGR00990       393 KLNS----------EDPDIYY-----HRAQLHFIKGEFAQAGKDYQKSID  427 (615)
T ss_pred             HhCC----------CCHHHHH-----HHHHHHHHcCCHHHHHHHHHHHHH
Confidence            1111          1112222     337778888888888888776543

>PF07499 RuvA_C: RuvA, C-terminal domain; InterPro: IPR011114 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction

Probab=88.73  E-value=0.54  Score=32.13  Aligned_cols=24  Identities=21%  Similarity=0.574  Sum_probs=20.7

Q ss_pred             hhhHhhHHhCCCCHHHHHHHHHHh
Q 024447          145 DESLSLVMSMGFKEQDAKRALRIC  168 (267)
Q Consensus       145 ~~~l~~L~~MGF~~~~Ar~ALr~~  168 (267)
                      ++.++.|+++||++.++.+|++..
T Consensus         4 ~d~~~AL~~LGy~~~e~~~av~~~   27 (47)
T PF07499_consen    4 EDALEALISLGYSKAEAQKAVSKL   27 (47)
T ss_dssp             HHHHHHHHHTTS-HHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHh
Confidence            478899999999999999999876

The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure []. In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. The domain represents the C-terminal domain III of RuvA. This domain plays a significant role in the ATP-dependent branch migration of the hetero-duplex through direct contact with RuvB []. Within the Holliday junction, this domain makes no interaction with the DNA.; GO: 0005524 ATP binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination, 0009379 Holliday junction helicase complex; PDB: 1HJP_A 1CUK_A 1C7Y_A 1IXS_A 1IXR_B 1BVS_E 2ZTC_A 2ZTD_B 2H5X_A.

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=88.25  E-value=3.1  Score=39.68  Aligned_cols=96  Identities=22%  Similarity=0.168  Sum_probs=62.8

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER   84 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r   84 (267)
                      --|..+|..+++.++|++|+.++-.|=+....           .+-......-||+.+++   ..+|..-+.+|-+    
T Consensus         3 ~~l~~~a~~a~~~~~~~~Ai~~~~~Al~~~P~-----------~~~a~~~~a~~~~~~g~---~~eAl~~~~~Al~----   64 (356)
T PLN03088          3 KDLEDKAKEAFVDDDFALAVDLYTQAIDLDPN-----------NAELYADRAQANIKLGN---FTEAVADANKAIE----   64 (356)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-----------CHHHHHHHHHHHHHcCC---HHHHHHHHHHHHH----
Confidence            34678999999999999999999777543322           23344677788888754   4444444433322    


Q ss_pred             HhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        85 ~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                         .++         ..+ .+     ++..|.+.++.|++++|...+..+-.
T Consensus        65 ---l~P---------~~~-~a-----~~~lg~~~~~lg~~~eA~~~~~~al~   98 (356)
T PLN03088         65 ---LDP---------SLA-KA-----YLRKGTACMKLEEYQTAKAALEKGAS   98 (356)
T ss_pred             ---hCc---------CCH-HH-----HHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence               222         111 12     22348899999999999998876544

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

Probab=87.94  E-value=0.75  Score=46.09  Aligned_cols=35  Identities=29%  Similarity=0.490  Sum_probs=30.7

Q ss_pred             hhHhhHHhCCC-CHHHHHHHHHHhCCCHHHHHHHHH
Q 024447          146 ESLSLVMSMGF-KEQDAKRALRICSQDVGSAIDFLV  180 (267)
Q Consensus       146 ~~l~~L~~MGF-~~~~Ar~ALr~~~gdve~A~~wL~  180 (267)
                      .-+++|-+||| ++.+..+||++|+|||.+||+-|+
T Consensus       456 ~QLeQL~~MGF~nre~nlqAL~atgGdi~aAverll  491 (493)
T KOG0010|consen  456 TQLEQLNDMGFLDREANLQALRATGGDINAAVERLL  491 (493)
T ss_pred             HHHHHHHhcCCccHHHHHHHHHHhcCcHHHHHHHHh
Confidence            56889999996 567778999999999999999875

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein

Probab=87.76  E-value=5.4  Score=39.93  Aligned_cols=27  Identities=15%  Similarity=-0.037  Sum_probs=21.4

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhh
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEE   32 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~   32 (267)
                      ..+..|+..++.++|++|+..+-.+-+
T Consensus        58 ~~~~l~~~~~~~g~~~~A~~~~~~~~~   84 (899)
T TIGR02917        58 ARFLLGKIYLALGDYAAAEKELRKALS   84 (899)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            456788889999999999988877644

This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.

>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]

Probab=87.46  E-value=1.1  Score=37.15  Aligned_cols=39  Identities=31%  Similarity=0.455  Sum_probs=33.1

Q ss_pred             CCCChhhHhhHHh-CCCCHHHHHHHHHHhCCCHHHHHHHH
Q 024447          141 LQVPDESLSLVMS-MGFKEQDAKRALRICSQDVGSAIDFL  179 (267)
Q Consensus       141 l~vd~~~l~~L~~-MGF~~~~Ar~ALr~~~gdve~A~~wL  179 (267)
                      ..++++.|...++ -|-|+++|++||..+|||+-.|+-.|
T Consensus        81 ~~i~eeDIkLV~eQa~VsreeA~kAL~e~~GDlaeAIm~L  120 (122)
T COG1308          81 SDISEEDIKLVMEQAGVSREEAIKALEEAGGDLAEAIMKL  120 (122)
T ss_pred             CCCCHHHHHHHHHHhCCCHHHHHHHHHHcCCcHHHHHHHh
Confidence            4578888887665 69999999999999999988888665

>KOG3450 consensus Huntingtin interacting protein HYPK [General function prediction only]

Probab=86.82  E-value=1.1  Score=36.36  Aligned_cols=47  Identities=26%  Similarity=0.396  Sum_probs=40.8

Q ss_pred             HhhhccCCCChhhHhhHH-hCCCCHHHHHHHHHHhCCCHHHHHHHHHh
Q 024447          135 QAKFFQLQVPDESLSLVM-SMGFKEQDAKRALRICSQDVGSAIDFLVE  181 (267)
Q Consensus       135 ~~~~~~l~vd~~~l~~L~-~MGF~~~~Ar~ALr~~~gdve~A~~wL~~  181 (267)
                      +.++++++|..+.|..+| +|-.++..|.+.||.++|||-.|+.-|.+
T Consensus        71 EKELakV~IkkeDlelImnELei~k~~aer~LrE~~Gdvv~Alral~s  118 (119)
T KOG3450|consen   71 EKELAKVTIKKEDLELIMNELEISKAAAERSLREHMGDVVEALRALTS  118 (119)
T ss_pred             HhhccccccCHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHhc
Confidence            557889999999999554 78899999999999999999999987764

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=86.63  E-value=16  Score=29.84  Aligned_cols=63  Identities=19%  Similarity=0.117  Sum_probs=44.4

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKARE   80 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~   80 (267)
                      +-.+...|...++.++|++|+..+..+=+.           -.+.+....-+..+|+..++   ...|...+.++-+
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~-----------~p~~~~~~~~la~~~~~~~~---~~~A~~~~~~al~   93 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEH-----------DPDDYLAYLALALYYQQLGE---LEKAEDSFRRALT   93 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-----------CcccHHHHHHHHHHHHHcCC---HHHHHHHHHHHHh
Confidence            345677899999999999999999877332           12334455567788887764   4677777776654

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>PF07499 RuvA_C: RuvA, C-terminal domain; InterPro: IPR011114 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction

Probab=86.38  E-value=1  Score=30.70  Aligned_cols=23  Identities=22%  Similarity=0.515  Sum_probs=20.1

Q ss_pred             HHHHHHHhCCCCHHHHHHHHHHc
Q 024447          218 EKIKELVSIGFEKELVAEALRRN  240 (267)
Q Consensus       218 e~v~~L~~MGF~~~~A~~ALr~t  240 (267)
                      +.+..|+++||++..|..|++..
T Consensus         5 d~~~AL~~LGy~~~e~~~av~~~   27 (47)
T PF07499_consen    5 DALEALISLGYSKAEAQKAVSKL   27 (47)
T ss_dssp             HHHHHHHHTTS-HHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHh
Confidence            67899999999999999999876

The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure []. In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. The domain represents the C-terminal domain III of RuvA. This domain plays a significant role in the ATP-dependent branch migration of the hetero-duplex through direct contact with RuvB []. Within the Holliday junction, this domain makes no interaction with the DNA.; GO: 0005524 ATP binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination, 0009379 Holliday junction helicase complex; PDB: 1HJP_A 1CUK_A 1C7Y_A 1IXS_A 1IXR_B 1BVS_E 2ZTC_A 2ZTD_B 2H5X_A.

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=86.10  E-value=5.9  Score=32.93  Aligned_cols=90  Identities=13%  Similarity=-0.073  Sum_probs=54.7

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCCh--------------------------hhhhhccchhhhhhhHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDP--------------------------KVLEFVDNGPLLQIDMVW   57 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~--------------------------~~l~~vDn~a~l~ldivw   57 (267)
                      +..++-.|.....+++|++|+..+-.|=+.+.....                          +.++.-..++--...+..
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~  114 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMAV  114 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHH
Confidence            345566677777777777777776666444321100                          001112222333445667


Q ss_pred             HHHHhC----CCCCHHHHHHHHHHHHHHHHHHhCCCHHHH
Q 024447           58 CYFMLR----DISWLSEAGIRLRKAREGIERAHGKDSSRV   93 (267)
Q Consensus        58 cy~~l~----~~~~l~dA~~rL~~ae~~f~r~yG~~~~rl   93 (267)
                      +|.-+.    .......|...+.++...|++.+|.+|.+.
T Consensus       115 i~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~a~~~~p~~~  154 (168)
T CHL00033        115 ICHYRGEQAIEQGDSEIAEAWFDQAAEYWKQAIALAPGNY  154 (168)
T ss_pred             HHHHhhHHHHHcccHHHHHHHHHHHHHHHHHHHHhCcccH
Confidence            777444    556678888889999999999999988543

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=85.97  E-value=4.1  Score=41.28  Aligned_cols=114  Identities=18%  Similarity=0.145  Sum_probs=85.9

Q ss_pred             hhhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 024447            3 MGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGI   82 (267)
Q Consensus         3 ~~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f   82 (267)
                      +|..|+--|...-+++.|+||..+.-.|=+-+..   .+   ..|.+-+.==+-=-+.-....+..+.|...++++-+.+
T Consensus       282 va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~---~~---~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~  355 (508)
T KOG1840|consen  282 VAATLNNLAVLYYKQGKFAEAEEYCERALEIYEK---LL---GASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIY  355 (508)
T ss_pred             HHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHH---hh---ccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHH
Confidence            5777888899999999999999999999887777   22   23333222222222344556788999999999999999


Q ss_pred             HHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           83 ERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        83 ~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                      ....|++..=+.-++++      |        |++.+++|++++|.+++.+|=+
T Consensus       356 ~~~~g~~~~~~a~~~~n------l--------~~l~~~~gk~~ea~~~~k~ai~  395 (508)
T KOG1840|consen  356 LDAPGEDNVNLAKIYAN------L--------AELYLKMGKYKEAEELYKKAIQ  395 (508)
T ss_pred             HhhccccchHHHHHHHH------H--------HHHHHHhcchhHHHHHHHHHHH
Confidence            99999988767666554      3        6778999999999999887643

>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []

Probab=85.60  E-value=1.2  Score=34.36  Aligned_cols=35  Identities=20%  Similarity=0.173  Sum_probs=30.4

Q ss_pred             hhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447          149 SLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEK  183 (267)
Q Consensus       149 ~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~  183 (267)
                      ..+.+.||+......||++|.||+..|..++.+.-
T Consensus         2 ~~~~~~g~~~~~v~~aL~~tSgd~~~a~~~vl~~l   36 (87)
T PF11626_consen    2 KHYEELGYSREFVTHALYATSGDPELARRFVLNFL   36 (87)
T ss_dssp             HHHHHHTB-HHHHHHHHHHTTTBHHHHHHHHHHCH
T ss_pred             chHHHhCCCHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            34678999999999999999999999999888774

The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.

>COG0264 Tsf Translation elongation factor Ts [Translation, ribosomal structure and biogenesis]

Probab=85.36  E-value=1.5  Score=41.43  Aligned_cols=39  Identities=26%  Similarity=0.317  Sum_probs=31.2

Q ss_pred             hhhHhhHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447          145 DESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEEK  183 (267)
Q Consensus       145 ~~~l~~L~~M-GF~~~~Ar~ALr~~~gdve~A~~wL~~~~  183 (267)
                      ...|..|-++ |=..-+|++||..|+||+|.|++||-+.-
T Consensus         6 a~~VKeLRe~TgAGMmdCKkAL~E~~Gd~EkAie~LR~kG   45 (296)
T COG0264           6 AALVKELREKTGAGMMDCKKALEEANGDIEKAIEWLREKG   45 (296)
T ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHcCCCHHHHHHHHHHhc
Confidence            3445555554 67788999999999999999999997654

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein

Probab=83.73  E-value=16  Score=36.56  Aligned_cols=26  Identities=31%  Similarity=0.250  Sum_probs=17.9

Q ss_pred             HHHHHhhhhccCCchhHhhhhHhhHh
Q 024447          111 ELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus       111 ~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                      ..+.|.+.++.|+.++|...+..+-.
T Consensus       196 ~~~~~~~~~~~g~~~~A~~~~~~a~~  221 (899)
T TIGR02917       196 LLLKGDLLLSLGNIELALAAYRKAIA  221 (899)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence            34447777788888888877776533

This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.

>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]

Probab=83.34  E-value=3  Score=34.61  Aligned_cols=38  Identities=26%  Similarity=0.349  Sum_probs=32.2

Q ss_pred             cCCHHHHHHHHh-CCCCHHHHHHHHHHcCCCHHHHHHhc
Q 024447          214 AVDIEKIKELVS-IGFEKELVAEALRRNENDSQKALDDL  251 (267)
Q Consensus       214 ~vd~e~v~~L~~-MGF~~~~A~~ALr~t~ndve~AldlL  251 (267)
                      .++.+.|.-.++ -|-+++.|++||+.++||+-.|+-=|
T Consensus        82 ~i~eeDIkLV~eQa~VsreeA~kAL~e~~GDlaeAIm~L  120 (122)
T COG1308          82 DISEEDIKLVMEQAGVSREEAIKALEEAGGDLAEAIMKL  120 (122)
T ss_pred             CCCHHHHHHHHHHhCCCHHHHHHHHHHcCCcHHHHHHHh
Confidence            367788887765 49999999999999999999998643

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=82.12  E-value=86  Score=34.58  Aligned_cols=26  Identities=15%  Similarity=0.109  Sum_probs=18.9

Q ss_pred             HHHHhhhhccCCchhHhhhhHhhHhh
Q 024447          112 LLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus       112 lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                      ..++.+....|+.++|...+..+-..
T Consensus       465 ~~~a~~~~~~g~~~eA~~~~~~Al~~  490 (1157)
T PRK11447        465 AQQAEALENQGKWAQAAELQRQRLAL  490 (1157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            34566677789999999888766443

>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)

Probab=81.99  E-value=26  Score=35.44  Aligned_cols=96  Identities=11%  Similarity=0.131  Sum_probs=64.1

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA   85 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~   85 (267)
                      .+...|..++..++|++|+..+-.|=+.           -.+++-...-+.+||+.+++          ...|...|++.
T Consensus       367 ~~~~la~~~~~~g~~~eA~~~~~~al~~-----------~p~~~~~~~~lg~~~~~~g~----------~~~A~~~~~ka  425 (615)
T TIGR00990       367 SYIKRASMNLELGDPDKAEEDFDKALKL-----------NSEDPDIYYHRAQLHFIKGE----------FAQAGKDYQKS  425 (615)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh-----------CCCCHHHHHHHHHHHHHcCC----------HHHHHHHHHHH
Confidence            3456788888999999999998877443           22344455567888887765          34556666665


Q ss_pred             hCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447           86 HGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus        86 yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                      ...++.-.          .+     +..-|.+.+..|+.++|...+..+-..
T Consensus       426 l~l~P~~~----------~~-----~~~la~~~~~~g~~~eA~~~~~~al~~  462 (615)
T TIGR00990       426 IDLDPDFI----------FS-----HIQLGVTQYKEGSIASSMATFRRCKKN  462 (615)
T ss_pred             HHcCccCH----------HH-----HHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            54443221          11     223478888999999999998876543

>PRK12370 invasion protein regulator; Provisional

Probab=81.98  E-value=9.8  Score=38.27  Aligned_cols=71  Identities=18%  Similarity=0.228  Sum_probs=40.4

Q ss_pred             hhHhHHHHHHh---hchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            7 LHANAKSLIKR---HMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         7 l~ek~r~~~~~---~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      ++=+|+..+.+   +.+++|+.++-.|           ++.=-||+....=+.|||+.+......+ ...+...|...++
T Consensus       261 ~~lrg~~~~~~~~~~~~~~A~~~~~~A-----------l~ldP~~a~a~~~La~~~~~~~~~g~~~-~~~~~~~A~~~~~  328 (553)
T PRK12370        261 VYLRGKHELNQYTPYSLQQALKLLTQC-----------VNMSPNSIAPYCALAECYLSMAQMGIFD-KQNAMIKAKEHAI  328 (553)
T ss_pred             HHHHhHHHHHccCHHHHHHHHHHHHHH-----------HhcCCccHHHHHHHHHHHHHHHHcCCcc-cchHHHHHHHHHH
Confidence            44456555533   4455666555444           3333456666666789999887655432 2345666666666


Q ss_pred             HHhCCC
Q 024447           84 RAHGKD   89 (267)
Q Consensus        84 r~yG~~   89 (267)
                      +.--.+
T Consensus       329 ~Al~ld  334 (553)
T PRK12370        329 KATELD  334 (553)
T ss_pred             HHHhcC
Confidence            655333

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=81.12  E-value=9.8  Score=32.92  Aligned_cols=31  Identities=19%  Similarity=0.245  Sum_probs=25.9

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhhhhhhc
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFS   35 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~   35 (267)
                      -.++.+|.+++++++|++|...+-.+=+.+.
T Consensus        34 ~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p   64 (235)
T TIGR03302        34 EELYEEAKEALDSGDYTEAIKYFEALESRYP   64 (235)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            3578999999999999999999887755554

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=80.46  E-value=6.9  Score=39.66  Aligned_cols=110  Identities=18%  Similarity=0.138  Sum_probs=80.8

Q ss_pred             hhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHh
Q 024447            7 LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAH   86 (267)
Q Consensus         7 l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~y   86 (267)
                      +|--|.....+++|+.|.++.-.|=+.  .|..+.+..-+=...++    ||=+.+.++..-.+|.--+++|=..++.+|
T Consensus       202 ~~~La~~y~~~g~~e~A~~l~k~Al~~--l~k~~G~~hl~va~~l~----~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~  275 (508)
T KOG1840|consen  202 LRNLAEMYAVQGRLEKAEPLCKQALRI--LEKTSGLKHLVVASMLN----ILALVYRSLGKYDEAVNLYEEALTIREEVF  275 (508)
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHH--HHHccCccCHHHHHHHH----HHHHHHHHhccHHHHHHHHHHHHHHHHHhc
Confidence            334577788899999998887766443  23333333333333443    888888899999999999999999999999


Q ss_pred             CCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           87 GKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        87 G~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                      |+++.++.+.--          +|    +++.+-+|++++|.++.+.|-.
T Consensus       276 G~~h~~va~~l~----------nL----a~ly~~~GKf~EA~~~~e~Al~  311 (508)
T KOG1840|consen  276 GEDHPAVAATLN----------NL----AVLYYKQGKFAEAEEYCERALE  311 (508)
T ss_pred             CCCCHHHHHHHH----------HH----HHHHhccCChHHHHHHHHHHHH
Confidence            999999966542          21    3345778999999999987744

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	267
4ae4_A	118	Ubiquitin-associated protein 1; protein transport,	8e-15
4ae4_A	118	Ubiquitin-associated protein 1; protein transport,	5e-04
2lbc_A	126	Ubiquitin carboxyl-terminal hydrolase 13; tandem U	3e-12
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-06
3ihp_A	854	Ubiquitin carboxyl-terminal hydrolase 5; hydrolase	7e-07
2dak_A	63	Ubiquitin carboxyl-terminal hydrolase 5; isopeptid	8e-06
1vg5_A	73	RSGI RUH-014, rhomboid family protein; UBA domain,	3e-05
1wiv_A	73	UBP14, ubiquitin-specific protease 14; ubiquitin a	9e-05
1veg_A	83	NEDD8 ultimate buster-1; ubiquitin associated doma	3e-04
3lvg_D	190	LCB, clathrin light chain B; SELF assembly, coated	6e-04

>4ae4_A Ubiquitin-associated protein 1; protein transport, endosomal sorting, tetherin, VPU, HIV-1, monoubiquitin; HET: NHE; 1.65A {Homo sapiens} PDB: 4ae4_B* Length = 118

 Score = 68.1 bits (166), Expect = 8e-15
 Identities = 23/114 (20%), Positives = 46/114 (40%), Gaps = 4/114 (3%)

Query: 145 DESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQK 204
            + +  V++MG+  +   RA++    ++   +D+L        K  +         M Q 
Sbjct: 9   RQCVETVVNMGYSYECVLRAMKAAGANIEQILDYLFAHGQLCEKGFDPLLVEEALEMHQC 68

Query: 205 RYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDLTNPESNS 258
               +  K    ++ + +   +GFE + + E L  + ND   AL+DL      S
Sbjct: 69  ----SEEKMMEFLQLMSKFKEMGFELKDIKEVLLLHNNDQDNALEDLMARAGAS 118

>4ae4_A Ubiquitin-associated protein 1; protein transport, endosomal sorting, tetherin, VPU, HIV-1, monoubiquitin; HET: NHE; 1.65A {Homo sapiens} PDB: 4ae4_B* Length = 118

 Score = 38.0 bits (88), Expect = 5e-04
 Identities = 16/73 (21%), Positives = 30/73 (41%), Gaps = 2/73 (2%)

Query: 110 MELLEGVAAYHSGQFD--KARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRI 167
           ++ L          FD      AL   Q    ++    + +S    MGF+ +D K  L +
Sbjct: 40  LDYLFAHGQLCEKGFDPLLVEEALEMHQCSEEKMMEFLQLMSKFKEMGFELKDIKEVLLL 99

Query: 168 CSQDVGSAIDFLV 180
            + D  +A++ L+
Sbjct: 100 HNNDQDNALEDLM 112

>2lbc_A Ubiquitin carboxyl-terminal hydrolase 13; tandem UBA of USP13; NMR {Homo sapiens} Length = 126

 Score = 61.5 bits (148), Expect = 3e-12
 Identities = 19/118 (16%), Positives = 43/118 (36%), Gaps = 4/118 (3%)

Query: 142 QVPDESLSLVMSMGFKEQDAKRALRICS-QDVGSAIDFLVEEKAKRVKEREDNEQRRKEI 200
            + + S+  +  MGF  +  ++A+          A ++++    +               
Sbjct: 1   DIDESSVMQLAEMGFPLEACRKAVYFTGNMGAEVAFNWIIVHMEEPDFAEPLTMPGYGGA 60

Query: 201 MEQKRYGLTPLKKA--VDIEKIKELVSIGFEKELVAEALRRNENDSQKALD-DLTNPE 255
                              E +  + S+GF++    +ALR   N+ ++ALD   ++PE
Sbjct: 61  ASAGASVFGASGLDNQPPEEIVAIITSMGFQRNQAIQALRATNNNLERALDWIFSHPE 118

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

 Score = 54.9 bits (131), Expect = 1e-08
 Identities = 48/357 (13%), Positives = 100/357 (28%), Gaps = 116/357 (32%)

Query: 8   HANAKSLIKRHMYKDALEVLTMGEEAF-SLCDPK-VLEF---------VDN-----GPLL 51
           H + ++   ++ YKD L V    E+AF    D K V +          +D+       + 
Sbjct: 6   HMDFETGEHQYQYKDILSVF---EDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVS 62

Query: 52  QID-MVWC----------YFM---LR-DISWLSEAGIRLR-KAREG-------------- 81
               + W            F+   LR +  +L    I+   +                  
Sbjct: 63  GTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSP-IKTEQRQPSMMTRMYIEQRDRLYN 121

Query: 82  ---------IERAHGKDSSRVRLLQAGRHPELALH--------------LRMELLE---- 114
                    + R       R  LL+      + +                    ++    
Sbjct: 122 DNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMD 181

Query: 115 -GVAAYHSGQFDKARNALTSAQAKFFQL-----QVPD---------ESLSLVMSMGFKEQ 159
             +   +    +     L   Q   +Q+        D          S+   +    K +
Sbjct: 182 FKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK 241

Query: 160 DAKRALRI----CSQDVGSAIDF----LVEEKAKRVKEREDNEQRRKEIMEQKRYGLTP- 210
             +  L +     +    +A +     L+  + K+V +           ++     LTP 
Sbjct: 242 PYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPD 301

Query: 211 -----LKKAVDIEKIKEL----VSIG-FEKELVAEALR----RNENDSQKALDDLTN 253
                L K +D  + ++L    ++       ++AE++R      +N      D LT 
Sbjct: 302 EVKSLLLKYLDC-RPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTT 357

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

 Score = 46.4 bits (109), Expect = 5e-06
 Identities = 51/310 (16%), Positives = 95/310 (30%), Gaps = 88/310 (28%)

Query: 12  KSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFML--RDIS--- 66
           + L+K   Y++ L VL       ++ + K     +           C  +L  R      
Sbjct: 235 RRLLKSKPYENCLLVLL------NVQNAKAWNAFNLS---------CKILLTTRFKQVTD 279

Query: 67  WLSEAG---IRLRKAREGIERAHGKD------SSRVRLL--QA-GRHPELALHLRMELL- 113
           +LS A    I L      +     K         R + L  +    +P   L +  E + 
Sbjct: 280 FLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNP-RRLSIIAESIR 338

Query: 114 EGVAAYHSGQFDK-ARNALTSAQAKFFQLQVPDESLSLVMSMG-FKEQDAK---RALRI- 167
           +G+A      +     + LT+       +  P E   +   +  F    A      L + 
Sbjct: 339 DGLA--TWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPP-SAHIPTILLSLI 395

Query: 168 ----CSQDVGSAIDF-----LVEEKAK-----------RVKEREDNEQR-RKEIMEQ--- 203
                  DV   ++      LVE++ K            +K + +NE    + I++    
Sbjct: 396 WFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNI 455

Query: 204 -KRY---GLTP--------------LKKAVDIEKIKELVSIGFEKELVAEALRR---NEN 242
            K +    L P              LK     E++     +  +   + + +R      N
Sbjct: 456 PKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWN 515

Query: 243 DSQKALDDLT 252
            S   L+ L 
Sbjct: 516 ASGSILNTLQ 525

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

 Score = 49.1 bits (116), Expect = 7e-07
 Identities = 21/147 (14%), Positives = 54/147 (36%), Gaps = 8/147 (5%)

Query: 108 LRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRI 167
           +      G+        D A   +T  + K     + +  +  ++ MGF     ++A+  
Sbjct: 618 ISQLRGTGLQPGEEELPDIAPPLVTPDEPKAPM--LDESVIIQLVEMGFPMDACRKAVYY 675

Query: 168 -CSQDVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSI 226
             +    +A+++++        +  D                +        + +  +VS+
Sbjct: 676 TGNSGAEAAMNWVMSHM-----DDPDFANPLILPGSSGPGSTSAAADPPPEDCVTTIVSM 730

Query: 227 GFEKELVAEALRRNENDSQKALDDLTN 253
           GF ++   +ALR   N  ++A+D + +
Sbjct: 731 GFSRDQALKALRATNNSLERAVDWIFS 757

>2dak_A Ubiquitin carboxyl-terminal hydrolase 5; isopeptidase T, ubiquitin specific protease 5, USP 5, UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 63

 Score = 41.6 bits (98), Expect = 8e-06
 Identities = 11/40 (27%), Positives = 23/40 (57%)

Query: 142 QVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE 181
             P++ ++ ++SMGF    A +ALR  +  +  A+D++  
Sbjct: 7   GPPEDCVTTIVSMGFSRDQALKALRATNNSLERAVDWIFS 46

>1vg5_A RSGI RUH-014, rhomboid family protein; UBA domain, cDNA, structural genomics, riken structural genomics/proteomics initiative; NMR {Arabidopsis thaliana} SCOP: a.5.2.1 Length = 73

 Score = 40.6 bits (94), Expect = 3e-05
 Identities = 9/45 (20%), Positives = 22/45 (48%)

Query: 140 QLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKA 184
           ++   +E +  +++MGF     + AL     D+  A++ L+ +  
Sbjct: 25  RVAASEEQIQKLVAMGFDRTQVEVALAAADDDLTVAVEILMSQSG 69

>1wiv_A UBP14, ubiquitin-specific protease 14; ubiquitin associated domain, UBA domain, three helix bundle, structural genomics; NMR {Arabidopsis thaliana} SCOP: a.5.2.1 Length = 73

 Score = 39.1 bits (91), Expect = 9e-05
 Identities = 11/42 (26%), Positives = 21/42 (50%)

Query: 140 QLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE 181
              +   S+  ++S GF E  A++AL+    D+  A D++  
Sbjct: 25  TSDIDQSSVDTLLSFGFAEDVARKALKASGGDIEKATDWVFN 66

>1veg_A NEDD8 ultimate buster-1; ubiquitin associated domain, UBA domain, three helix bundle, structural genomics; NMR {Mus musculus} SCOP: a.5.2.1 Length = 83

 Score = 37.9 bits (87), Expect = 3e-04
 Identities = 13/42 (30%), Positives = 20/42 (47%)

Query: 140 QLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE 181
           Q     ES++ ++ MGF    A+ ALR+   +V  A   L  
Sbjct: 25  QASPSQESINQLVYMGFDTVVAEAALRVFGGNVQLAAQTLAH 66

>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190

 Score = 39.0 bits (90), Expect = 6e-04
 Identities = 13/71 (18%), Positives = 28/71 (39%), Gaps = 19/71 (26%)

Query: 181 EEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVD---------IEKIKELVSIGFEKE 231
           EE+ KR++E +   +  ++   +K       KK ++         +EK K    I  +K 
Sbjct: 92  EEQRKRLQELDAASKVMEQEWREK------AKKDLEEWNQRQSEQVEKNKINNRIA-DKA 144

Query: 232 LVAEALRRNEN 242
              +    + +
Sbjct: 145 FYQQ---PDAD 152

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	267
2lbc_A	126	Ubiquitin carboxyl-terminal hydrolase 13; tandem U	99.89
4ae4_A	118	Ubiquitin-associated protein 1; protein transport,	99.89
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	99.56
1wiv_A	73	UBP14, ubiquitin-specific protease 14; ubiquitin a	99.54
3ihp_A	854	Ubiquitin carboxyl-terminal hydrolase 5; hydrolase	99.53
1wiv_A	73	UBP14, ubiquitin-specific protease 14; ubiquitin a	99.48
1wgn_A	63	UBAP1, ubiquitin associated protein; ubiquitin ass	99.44
2cpw_A	64	CBL-interacting protein STS-1 variant; ubiquitin a	99.4
1whc_A	64	RSGI RUH-027, UBA/UBX 33.3 kDa protein; UBA domain	99.38
2crn_A	64	Ubash3A protein; compact three-helix bundle, struc	99.37
2dag_A	74	Ubiquitin carboxyl-terminal hydrolase 5; isopeptid	99.35
2dak_A	63	Ubiquitin carboxyl-terminal hydrolase 5; isopeptid	99.35
2g3q_A	43	Protein YBL047C; endocytosis, solution structure,	99.34
2dai_A	83	Ubadc1, ubiquitin associated domain containing 1;	99.33
2lbc_A	126	Ubiquitin carboxyl-terminal hydrolase 13; tandem U	99.29
2ekk_A	47	UBA domain from E3 ubiquitin-protein ligase HUWE1;	99.29
1wji_A	63	Tudor domain containing protein 3; UBA domain, str	99.27
1wgn_A	63	UBAP1, ubiquitin associated protein; ubiquitin ass	99.27
1vek_A	84	UBP14, ubiquitin-specific protease 14, putative; U	99.25
4ae4_A	118	Ubiquitin-associated protein 1; protein transport,	99.25
1ify_A	49	HHR23A, UV excision repair protein RAD23 homolog A	99.22
1veg_A	83	NEDD8 ultimate buster-1; ubiquitin associated doma	99.22
1dv0_A	47	DNA repair protein HHR23A; helical bundle, DNA bin	99.22
2dkl_A	85	Trinucleotide repeat containing 6C protein; TNRC6C	99.14
1vg5_A	73	RSGI RUH-014, rhomboid family protein; UBA domain,	99.12
2knz_A	53	Ubiquilin-4; cytoplasm, endoplasmic reticulum, nuc	99.12
2jy5_A	52	Ubiquilin-1; UBA, alternative splicing, cytoplasm,	99.12
1z96_A	40	DNA-damage, UBA-domain protein MUD1; ubiquitin, th	99.12
2ekk_A	47	UBA domain from E3 ubiquitin-protein ligase HUWE1;	99.09
2g3q_A	43	Protein YBL047C; endocytosis, solution structure,	99.09
1veg_A	83	NEDD8 ultimate buster-1; ubiquitin associated doma	99.08
2cpw_A	64	CBL-interacting protein STS-1 variant; ubiquitin a	99.06
1wji_A	63	Tudor domain containing protein 3; UBA domain, str	99.04
2dak_A	63	Ubiquitin carboxyl-terminal hydrolase 5; isopeptid	99.03
2dah_A	54	Ubiquilin-3; UBA domain, structural genomics, NPPS	99.01
2bwb_A	46	Ubiquitin-like protein DSK2; UBA, signaling protei	99.01
1vg5_A	73	RSGI RUH-014, rhomboid family protein; UBA domain,	99.0
2jy5_A	52	Ubiquilin-1; UBA, alternative splicing, cytoplasm,	98.99
1whc_A	64	RSGI RUH-027, UBA/UBX 33.3 kDa protein; UBA domain	98.99
1ify_A	49	HHR23A, UV excision repair protein RAD23 homolog A	98.98
2dag_A	74	Ubiquitin carboxyl-terminal hydrolase 5; isopeptid	98.96
1wr1_B	58	Ubiquitin-like protein DSK2; UBA domain, UBA-ubiqu	98.95
2dna_A	67	Unnamed protein product; ubiquitin associated doma	98.93
2crn_A	64	Ubash3A protein; compact three-helix bundle, struc	98.92
1z96_A	40	DNA-damage, UBA-domain protein MUD1; ubiquitin, th	98.91
2knz_A	53	Ubiquilin-4; cytoplasm, endoplasmic reticulum, nuc	98.91
2dkl_A	85	Trinucleotide repeat containing 6C protein; TNRC6C	98.91
2dai_A	83	Ubadc1, ubiquitin associated domain containing 1;	98.89
1vej_A	74	Riken cDNA 4931431F19; UBA domain, three helix bun	98.88
1dv0_A	47	DNA repair protein HHR23A; helical bundle, DNA bin	98.85
2ooa_A	52	E3 ubiquitin-protein ligase CBL-B; alpha-helical d	98.84
1vek_A	84	UBP14, ubiquitin-specific protease 14, putative; U	98.83
2dah_A	54	Ubiquilin-3; UBA domain, structural genomics, NPPS	98.82
2bwb_A	46	Ubiquitin-like protein DSK2; UBA, signaling protei	98.77
2ooa_A	52	E3 ubiquitin-protein ligase CBL-B; alpha-helical d	98.77
1wr1_B	58	Ubiquitin-like protein DSK2; UBA domain, UBA-ubiqu	98.76
2d9s_A	53	CBL E3 ubiquitin protein ligase; UBA domain, dimer	98.73
1vej_A	74	Riken cDNA 4931431F19; UBA domain, three helix bun	98.72
2dna_A	67	Unnamed protein product; ubiquitin associated doma	98.69
2d9s_A	53	CBL E3 ubiquitin protein ligase; UBA domain, dimer	98.64
2juj_A	56	E3 ubiquitin-protein ligase CBL; alpha helix, UBA	98.64
2juj_A	56	E3 ubiquitin-protein ligase CBL; alpha helix, UBA	98.6
2oo9_A	46	E3 ubiquitin-protein ligase CBL; alpha-helical dom	98.56
2cwb_A	108	Chimera of immunoglobulin G binding protein G and	98.54
2cos_A	54	Serine/threonine protein kinase LATS2; UBA domain,	98.51
2cos_A	54	Serine/threonine protein kinase LATS2; UBA domain,	98.47
2oo9_A	46	E3 ubiquitin-protein ligase CBL; alpha-helical dom	98.45
3ihp_A	854	Ubiquitin carboxyl-terminal hydrolase 5; hydrolase	98.38
2cwb_A	108	Chimera of immunoglobulin G binding protein G and	98.37
4dbg_B	162	Ring finger protein 31; ubiquitin fold, ubiquitina	98.24
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	98.18
1wj7_A	104	Hypothetical protein (RSGI RUH-015); UBA domain, u	98.15
3k9o_A	201	Ubiquitin-conjugating enzyme E2 K; E2-25K, complex	98.1
2cp8_A	54	NEXT to BRCA1 gene 1 protein; UBA domain, structur	98.1
2cp8_A	54	NEXT to BRCA1 gene 1 protein; UBA domain, structur	98.04
3k9o_A	201	Ubiquitin-conjugating enzyme E2 K; E2-25K, complex	98.04
2qsf_X	171	RAD23, UV excision repair protein RAD23; alpha-bet	97.95
1wj7_A	104	Hypothetical protein (RSGI RUH-015); UBA domain, u	97.72
2qsf_X	171	RAD23, UV excision repair protein RAD23; alpha-bet	97.4
3e46_A	253	Ubiquitin-conjugating enzyme E2-25 kDa; huntington	97.24
3e46_A	253	Ubiquitin-conjugating enzyme E2-25 kDa; huntington	97.22
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	97.11
2cp9_A	64	EF-TS, EF-TSMT, elongation factor TS, mitochondria	97.04
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	96.94
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	96.92
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	96.88
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	96.73
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	96.72
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	96.67
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	96.67
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	96.6
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	96.59
1q02_A	52	Sequestosome 1; helical bundle, protein binding; N	96.47
2cp9_A	64	EF-TS, EF-TSMT, elongation factor TS, mitochondria	96.47
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	96.38
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	96.36
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	96.34
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	96.33
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	96.32
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	96.32
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	96.3
1q02_A	52	Sequestosome 1; helical bundle, protein binding; N	96.26
1wgl_A	59	TOLL-interacting protein; CUE domain, structural g	96.24
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	96.21
1otr_A	49	Protein CUE2; protein-protein complex, cell cycle;	96.16
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	96.13
1wgl_A	59	TOLL-interacting protein; CUE domain, structural g	96.09
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	96.05
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	96.01
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	95.98
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	95.85
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	95.81
4dbg_B	162	Ring finger protein 31; ubiquitin fold, ubiquitina	95.81
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	95.76
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	95.75
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	95.63
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	95.6
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	95.56
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	95.52
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	95.42
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	95.38
1otr_A	49	Protein CUE2; protein-protein complex, cell cycle;	95.34
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	95.32
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	95.16
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	95.09
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	95.07
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	95.02
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	95.01
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	94.94
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	94.92
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	94.88
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	94.82
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	94.77
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	94.61
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	94.53
2gw1_A	514	Mitochondrial precursor proteins import receptor;	94.47
3u4t_A	272	TPR repeat-containing protein; structural genomics	94.44
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	94.4
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	94.28
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	94.21
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	94.16
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	94.12
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	94.12
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	94.05
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	93.97
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	93.93
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	93.89
2dhy_A	67	CUE domain-containing protein 1; structural genomi	93.84
1tr8_A	102	Conserved protein (MTH177); chaperones, nascent po	93.79
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	93.57
1aip_C	196	EF-TS, elongation factor TS; nucleotide exchange,	93.54
2pwq_A	216	Ubiquitin conjugating enzyme; structural genomics	93.51
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	93.46
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	93.43
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	93.4
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	93.31
1xb2_B	291	EF-TS, elongation factor TS, mitochondrial, EF-TSM	93.3
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	93.2
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	93.17
2pwq_A	216	Ubiquitin conjugating enzyme; structural genomics	93.12
2dhy_A	67	CUE domain-containing protein 1; structural genomi	93.11
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	93.11
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	93.06
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	93.03
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	92.87
1tr8_A	102	Conserved protein (MTH177); chaperones, nascent po	92.8
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	92.71
2l6j_A	111	TPR repeat-containing protein associated with HSP;	92.7
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	92.64
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	92.62
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	92.47
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	92.37
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	92.27
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	92.21
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	92.2
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	91.99
1tte_A	215	Ubiquitin-conjugating enzyme E2-24 kDa; UBC1, ubiq	91.94
1v92_A	46	NSFL1 cofactor P47; 3-helix bundle, recombination;	91.54
4g1t_A	472	Interferon-induced protein with tetratricopeptide	91.53
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	91.52
1tte_A	215	Ubiquitin-conjugating enzyme E2-24 kDa; UBC1, ubiq	91.46
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	91.45
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	91.44
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	91.33
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	91.09
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	91.02
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	90.85
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	90.52
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	90.41
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	90.09
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	90.04
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	90.04
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	89.71
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	89.63
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	89.45
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	89.42
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	89.37
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	89.36
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	89.28
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	89.26
1ixs_A	62	Holliday junction DNA helicase RUVA; heterodimeric	88.93
2dal_A	62	Protein KIAA0794; FAS associted factor 1, UBA-like	88.9
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	88.8
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	88.53
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	88.47
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	88.46
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	88.42
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	88.28
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	88.25
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	88.09
3u4t_A	272	TPR repeat-containing protein; structural genomics	87.99
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	87.96
2dzl_A	66	Protein FAM100B; UBA-like domain, structural genom	87.82
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	87.71
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	87.58
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	87.07
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	87.05
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	86.85
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	85.9
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	85.72
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	85.49
1p3q_Q	54	VPS9P, vacuolar protein sorting-associated protein	85.4
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	85.06
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	84.74
4fp9_B	335	Mterf domain-containing protein 2; modification en	84.37
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	83.73
1v92_A	46	NSFL1 cofactor P47; 3-helix bundle, recombination;	83.08
2gw1_A	514	Mitochondrial precursor proteins import receptor;	82.41
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	82.27
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	81.74
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	80.94
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	80.81
1ixs_A	62	Holliday junction DNA helicase RUVA; heterodimeric	80.59
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	80.37
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	80.19

>2lbc_A Ubiquitin carboxyl-terminal hydrolase 13; tandem UBA of USP13; NMR {Homo sapiens}

Probab=99.89  E-value=4.1e-23  Score=168.50  Aligned_cols=104  Identities=20%  Similarity=0.334  Sum_probs=83.9

Q ss_pred             CChhhHhhHHhCCCCHHHHHHHHHHhCC-CHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHhhcCCCC--CC-------
Q 024447          143 VPDESLSLVMSMGFKEQDAKRALRICSQ-DVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTP--LK-------  212 (267)
Q Consensus       143 vd~~~l~~L~~MGF~~~~Ar~ALr~~~g-dve~A~~wL~~~~~d~~~~~~~~~e~~~~~~~~~~~~~~~--~~-------  212 (267)
                      +|++.|++|++|||++..|++||+.|+| |++.|++||++|+++++...+      .   ....+..+.  ..       
T Consensus         2 ~d~~~l~~L~~MGF~~~~a~~AL~~t~n~~~e~A~~wL~~~~~d~di~ep------l---~~~~~~s~~~~~~~~l~~~~   72 (126)
T 2lbc_A            2 IDESSVMQLAEMGFPLEACRKAVYFTGNMGAEVAFNWIIVHMEEPDFAEP------L---TMPGYGGAASAGASVFGASG   72 (126)
T ss_dssp             CCTHHHHHHHTTSSCCHHHHHHHHHHTSCCHHHHHHHHHHGGGCSSSSCT------T---CCSSCCSSSSSCCCCSTTSS
T ss_pred             CCHHHHHHHHHcCCCHHHHHHHHHHcCCCCHHHHHHHHHHhccccccccc------c---cccccccccccchhhhcccc
Confidence            6899999999999999999999999976 899999999999998754211      0   000111111  00       


Q ss_pred             -Cc-CCHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHh-ccCCC
Q 024447          213 -KA-VDIEKIKELVSIGFEKELVAEALRRNENDSQKALDD-LTNPE  255 (267)
Q Consensus       213 -~~-vd~e~v~~L~~MGF~~~~A~~ALr~t~ndve~Aldl-L~~pd  255 (267)
                       .+ ++++.|.+|++|||+++.|++||+.|+||+++|++| ++|++
T Consensus        73 ~~~~~~e~~v~~L~~MGF~~~~a~~AL~~~~~~~e~A~e~L~~~~~  118 (126)
T 2lbc_A           73 LDNQPPEEIVAIITSMGFQRNQAIQALRATNNNLERALDWIFSHPE  118 (126)
T ss_dssp             CCCCCCHHHHHHHHHHTSCHHHHHHHHHHHTSCHHHHHHHHHTCCS
T ss_pred             cccCcCHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHHhCCC
Confidence             23 899999999999999999999999999999999995 56777

>4ae4_A Ubiquitin-associated protein 1; protein transport, endosomal sorting, tetherin, VPU, HIV-1, monoubiquitin; HET: NHE; 1.65A {Homo sapiens} PDB: 4ae4_B*

Probab=99.89  E-value=2.6e-23  Score=168.67  Aligned_cols=103  Identities=19%  Similarity=0.282  Sum_probs=80.6

Q ss_pred             ChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhhh--hhhhhhhhhHHHHHHHHHHhhcCCCCCCCcCCHHHHH
Q 024447          144 PDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKA--KRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIK  221 (267)
Q Consensus       144 d~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~~--d~~~~~~~~~e~~~~~~~~~~~~~~~~~~~vd~e~v~  221 (267)
                      +.+.|++|++||||+..|++||+.||||+++|++||++|++  ++.... .+.+.+.+     .++.+....++++++|+
T Consensus         8 e~~~v~~l~~MGFp~~~~~kAl~~~g~~~e~amewL~~h~~L~d~~~d~-~~~e~~l~-----~~~~~~~~~~~~~~~v~   81 (118)
T 4ae4_A            8 ERQCVETVVNMGYSYECVLRAMKAAGANIEQILDYLFAHGQLCEKGFDP-LLVEEALE-----MHQCSEEKMMEFLQLMS   81 (118)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHCSCHHHHHHHHHHHHHHHHTTCCH-HHHHHHHH-----HCSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHCcCHHHHHHHHHHhchhcccCCCh-hhhHHHHH-----hccCCccccccCHHHHH
Confidence            34789999999999999999999999999999999999973  221110 01122222     12222333567899999


Q ss_pred             HHHhCCCCHHHHHHHHHHcCCCHHHHHHhcc
Q 024447          222 ELVSIGFEKELVAEALRRNENDSQKALDDLT  252 (267)
Q Consensus       222 ~L~~MGF~~~~A~~ALr~t~ndve~AldlL~  252 (267)
                      +|++|||++++|++||+.|+||+++|+|||.
T Consensus        82 ~L~eMGF~~~~a~~AL~~~~nd~erAlewL~  112 (118)
T 4ae4_A           82 KFKEMGFELKDIKEVLLLHNNDQDNALEDLM  112 (118)
T ss_dssp             HHHHTTCCHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHcCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            9999999999999999999999999999875

>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=99.56  E-value=7e-16  Score=146.19  Aligned_cols=115  Identities=20%  Similarity=0.252  Sum_probs=81.9

Q ss_pred             CChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhhhhhhh----------------------------------
Q 024447          143 VPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAKRVK----------------------------------  188 (267)
Q Consensus       143 vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~~d~~~----------------------------------  188 (267)
                      .+++.|++|++|||++.+|++||++++||+++|++||++++.+...                                  
T Consensus       167 ~~~~~i~~l~~MGf~~~~~~~AL~a~~nn~~~A~e~L~~gip~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~Lr~~pqf  246 (368)
T 1oqy_A          167 EYETMLTEIMSMGYERERVVAALRASYNNPHRAVEYLLTGIPGSPEPEHGSVQESQVSEQPATEAAGENPLEFLRDQPQF  246 (368)
T ss_dssp             THHHHHHHHHTTTCCSHHHHHHHHHSCSSTTHHHHTTTTSSTTCSSCCCCCCCCCCSSCCCCSSCCSCCTTHHHHHSHHH
T ss_pred             chHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHHhCCCcccccccCCccccccccccCccccccchHHHHhcChHH
Confidence            3678999999999999999999999999999999999998765310                                  


Q ss_pred             --------------------hhhhhH----------HHHHH-HHHHhhc-CCC-------------C------CCCcCCH
Q 024447          189 --------------------EREDNE----------QRRKE-IMEQKRY-GLT-------------P------LKKAVDI  217 (267)
Q Consensus       189 --------------------~~~~~~----------e~~~~-~~~~~~~-~~~-------------~------~~~~vd~  217 (267)
                                          +.+.++          +.... +.++... +..             .      .-...+.
T Consensus       247 ~~lR~~vq~nP~~l~~~lq~l~~~nP~l~~~I~~n~~~Fl~~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~t~ee~  326 (368)
T 1oqy_A          247 QNMRQVIQQNPALLPALLQQLGQENPQLLQQISRHQEQFIQMLNEPPGELADISDVEGEVGAIGEEAPQMNYIQVTPQEK  326 (368)
T ss_dssp             HHHHHSTTTCTTHHHHHHTTTTTTCHHHHHHHHHHHHHHHHHHHSCCCCSCSSCCCSSSSCCCSCCCTTCSSCCCCTTTH
T ss_pred             HHHHHHHHhChHHHHHHHHHHHhhCHHHHHHHHHCHHHHHHHHcCcccccccccccccccccccccCCccccccCCCcCH
Confidence                                000000          00000 0000000 000             0      0113488


Q ss_pred             HHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHh-ccCCCcc
Q 024447          218 EKIKELVSIGFEKELVAEALRRNENDSQKALDD-LTNPESN  257 (267)
Q Consensus       218 e~v~~L~~MGF~~~~A~~ALr~t~ndve~Aldl-L~~pd~~  257 (267)
                      +.|++|++|||++.+|++||+.|+||+++|++| |+|+++.
T Consensus       327 eaI~rL~~mGF~~~~a~~al~a~~~n~e~A~~~L~~~~~d~  367 (368)
T 1oqy_A          327 EAIERLKALGFPESLVIQAYFACEKNENLAANFLLSQNFDD  367 (368)
T ss_dssp             HHHHHHHHHTCCSHHHHHHTSSSSSCSSHHHHHHHHHHCCC
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHhhCcCcC
Confidence            999999999999999999999999999999995 5677753

>1wiv_A UBP14, ubiquitin-specific protease 14; ubiquitin associated domain, UBA domain, three helix bundle, structural genomics; NMR {Arabidopsis thaliana} SCOP: a.5.2.1

Probab=99.54  E-value=4.7e-16  Score=116.05  Aligned_cols=69  Identities=20%  Similarity=0.290  Sum_probs=56.5

Q ss_pred             HHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHhhcCCCCCCCcCCHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHH-hc
Q 024447          173 GSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRNENDSQKALD-DL  251 (267)
Q Consensus       173 e~A~~wL~~~~~d~~~~~~~~~e~~~~~~~~~~~~~~~~~~~vd~e~v~~L~~MGF~~~~A~~ALr~t~ndve~Ald-lL  251 (267)
                      +.|++||++|++|++...+            .    +.....|++++|++|++|||++.+|++||+.|+||+++|++ +|
T Consensus         2 ~~am~wl~~h~dDpd~d~p------------l----~~~~~~~~~~~v~~L~~MGF~~~~a~~AL~~t~~nve~Ave~L~   65 (73)
T 1wiv_A            2 SSGSSGLLSHMDDPDIDAP------------I----SHQTSDIDQSSVDTLLSFGFAEDVARKALKASGGDIEKATDWVF   65 (73)
T ss_dssp             CCCCCCCSSCCSCSCSSCC------------S----CCSSCSSCHHHHHHHHHHTCCHHHHHHHHHHTTSCHHHHHHHHH
T ss_pred             hHHHHHHHHcCCCCCccCC------------C----CCCCCCCCHHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHH
Confidence            4589999999999975421            1    11134589999999999999999999999999999999999 56


Q ss_pred             cCCCcc
Q 024447          252 TNPESN  257 (267)
Q Consensus       252 ~~pd~~  257 (267)
                      +||++.
T Consensus        66 ~~~~d~   71 (73)
T 1wiv_A           66 NNSGPS   71 (73)
T ss_dssp             HSCCSS
T ss_pred             hCCCCC
Confidence            788764

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

Probab=99.53  E-value=9.6e-15  Score=151.04  Aligned_cols=111  Identities=14%  Similarity=0.230  Sum_probs=83.9

Q ss_pred             cCCCChhhHhhHHhCCCCHHHHHHHHHHhCC-CHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHhhcCCCCC---CCcC
Q 024447          140 QLQVPDESLSLVMSMGFKEQDAKRALRICSQ-DVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPL---KKAV  215 (267)
Q Consensus       140 ~l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~g-dve~A~~wL~~~~~d~~~~~~~~~e~~~~~~~~~~~~~~~~---~~~v  215 (267)
                      .+.+|++.+++|++|||++..|++|+.+++| +++.|++||++|++|++...+-....        ..+.++.   ...+
T Consensus       648 ~~~~d~~~l~~L~~mGf~~~~~~kal~~t~n~~~e~a~~wl~~hmdd~di~~p~~~~~--------~~~~~s~~~~~~~~  719 (854)
T 3ihp_A          648 APMLDESVIIQLVEMGFPMDACRKAVYYTGNSGAEAAMNWVMSHMDDPDFANPLILPG--------SSGPGSTSAAADPP  719 (854)
T ss_dssp             -----CHHHHHHHHHTCCHHHHHHHHHHTTSCCHHHHHHHHHHHTTSCGGGSCCCCC----------------------C
T ss_pred             ccCcCHHHHHHHHhcCCCHHHHHHHHhhcCCCchHHHhHHHhhccCcccccccccccc--------cccccccccccCCC
Confidence            4567889999999999999999999999977 69999999999999987543211000        0001111   1357


Q ss_pred             CHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHH-hccCCCcch
Q 024447          216 DIEKIKELVSIGFEKELVAEALRRNENDSQKALD-DLTNPESNS  258 (267)
Q Consensus       216 d~e~v~~L~~MGF~~~~A~~ALr~t~ndve~Ald-lL~~pd~~~  258 (267)
                      +++.|.+|.+|||+.++|++||+.++||+++|++ +++||++..
T Consensus       720 ~~e~i~~l~~mGf~~~~a~~aL~~t~~~~eraidwlfs~~d~~~  763 (854)
T 3ihp_A          720 PEDCVTTIVSMGFSRDQALKALRATNNSLERAVDWIFSHIDDLD  763 (854)
T ss_dssp             CHHHHHHHHTTTCCHHHHHHHHHHTTTCHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHcCCCHHHHHHHHHhhcCcHHHHHHhhhcCccccc
Confidence            9999999999999999999999999999999999 567887654

>1wiv_A UBP14, ubiquitin-specific protease 14; ubiquitin associated domain, UBA domain, three helix bundle, structural genomics; NMR {Arabidopsis thaliana} SCOP: a.5.2.1

Probab=99.48  E-value=7.3e-15  Score=109.57  Aligned_cols=66  Identities=20%  Similarity=0.277  Sum_probs=57.4

Q ss_pred             HhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhhhhh
Q 024447          115 GVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAKR  186 (267)
Q Consensus       115 g~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~~d~  186 (267)
                      .|+.-|+.+++...++..      ....+++++|++|++|||++.+|++||++|+||+++|++||++|++++
T Consensus         6 ~wl~~h~dDpd~d~pl~~------~~~~~~~~~v~~L~~MGF~~~~a~~AL~~t~~nve~Ave~L~~~~~d~   71 (73)
T 1wiv_A            6 SGLLSHMDDPDIDAPISH------QTSDIDQSSVDTLLSFGFAEDVARKALKASGGDIEKATDWVFNNSGPS   71 (73)
T ss_dssp             CCCSSCCSCSCSSCCSCC------SSCSSCHHHHHHHHHHTCCHHHHHHHHHHTTSCHHHHHHHHHHSCCSS
T ss_pred             HHHHHcCCCCCccCCCCC------CCCCCCHHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHHhCCCCC
Confidence            789999999887766433      123579999999999999999999999999999999999999998764

>1wgn_A UBAP1, ubiquitin associated protein; ubiquitin associated protein 1 (UBAP1), UBA domain, structural genomics; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=99.44  E-value=5.4e-14  Score=100.89  Aligned_cols=42  Identities=17%  Similarity=0.385  Sum_probs=39.2

Q ss_pred             ChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhhhh
Q 024447          144 PDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAK  185 (267)
Q Consensus       144 d~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~~d  185 (267)
                      .++.|++|++|||++++|++||++|+||||+|++|||+|++-
T Consensus        19 e~e~V~~LvsMGFs~~qA~kALKat~~NvErAaDWLFSH~D~   60 (63)
T 1wgn_A           19 ERQCVETVVNMGYSYECVLRAMKKKGENIEQILDYLFAHSGP   60 (63)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHCSCHHHHHHHHHHHSCC
T ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHHhCCCC
Confidence            457899999999999999999999999999999999999853

>2cpw_A CBL-interacting protein STS-1 variant; ubiquitin associated domain, UBA, compact three helix bundle, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=99.40  E-value=9.5e-14  Score=101.03  Aligned_cols=49  Identities=24%  Similarity=0.339  Sum_probs=44.2

Q ss_pred             hccCCCChhhHhhHHhCCCCHHHHHHHHHHhCC-CHHHHHHHHHhhhhhhh
Q 024447          138 FFQLQVPDESLSLVMSMGFKEQDAKRALRICSQ-DVGSAIDFLVEEKAKRV  187 (267)
Q Consensus       138 ~~~l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~g-dve~A~~wL~~~~~d~~  187 (267)
                      +.++ ++++.|++|++|||++.+|++||++|+| |++.|++||++|+++++
T Consensus        14 ya~~-~~e~~i~~L~~MGF~~~~a~~AL~~t~~~nve~A~ewL~~~~~d~d   63 (64)
T 2cpw_A           14 PGTI-KHGSALDVLLSMGFPRARAQKALASTGGRSVQTACDWLFSHSGPSS   63 (64)
T ss_dssp             SCSS-SCCCHHHHHHHHTCCHHHHHHHHHHTTTSCHHHHHHHHHSCCSCCC
T ss_pred             cccc-CCHHHHHHHHHcCCCHHHHHHHHHHcCCCCHHHHHHHHHhCCCCCC
Confidence            3344 7889999999999999999999999998 99999999999998764

>1whc_A RSGI RUH-027, UBA/UBX 33.3 kDa protein; UBA domain, structural genomics, riken structural genomics/proteomics initiative, unknown function; NMR {Mus musculus} SCOP: a.5.2.1

Probab=99.38  E-value=2.7e-13  Score=98.59  Aligned_cols=48  Identities=25%  Similarity=0.395  Sum_probs=44.5

Q ss_pred             CCCChhhHhhHHhCCCCHHHHHHHHHHh-CCCHHHHHHHHHhhhhhhhh
Q 024447          141 LQVPDESLSLVMSMGFKEQDAKRALRIC-SQDVGSAIDFLVEEKAKRVK  188 (267)
Q Consensus       141 l~vd~~~l~~L~~MGF~~~~Ar~ALr~~-~gdve~A~~wL~~~~~d~~~  188 (267)
                      ..++++.|++|++|||++.+|++||++| +||++.|++||++|+++++.
T Consensus         6 ~~~~~~~v~~L~~MGF~~~~a~~AL~~t~~~nve~A~ewLl~~~~d~d~   54 (64)
T 1whc_A            6 SGAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDV   54 (64)
T ss_dssp             CCCCCCHHHHHHTTTCCHHHHHHHHHHHTSCCHHHHHHHHHHHTTCSCT
T ss_pred             CCCCHHHHHHHHHcCCCHHHHHHHHHHhcCCCHHHHHHHHHhCCCCccc
Confidence            4679999999999999999999999999 68999999999999988764

>2crn_A Ubash3A protein; compact three-helix bundle, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=99.37  E-value=2.9e-13  Score=98.51  Aligned_cols=49  Identities=18%  Similarity=0.250  Sum_probs=45.0

Q ss_pred             CCCChhhHhhHHhCCCCHHHHHHHHHHhCC-CHHHHHHHHHhhhhhhhhh
Q 024447          141 LQVPDESLSLVMSMGFKEQDAKRALRICSQ-DVGSAIDFLVEEKAKRVKE  189 (267)
Q Consensus       141 l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~g-dve~A~~wL~~~~~d~~~~  189 (267)
                      -.++++.|++|++|||++..|++||++|+| |++.|++||++|++|++..
T Consensus         6 ~~~~e~~v~~L~~MGF~~~~a~~AL~~t~n~~~e~A~~wL~~h~~d~d~d   55 (64)
T 2crn_A            6 SGSSPSLLEPLLAMGFPVHTALKALAATGRKTAEEALAWLHDHCNDPSLD   55 (64)
T ss_dssp             CCCSCSSHHHHHHTSCCHHHHHHHHHHHTSCCHHHHHHHHHHHSSSTTSC
T ss_pred             CCCCHHHHHHHHHcCCCHHHHHHHHHHhCCCCHHHHHHHHHhCCCCcccc
Confidence            456889999999999999999999999988 9999999999999988653

>2dag_A Ubiquitin carboxyl-terminal hydrolase 5; isopeptidase T, ubiquitin specific protease 5 (USP 5), UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.35  E-value=6.6e-13  Score=99.20  Aligned_cols=49  Identities=10%  Similarity=0.232  Sum_probs=45.1

Q ss_pred             CCCChhhHhhHHhCCCCHHHHHHHHHHhCC-CHHHHHHHHHhhhhhhhhh
Q 024447          141 LQVPDESLSLVMSMGFKEQDAKRALRICSQ-DVGSAIDFLVEEKAKRVKE  189 (267)
Q Consensus       141 l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~g-dve~A~~wL~~~~~d~~~~  189 (267)
                      ..++++.|++|++|||++.+|++||++|+| |+++|++||++|+++++..
T Consensus         6 ~~~~e~~v~~L~~MGF~~~~a~~AL~~t~n~~ve~A~ewL~~~~~d~d~d   55 (74)
T 2dag_A            6 SGLDESVIIQLVEMGFPMDACRKAVYYTGNSGAEAAMNWVMSHMDDPDFA   55 (74)
T ss_dssp             CSSCHHHHHHHHHHSCCHHHHHHHHHHHTSCCHHHHHHHHHHHTTSTTSS
T ss_pred             CCCCHHHHHHHHHcCCCHHHHHHHHHHhCCCCHHHHHHHHHhCCCCcccc
Confidence            457999999999999999999999999997 8999999999999988643

>2dak_A Ubiquitin carboxyl-terminal hydrolase 5; isopeptidase T, ubiquitin specific protease 5, USP 5, UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.35  E-value=4.8e-13  Score=96.79  Aligned_cols=47  Identities=23%  Similarity=0.462  Sum_probs=44.1

Q ss_pred             CCChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhhhhhhh
Q 024447          142 QVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAKRVK  188 (267)
Q Consensus       142 ~vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~~d~~~  188 (267)
                      .++++.|.+|++|||++.+|++||++|+||+++|++||++|+++++.
T Consensus         7 ~~~~~~v~~L~~MGF~~~~a~~AL~~t~~nve~A~e~L~~~~~d~d~   53 (63)
T 2dak_A            7 GPPEDCVTTIVSMGFSRDQALKALRATNNSLERAVDWIFSHIDDLDA   53 (63)
T ss_dssp             CCCHHHHHHHHHHTCCHHHHHHHHHHTTSCSHHHHHHHHHHHHSCCS
T ss_pred             CCCHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHHhCCCCccc
Confidence            46899999999999999999999999999999999999999988754

>2g3q_A Protein YBL047C; endocytosis, solution structure, UBA domain, endocytosis/signaling protein complex; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.1

Probab=99.34  E-value=5.8e-13  Score=89.16  Aligned_cols=40  Identities=30%  Similarity=0.556  Sum_probs=37.8

Q ss_pred             CChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhh
Q 024447          143 VPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEE  182 (267)
Q Consensus       143 vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~  182 (267)
                      +++++|++|++|||++.+|++||++|+||++.|++||++|
T Consensus         3 p~e~~i~~L~~MGF~~~~a~~AL~~~~~n~e~A~~~L~~~   42 (43)
T 2g3q_A            3 PKSLAVEELSGMGFTEEEAHNALEKCNWDLEAATNFLLDS   42 (43)
T ss_dssp             HHHHHHHHHHTTTSCHHHHHHHHHHHTSCHHHHHHHHHTC
T ss_pred             CCHHHHHHHHHcCCCHHHHHHHHHHhCcCHHHHHHHHHcC
Confidence            4678999999999999999999999999999999999986

>2dai_A Ubadc1, ubiquitin associated domain containing 1; UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.33  E-value=1e-12  Score=100.31  Aligned_cols=49  Identities=27%  Similarity=0.461  Sum_probs=45.2

Q ss_pred             CCCChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhhhhhhhh
Q 024447          141 LQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAKRVKE  189 (267)
Q Consensus       141 l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~~d~~~~  189 (267)
                      ..++++.|++|++|||++.+|++||++|+||++.|++||++|+++++..
T Consensus        26 ~~~~e~~i~~L~~MGF~~~~a~~AL~~t~~nve~A~ewL~~~~~d~d~d   74 (83)
T 2dai_A           26 ERVDEAALRQLTEMGFPENRATKALQLNHMSVPQAMEWLIEHAEDPTID   74 (83)
T ss_dssp             SSCCHHHHHHHHHHTCCHHHHHHHHHHTTSCHHHHHHHHHHGGGCSTTC
T ss_pred             CCCCHHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHHHCCCCcccc
Confidence            3479999999999999999999999999999999999999999987643

>2lbc_A Ubiquitin carboxyl-terminal hydrolase 13; tandem UBA of USP13; NMR {Homo sapiens}

Probab=99.29  E-value=1.3e-12  Score=106.16  Aligned_cols=81  Identities=22%  Similarity=0.308  Sum_probs=60.5

Q ss_pred             cCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHh-hHhhh---c--------cCCCChhhHhhHHhCCCCHHHHHHHH
Q 024447           98 AGRHPELALHLRMELLEGVAAYHSGQFDKARNALTS-AQAKF---F--------QLQVPDESLSLVMSMGFKEQDAKRAL  165 (267)
Q Consensus        98 g~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~-a~~~~---~--------~l~vd~~~l~~L~~MGF~~~~Ar~AL  165 (267)
                      |+.+.|.++        .|+..|+.+.+...+.... ..+..   .        .+.++++.|.+|++|||++.+|++||
T Consensus        28 ~n~~~e~A~--------~wL~~~~~d~di~epl~~~~~~s~~~~~~~~l~~~~~~~~~~e~~v~~L~~MGF~~~~a~~AL   99 (126)
T 2lbc_A           28 GNMGAEVAF--------NWIIVHMEEPDFAEPLTMPGYGGAASAGASVFGASGLDNQPPEEIVAIITSMGFQRNQAIQAL   99 (126)
T ss_dssp             TSCCHHHHH--------HHHHHGGGCSSSSCTTCCSSCCSSSSSCCCCSTTSSCCCCCCHHHHHHHHHHTSCHHHHHHHH
T ss_pred             CCCCHHHHH--------HHHHHhcccccccccccccccccccccchhhhcccccccCcCHHHHHHHHHcCCCHHHHHHHH
Confidence            556677777        8888887665543322110 00000   1        34589999999999999999999999


Q ss_pred             HHhCCCHHHHHHHHHhhhh-hh
Q 024447          166 RICSQDVGSAIDFLVEEKA-KR  186 (267)
Q Consensus       166 r~~~gdve~A~~wL~~~~~-d~  186 (267)
                      ++|+||+++|++||++|++ |+
T Consensus       100 ~~~~~~~e~A~e~L~~~~~~d~  121 (126)
T 2lbc_A          100 RATNNNLERALDWIFSHPEFEE  121 (126)
T ss_dssp             HHHTSCHHHHHHHHHTCCSSCC
T ss_pred             HHcCCCHHHHHHHHHhCCCCcc
Confidence            9999999999999999998 54

>2ekk_A UBA domain from E3 ubiquitin-protein ligase HUWE1; ubiquitin associated domain, compact three helix bundle, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.29  E-value=1.9e-12  Score=88.39  Aligned_cols=42  Identities=29%  Similarity=0.418  Sum_probs=39.2

Q ss_pred             CCCChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447          141 LQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEK  183 (267)
Q Consensus       141 l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~  183 (267)
                      ..++++.|.+|++|||++.+|++||++|+ |+++|++||++|+
T Consensus         6 ~~~~~~~v~~L~~MGF~~~~a~~AL~~~~-n~e~A~~~L~~h~   47 (47)
T 2ekk_A            6 SGVNQQQLQQLMDMGFTREHAMEALLNTS-TMEQATEYLLTHP   47 (47)
T ss_dssp             CSSCHHHHHHHHHHHCCHHHHHHHHHHSC-SHHHHHHHHHTCC
T ss_pred             CCCCHHHHHHHHHcCCCHHHHHHHHHHcC-CHHHHHHHHHcCC
Confidence            46799999999999999999999999995 9999999999985

>1wji_A Tudor domain containing protein 3; UBA domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=99.27  E-value=3.9e-12  Score=92.22  Aligned_cols=45  Identities=20%  Similarity=0.446  Sum_probs=41.8

Q ss_pred             CCChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhhhhh
Q 024447          142 QVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAKR  186 (267)
Q Consensus       142 ~vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~~d~  186 (267)
                      .+++++|++|++|||++.+|++||++|+||+++|++||++|.++.
T Consensus         7 ~~~~~~I~~L~~MGF~~~~a~~AL~~~~~nve~A~e~L~~~~~~~   51 (63)
T 1wji_A            7 GVDEKALKHITEMGFSKEASRQALMDNGNNLEAALNVLLTSNKQK   51 (63)
T ss_dssp             SSCHHHHHHHHTTTCCHHHHHHHHHHTTSCHHHHHHHHHHHSSCC
T ss_pred             CCCHHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHHHCCCCc
Confidence            368899999999999999999999999999999999999997654

>1wgn_A UBAP1, ubiquitin associated protein; ubiquitin associated protein 1 (UBAP1), UBA domain, structural genomics; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=99.27  E-value=1.8e-12  Score=93.08  Aligned_cols=40  Identities=18%  Similarity=0.390  Sum_probs=36.8

Q ss_pred             HHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHH-hccCCCc
Q 024447          217 IEKIKELVSIGFEKELVAEALRRNENDSQKALD-DLTNPES  256 (267)
Q Consensus       217 ~e~v~~L~~MGF~~~~A~~ALr~t~ndve~Ald-lL~~pd~  256 (267)
                      ++.|.+|++|||++++|++|||+|+||+++|+| +|+|||-
T Consensus        20 ~e~V~~LvsMGFs~~qA~kALKat~~NvErAaDWLFSH~D~   60 (63)
T 1wgn_A           20 RQCVETVVNMGYSYECVLRAMKKKGENIEQILDYLFAHSGP   60 (63)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHCSCHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHHhCCCC
Confidence            477999999999999999999999999999999 5678875

>1vek_A UBP14, ubiquitin-specific protease 14, putative; UBA domain, three helix bundle, ubiquitin associated domain, structural genomics; NMR {Arabidopsis thaliana} SCOP: a.5.2.1

Probab=99.25  E-value=4.9e-12  Score=96.62  Aligned_cols=50  Identities=22%  Similarity=0.307  Sum_probs=45.6

Q ss_pred             cCCCChhhHhhHHhCCCCHHHHHHHHHHhC-CCHHHHHHHHHhhhhhhhhh
Q 024447          140 QLQVPDESLSLVMSMGFKEQDAKRALRICS-QDVGSAIDFLVEEKAKRVKE  189 (267)
Q Consensus       140 ~l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~-gdve~A~~wL~~~~~d~~~~  189 (267)
                      ...++++.|++|++|||++.+|++||++++ +|++.|++||++|+++++..
T Consensus        25 ~~~~~e~~v~~L~~MGF~~~~a~~AL~~t~n~n~e~A~ewL~~h~~d~d~d   75 (84)
T 1vek_A           25 QPVANEEIVAQLVSMGFSQLHCQKAAINTSNAGVEEAMNWLLSHMDDPDID   75 (84)
T ss_dssp             CCCCCHHHHHHHHHHTCCHHHHHHHHHHTTTCCHHHHHHHHHHHTTCSTTT
T ss_pred             CCCCCHHHHHHHHHcCCCHHHHHHHHHHHcCCCHHHHHHHHHhCCCccccc
Confidence            567899999999999999999999999996 69999999999999987643

>4ae4_A Ubiquitin-associated protein 1; protein transport, endosomal sorting, tetherin, VPU, HIV-1, monoubiquitin; HET: NHE; 1.65A {Homo sapiens} PDB: 4ae4_B*

Probab=99.25  E-value=6.1e-12  Score=101.77  Aligned_cols=89  Identities=20%  Similarity=0.145  Sum_probs=61.7

Q ss_pred             HhCCCHHHHH-HHH--cCCcchhhHHHHHHHHHHhhhhccC------CchhHhhhhHhhHhhhccCCCChhhHhhHHhCC
Q 024447           85 AHGKDSSRVR-LLQ--AGRHPELALHLRMELLEGVAAYHSG------QFDKARNALTSAQAKFFQLQVPDESLSLVMSMG  155 (267)
Q Consensus        85 ~yG~~~~rl~-~lk--g~~~~E~al~lRL~lLqg~v~~h~g------~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MG  155 (267)
                      ..|-+..|.. +|+  |+ ..|+++        .||.-|+.      +.+...+.+...+....+-.++++.|++|++||
T Consensus        17 ~MGFp~~~~~kAl~~~g~-~~e~am--------ewL~~h~~L~d~~~d~~~~e~~l~~~~~~~~~~~~~~~~v~~L~eMG   87 (118)
T 4ae4_A           17 NMGYSYECVLRAMKAAGA-NIEQIL--------DYLFAHGQLCEKGFDPLLVEEALEMHQCSEEKMMEFLQLMSKFKEMG   87 (118)
T ss_dssp             HTTCCHHHHHHHHHHHCS-CHHHHH--------HHHHHHHHHHHTTCCHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHTT
T ss_pred             HcCCCHHHHHHHHHHHCc-CHHHHH--------HHHHHhchhcccCCChhhhHHHHHhccCCccccccCHHHHHHHHHcC
Confidence            3566666654 444  77 899999        88888851      111222222211111111233678899999999


Q ss_pred             CCHHHHHHHHHHhCCCHHHHHHHHHhh
Q 024447          156 FKEQDAKRALRICSQDVGSAIDFLVEE  182 (267)
Q Consensus       156 F~~~~Ar~ALr~~~gdve~A~~wL~~~  182 (267)
                      |++..|++||+.|+||+++|++||+..
T Consensus        88 F~~~~a~~AL~~~~nd~erAlewL~~~  114 (118)
T 4ae4_A           88 FELKDIKEVLLLHNNDQDNALEDLMAR  114 (118)
T ss_dssp             CCHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHcCCCHHHHHHHHHHh
Confidence            999999999999999999999999875

>1ify_A HHR23A, UV excision repair protein RAD23 homolog A; ubiquitin associated domain, UBA domain, ubiquitin proteosome pathway, DNA binding protein; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=99.22  E-value=4.7e-12  Score=87.34  Aligned_cols=39  Identities=26%  Similarity=0.457  Sum_probs=37.1

Q ss_pred             ChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhh
Q 024447          144 PDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEE  182 (267)
Q Consensus       144 d~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~  182 (267)
                      ++++|++|++|||++.+|++||++|+||+++|++||+++
T Consensus         8 ~~~~i~~L~~MGF~~~~a~~AL~~~~~n~e~A~e~L~~g   46 (49)
T 1ify_A            8 YETMLTEIMSMGYERERVVAALRASYNNPHRAVEYLLTG   46 (49)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHTTTSCSHHHHHHHHHC
T ss_pred             CHHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHHhC
Confidence            567899999999999999999999999999999999986

>1veg_A NEDD8 ultimate buster-1; ubiquitin associated domain, UBA domain, three helix bundle, structural genomics; NMR {Mus musculus} SCOP: a.5.2.1

Probab=99.22  E-value=9.1e-12  Score=94.93  Aligned_cols=47  Identities=28%  Similarity=0.323  Sum_probs=43.2

Q ss_pred             cCCCChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhhhhh
Q 024447          140 QLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAKR  186 (267)
Q Consensus       140 ~l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~~d~  186 (267)
                      ...+++++|++|++|||++.+|++||++|+||+++|++||++|.++.
T Consensus        25 ~~~~~ee~I~~Lv~MGF~~~~A~~AL~~t~gdve~A~e~L~sh~~~i   71 (83)
T 1veg_A           25 QASPSQESINQLVYMGFDTVVAEAALRVFGGNVQLAAQTLAHHGGSL   71 (83)
T ss_dssp             SCCCCHHHHHHHHHHSCCHHHHHHHHHHTTTCHHHHHHHHHHHTSSC
T ss_pred             cCCCCHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHHhCCCCC
Confidence            34568999999999999999999999999999999999999998753

>1dv0_A DNA repair protein HHR23A; helical bundle, DNA binding protein; HET: DNA; NMR {Homo sapiens} SCOP: a.5.2.1 PDB: 1f4i_A

Probab=99.22  E-value=1.6e-12  Score=89.05  Aligned_cols=43  Identities=21%  Similarity=0.385  Sum_probs=40.8

Q ss_pred             ChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhhhhh
Q 024447          144 PDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAKR  186 (267)
Q Consensus       144 d~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~~d~  186 (267)
                      ++++|++|++|||++..|++||.+|++|++.|++|||+|++|+
T Consensus         4 e~eaI~rL~~mGF~~~~a~~Al~a~~~n~e~A~~~Lf~~~~d~   46 (47)
T 1dv0_A            4 EKEAIERLKALGFPESLVIQAYFACEKNENLAANFLLSQNFDD   46 (47)
T ss_dssp             CHHHHTTTTTTTCCHHHHHHHHTTTTSCHHHHHHHTTSCCCCC
T ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHHhCcCCC
Confidence            6789999999999999999999999999999999999999774

>2dkl_A Trinucleotide repeat containing 6C protein; TNRC6C, KIAA1582 protein, UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=99.14  E-value=1.5e-11  Score=94.25  Aligned_cols=45  Identities=22%  Similarity=0.353  Sum_probs=42.5

Q ss_pred             CChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhhhhhh
Q 024447          143 VPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAKRV  187 (267)
Q Consensus       143 vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~~d~~  187 (267)
                      +|+++|.+|++|||++.+|++||+.+++|++.|++||++|+++++
T Consensus        20 ~n~~~I~qL~~MGF~~~~a~~AL~~~n~n~e~A~ewL~~h~~D~D   64 (85)
T 2dkl_A           20 IMSRLIKQLTDMGFPREPAEEALKSNNMNLDQAMSALLEKKVDVD   64 (85)
T ss_dssp             HHHHHHHHHHHHTCCHHHHHHHHHHTTSCHHHHHHHHHTTSCCSS
T ss_pred             cCHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHHHCcCCcc
Confidence            578999999999999999999999999999999999999998875

>1vg5_A RSGI RUH-014, rhomboid family protein; UBA domain, cDNA, structural genomics, riken structural genomics/proteomics initiative; NMR {Arabidopsis thaliana} SCOP: a.5.2.1

Probab=99.12  E-value=5.1e-11  Score=88.77  Aligned_cols=43  Identities=21%  Similarity=0.465  Sum_probs=39.7

Q ss_pred             CCChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhhh
Q 024447          142 QVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKA  184 (267)
Q Consensus       142 ~vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~~  184 (267)
                      ...+++|++|++|||++.+|++||+.|+||+++|++||+++.+
T Consensus        27 ~~~ee~I~~L~eMGF~r~~a~~AL~~~~~nve~Ave~Ll~~~~   69 (73)
T 1vg5_A           27 AASEEQIQKLVAMGFDRTQVEVALAAADDDLTVAVEILMSQSG   69 (73)
T ss_dssp             CCCHHHHHHHHTTTCCHHHHHHHHHHHTSCHHHHHHHHHTCSC
T ss_pred             cccHHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHHHCCC
Confidence            3467999999999999999999999999999999999999864

>2knz_A Ubiquilin-4; cytoplasm, endoplasmic reticulum, nucleus, phosphoprotein, protein binding; NMR {Mus musculus}

Probab=99.12  E-value=5.6e-11  Score=83.18  Aligned_cols=38  Identities=29%  Similarity=0.439  Sum_probs=36.2

Q ss_pred             hhHhhHHhCCC-CHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447          146 ESLSLVMSMGF-KEQDAKRALRICSQDVGSAIDFLVEEK  183 (267)
Q Consensus       146 ~~l~~L~~MGF-~~~~Ar~ALr~~~gdve~A~~wL~~~~  183 (267)
                      ++|.+|++||| ++..|++||++|+||+++|++||++|.
T Consensus        13 ~~l~~L~~MGF~~~~~~~~AL~~t~gnve~Ave~L~~~~   51 (53)
T 2knz_A           13 QQLEQLNSMGFINREANLQALIATGGDINAAIERLLGSQ   51 (53)
T ss_dssp             HHHHHHHTTTCCCHHHHHHHHHHHTSCHHHHHHHHHHCC
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHhCCCHHHHHHHHHHcC
Confidence            57999999999 999999999999999999999999885

>2jy5_A Ubiquilin-1; UBA, alternative splicing, cytoplasm, nucleus, phosphoprotein, proteasome, signaling protein; NMR {Homo sapiens} PDB: 2jy6_B

Probab=99.12  E-value=4.4e-11  Score=83.42  Aligned_cols=40  Identities=25%  Similarity=0.379  Sum_probs=37.3

Q ss_pred             ChhhHhhHHhCCC-CHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447          144 PDESLSLVMSMGF-KEQDAKRALRICSQDVGSAIDFLVEEK  183 (267)
Q Consensus       144 d~~~l~~L~~MGF-~~~~Ar~ALr~~~gdve~A~~wL~~~~  183 (267)
                      .+++|.+|++||| ++..+++||++|+||+++|++||++|+
T Consensus        12 ~~~~l~~L~~MGF~~~~~~~~AL~~t~gn~e~A~e~L~~~~   52 (52)
T 2jy5_A           12 FQQQLEQLSAMGFLNREANLQALIATGGDINAAIERLLGSS   52 (52)
T ss_dssp             THHHHHHHHHTTCCCHHHHHHHHHHHTTCHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHhCCCHHHHHHHHHhCc
Confidence            4578999999999 999999999999999999999999874

>1z96_A DNA-damage, UBA-domain protein MUD1; ubiquitin, three-helix bundle, protein transport; 1.80A {Schizosaccharomyces pombe} SCOP: a.5.2.1

Probab=99.12  E-value=5.5e-11  Score=77.75  Aligned_cols=36  Identities=31%  Similarity=0.548  Sum_probs=34.2

Q ss_pred             hhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHH
Q 024447          145 DESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLV  180 (267)
Q Consensus       145 ~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~  180 (267)
                      ++.|++|++|||++.+|++||+.|+||++.|++||+
T Consensus         5 ~~~i~~L~~mGf~~~~a~~AL~~~~~n~e~A~~~L~   40 (40)
T 1z96_A            5 NSKIAQLVSMGFDPLEAAQALDAANGDLDVAASFLL   40 (40)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHTTTCHHHHHHHHC
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHC
Confidence            578999999999999999999999999999999984

>2ekk_A UBA domain from E3 ubiquitin-protein ligase HUWE1; ubiquitin associated domain, compact three helix bundle, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.09  E-value=1.1e-10  Score=79.57  Aligned_cols=41  Identities=29%  Similarity=0.545  Sum_probs=36.8

Q ss_pred             CcCCHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHh-ccCC
Q 024447          213 KAVDIEKIKELVSIGFEKELVAEALRRNENDSQKALDD-LTNP  254 (267)
Q Consensus       213 ~~vd~e~v~~L~~MGF~~~~A~~ALr~t~ndve~Aldl-L~~p  254 (267)
                      ..++++.|.+|++|||+++.|++||+.| ||+++|++| |.||
T Consensus         6 ~~~~~~~v~~L~~MGF~~~~a~~AL~~~-~n~e~A~~~L~~h~   47 (47)
T 2ekk_A            6 SGVNQQQLQQLMDMGFTREHAMEALLNT-STMEQATEYLLTHP   47 (47)
T ss_dssp             CSSCHHHHHHHHHHHCCHHHHHHHHHHS-CSHHHHHHHHHTCC
T ss_pred             CCCCHHHHHHHHHcCCCHHHHHHHHHHc-CCHHHHHHHHHcCC
Confidence            4589999999999999999999999999 599999995 5565

>2g3q_A Protein YBL047C; endocytosis, solution structure, UBA domain, endocytosis/signaling protein complex; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.1

Probab=99.09  E-value=7e-11  Score=78.94  Aligned_cols=38  Identities=26%  Similarity=0.296  Sum_probs=34.9

Q ss_pred             CCHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhcc
Q 024447          215 VDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDLT  252 (267)
Q Consensus       215 vd~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL~  252 (267)
                      |+++.|++|++|||+++.|++||+.++||+++|++||.
T Consensus         3 p~e~~i~~L~~MGF~~~~a~~AL~~~~~n~e~A~~~L~   40 (43)
T 2g3q_A            3 PKSLAVEELSGMGFTEEEAHNALEKCNWDLEAATNFLL   40 (43)
T ss_dssp             HHHHHHHHHHTTTSCHHHHHHHHHHHTSCHHHHHHHHH
T ss_pred             CCHHHHHHHHHcCCCHHHHHHHHHHhCcCHHHHHHHHH
Confidence            45688999999999999999999999999999999654

>1veg_A NEDD8 ultimate buster-1; ubiquitin associated domain, UBA domain, three helix bundle, structural genomics; NMR {Mus musculus} SCOP: a.5.2.1

Probab=99.08  E-value=8e-11  Score=89.73  Aligned_cols=49  Identities=24%  Similarity=0.257  Sum_probs=42.2

Q ss_pred             CcCCHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHH-hccCCC-cchhhh
Q 024447          213 KAVDIEKIKELVSIGFEKELVAEALRRNENDSQKALD-DLTNPE-SNSAIQ  261 (267)
Q Consensus       213 ~~vd~e~v~~L~~MGF~~~~A~~ALr~t~ndve~Ald-lL~~pd-~~~~l~  261 (267)
                      ..|+++.|++|++|||++.+|+.||+.|+||+++|++ +|+|++ ..+.+|
T Consensus        26 ~~~~ee~I~~Lv~MGF~~~~A~~AL~~t~gdve~A~e~L~sh~~~ip~~~~   76 (83)
T 1veg_A           26 ASPSQESINQLVYMGFDTVVAEAALRVFGGNVQLAAQTLAHHGGSLPPDLQ   76 (83)
T ss_dssp             CCCCHHHHHHHHHHSCCHHHHHHHHHHTTTCHHHHHHHHHHHTSSCCTTSS
T ss_pred             CCCCHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHHhCCCCCchhhh
Confidence            4578999999999999999999999999999999999 556776 444554

>2cpw_A CBL-interacting protein STS-1 variant; ubiquitin associated domain, UBA, compact three helix bundle, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=99.06  E-value=7.9e-11  Score=85.53  Aligned_cols=45  Identities=22%  Similarity=0.277  Sum_probs=40.2

Q ss_pred             cCCHHHHHHHHhCCCCHHHHHHHHHHcCC-CHHHHHH-hccCCCcch
Q 024447          214 AVDIEKIKELVSIGFEKELVAEALRRNEN-DSQKALD-DLTNPESNS  258 (267)
Q Consensus       214 ~vd~e~v~~L~~MGF~~~~A~~ALr~t~n-dve~Ald-lL~~pd~~~  258 (267)
                      .++++.|.+|++|||++..|++||+.|+| |+++|++ +|.|+++.+
T Consensus        17 ~~~e~~i~~L~~MGF~~~~a~~AL~~t~~~nve~A~ewL~~~~~d~d   63 (64)
T 2cpw_A           17 IKHGSALDVLLSMGFPRARAQKALASTGGRSVQTACDWLFSHSGPSS   63 (64)
T ss_dssp             SSCCCHHHHHHHHTCCHHHHHHHHHHTTTSCHHHHHHHHHSCCSCCC
T ss_pred             cCCHHHHHHHHHcCCCHHHHHHHHHHcCCCCHHHHHHHHHhCCCCCC
Confidence            37888999999999999999999999999 9999999 567887643

>1wji_A Tudor domain containing protein 3; UBA domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=99.04  E-value=2.1e-10  Score=83.06  Aligned_cols=43  Identities=35%  Similarity=0.499  Sum_probs=38.4

Q ss_pred             cCCHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhc-cCCCc
Q 024447          214 AVDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDL-TNPES  256 (267)
Q Consensus       214 ~vd~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL-~~pd~  256 (267)
                      .++++.|++|++|||++++|+.||+.|+||+++|++|| .|++.
T Consensus         7 ~~~~~~I~~L~~MGF~~~~a~~AL~~~~~nve~A~e~L~~~~~~   50 (63)
T 1wji_A            7 GVDEKALKHITEMGFSKEASRQALMDNGNNLEAALNVLLTSNKQ   50 (63)
T ss_dssp             SSCHHHHHHHHTTTCCHHHHHHHHHHTTSCHHHHHHHHHHHSSC
T ss_pred             CCCHHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHHHCCCC
Confidence            47999999999999999999999999999999999954 55543

>2dak_A Ubiquitin carboxyl-terminal hydrolase 5; isopeptidase T, ubiquitin specific protease 5, USP 5, UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.03  E-value=8.8e-11  Score=84.83  Aligned_cols=42  Identities=24%  Similarity=0.435  Sum_probs=38.1

Q ss_pred             cCCHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhc-cCCC
Q 024447          214 AVDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDL-TNPE  255 (267)
Q Consensus       214 ~vd~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL-~~pd  255 (267)
                      .++++.|.+|++|||+++.|++||+.|+||+++|++|| .|++
T Consensus         7 ~~~~~~v~~L~~MGF~~~~a~~AL~~t~~nve~A~e~L~~~~~   49 (63)
T 2dak_A            7 GPPEDCVTTIVSMGFSRDQALKALRATNNSLERAVDWIFSHID   49 (63)
T ss_dssp             CCCHHHHHHHHHHTCCHHHHHHHHHHTTSCSHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHHhCCC
Confidence            47999999999999999999999999999999999954 5544

>2dah_A Ubiquilin-3; UBA domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=99.01  E-value=2.3e-10  Score=80.53  Aligned_cols=42  Identities=26%  Similarity=0.323  Sum_probs=37.0

Q ss_pred             ChhhHhhHHhCCCCHHH-HHHHHHHhCCCHHHHHHHHHhhhhh
Q 024447          144 PDESLSLVMSMGFKEQD-AKRALRICSQDVGSAIDFLVEEKAK  185 (267)
Q Consensus       144 d~~~l~~L~~MGF~~~~-Ar~ALr~~~gdve~A~~wL~~~~~d  185 (267)
                      .++.|++|++|||+..+ +++||+.|+|||++|++||+++++.
T Consensus         9 ~~~~l~~L~~MGF~d~~~n~~AL~~~~Gdv~~Ave~L~~~~~~   51 (54)
T 2dah_A            9 FQVQLEQLRSMGFLNREANLQALIATGGDVDAAVEKLRQSSGP   51 (54)
T ss_dssp             SHHHHHHHHHHTCCCHHHHHHHHHHHTSCHHHHHHHHHHHSCS
T ss_pred             HHHHHHHHHHcCCCcHHHHHHHHHHcCCCHHHHHHHHHhCCCc
Confidence            36789999999996655 6999999999999999999999753

>2bwb_A Ubiquitin-like protein DSK2; UBA, signaling protein; 2.3A {Saccharomyces cerevisiae} SCOP: a.5.2.1 PDB: 2bwe_A

Probab=99.01  E-value=3.4e-10  Score=77.08  Aligned_cols=38  Identities=29%  Similarity=0.342  Sum_probs=34.3

Q ss_pred             hhhHhhHHhCCCC-HHHHHHHHHHhCCCHHHHHHHHHhh
Q 024447          145 DESLSLVMSMGFK-EQDAKRALRICSQDVGSAIDFLVEE  182 (267)
Q Consensus       145 ~~~l~~L~~MGF~-~~~Ar~ALr~~~gdve~A~~wL~~~  182 (267)
                      ++.|++|++|||+ +..+++||++++||+++|++||+++
T Consensus         8 ~~~i~~L~~MGF~d~~~~~~AL~~~~gnv~~Ave~L~~~   46 (46)
T 2bwb_A            8 EHQLRQLNDMGFFDFDRNVAALRRSGGSVQGALDSLLNG   46 (46)
T ss_dssp             HHHHHHHHHTTCCCHHHHHHHHHHHTTCHHHHHHHHHCC
T ss_pred             HHHHHHHHHcCCCcHHHHHHHHHHhCCCHHHHHHHHHcc
Confidence            5789999999996 6667999999999999999999874

>1vg5_A RSGI RUH-014, rhomboid family protein; UBA domain, cDNA, structural genomics, riken structural genomics/proteomics initiative; NMR {Arabidopsis thaliana} SCOP: a.5.2.1

Probab=99.00  E-value=6.2e-10  Score=82.93  Aligned_cols=43  Identities=30%  Similarity=0.465  Sum_probs=37.9

Q ss_pred             CcCCHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhc-cCCC
Q 024447          213 KAVDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDL-TNPE  255 (267)
Q Consensus       213 ~~vd~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL-~~pd  255 (267)
                      ..+..+.|++|++|||++++|+.||+.++||+++|+++| .|++
T Consensus        26 ~~~~ee~I~~L~eMGF~r~~a~~AL~~~~~nve~Ave~Ll~~~~   69 (73)
T 1vg5_A           26 VAASEEQIQKLVAMGFDRTQVEVALAAADDDLTVAVEILMSQSG   69 (73)
T ss_dssp             SCCCHHHHHHHHTTTCCHHHHHHHHHHHTSCHHHHHHHHHTCSC
T ss_pred             CcccHHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHHHCCC
Confidence            446789999999999999999999999999999999965 4543

>2jy5_A Ubiquilin-1; UBA, alternative splicing, cytoplasm, nucleus, phosphoprotein, proteasome, signaling protein; NMR {Homo sapiens} PDB: 2jy6_B

Probab=98.99  E-value=8.6e-10  Score=76.85  Aligned_cols=39  Identities=23%  Similarity=0.390  Sum_probs=35.4

Q ss_pred             CHHHHHHHHhCCC-CHHHHHHHHHHcCCCHHHHHHh-ccCC
Q 024447          216 DIEKIKELVSIGF-EKELVAEALRRNENDSQKALDD-LTNP  254 (267)
Q Consensus       216 d~e~v~~L~~MGF-~~~~A~~ALr~t~ndve~Aldl-L~~p  254 (267)
                      ..+.|.+|++||| +++.+++||+.|+||+++|+++ |+||
T Consensus        12 ~~~~l~~L~~MGF~~~~~~~~AL~~t~gn~e~A~e~L~~~~   52 (52)
T 2jy5_A           12 FQQQLEQLSAMGFLNREANLQALIATGGDINAAIERLLGSS   52 (52)
T ss_dssp             THHHHHHHHHTTCCCHHHHHHHHHHHTTCHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHhCCCHHHHHHHHHhCc
Confidence            4678999999999 9999999999999999999995 5565

>1whc_A RSGI RUH-027, UBA/UBX 33.3 kDa protein; UBA domain, structural genomics, riken structural genomics/proteomics initiative, unknown function; NMR {Mus musculus} SCOP: a.5.2.1

Probab=98.99  E-value=2.3e-10  Score=83.00  Aligned_cols=44  Identities=16%  Similarity=0.376  Sum_probs=38.7

Q ss_pred             cCCHHHHHHHHhCCCCHHHHHHHHHHc-CCCHHHHHHh-ccCCCcc
Q 024447          214 AVDIEKIKELVSIGFEKELVAEALRRN-ENDSQKALDD-LTNPESN  257 (267)
Q Consensus       214 ~vd~e~v~~L~~MGF~~~~A~~ALr~t-~ndve~Aldl-L~~pd~~  257 (267)
                      .++++.|.+|++|||++..|++||+.| +||+++|++| |.|+++.
T Consensus         7 ~~~~~~v~~L~~MGF~~~~a~~AL~~t~~~nve~A~ewLl~~~~d~   52 (64)
T 1whc_A            7 GAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDP   52 (64)
T ss_dssp             CCCCCHHHHHHTTTCCHHHHHHHHHHHTSCCHHHHHHHHHHHTTCS
T ss_pred             CCCHHHHHHHHHcCCCHHHHHHHHHHhcCCCHHHHHHHHHhCCCCc
Confidence            478889999999999999999999999 6999999995 5566653

>1ify_A HHR23A, UV excision repair protein RAD23 homolog A; ubiquitin associated domain, UBA domain, ubiquitin proteosome pathway, DNA binding protein; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=98.98  E-value=2.5e-10  Score=78.60  Aligned_cols=37  Identities=32%  Similarity=0.517  Sum_probs=34.2

Q ss_pred             CHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhcc
Q 024447          216 DIEKIKELVSIGFEKELVAEALRRNENDSQKALDDLT  252 (267)
Q Consensus       216 d~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL~  252 (267)
                      +.+.|++|++|||++++|+.||+.|+||+++|+++|.
T Consensus         8 ~~~~i~~L~~MGF~~~~a~~AL~~~~~n~e~A~e~L~   44 (49)
T 1ify_A            8 YETMLTEIMSMGYERERVVAALRASYNNPHRAVEYLL   44 (49)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHTTTSCSHHHHHHHH
T ss_pred             CHHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHH
Confidence            5678999999999999999999999999999999654

>2dag_A Ubiquitin carboxyl-terminal hydrolase 5; isopeptidase T, ubiquitin specific protease 5 (USP 5), UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.96  E-value=5.8e-10  Score=83.17  Aligned_cols=45  Identities=20%  Similarity=0.332  Sum_probs=39.2

Q ss_pred             CcCCHHHHHHHHhCCCCHHHHHHHHHHcCC-CHHHHHHh-ccCCCcc
Q 024447          213 KAVDIEKIKELVSIGFEKELVAEALRRNEN-DSQKALDD-LTNPESN  257 (267)
Q Consensus       213 ~~vd~e~v~~L~~MGF~~~~A~~ALr~t~n-dve~Aldl-L~~pd~~  257 (267)
                      ..++++.|.+|++|||++..|++||+.|+| |+++|++| |.|+++.
T Consensus         6 ~~~~e~~v~~L~~MGF~~~~a~~AL~~t~n~~ve~A~ewL~~~~~d~   52 (74)
T 2dag_A            6 SGLDESVIIQLVEMGFPMDACRKAVYYTGNSGAEAAMNWVMSHMDDP   52 (74)
T ss_dssp             CSSCHHHHHHHHHHSCCHHHHHHHHHHHTSCCHHHHHHHHHHHTTST
T ss_pred             CCCCHHHHHHHHHcCCCHHHHHHHHHHhCCCCHHHHHHHHHhCCCCc
Confidence            347999999999999999999999999997 89999995 5566543

>1wr1_B Ubiquitin-like protein DSK2; UBA domain, UBA-ubiquitin complex, signaling protein; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.1

Probab=98.95  E-value=6.7e-10  Score=79.23  Aligned_cols=39  Identities=28%  Similarity=0.337  Sum_probs=35.4

Q ss_pred             hhhHhhHHhCCCC-HHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447          145 DESLSLVMSMGFK-EQDAKRALRICSQDVGSAIDFLVEEK  183 (267)
Q Consensus       145 ~~~l~~L~~MGF~-~~~Ar~ALr~~~gdve~A~~wL~~~~  183 (267)
                      ++.|++|++|||+ +..+++||++++||+++|++||++++
T Consensus        18 ~~qi~~L~~MGF~d~~~~~~AL~~~~gnve~Ave~L~~~~   57 (58)
T 1wr1_B           18 EHQLRQLNDMGFFDFDRNVAALRRSGGSVQGALDSLLNGD   57 (58)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHTSCHHHHHHHHHHTC
T ss_pred             HHHHHHHHHcCCCcHHHHHHHHHHhCCCHHHHHHHHHhCC
Confidence            4689999999995 66779999999999999999999875

>2dna_A Unnamed protein product; ubiquitin associated domain, DSK2 protein, proteasome, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.5.2.1

Probab=98.93  E-value=5.6e-10  Score=81.80  Aligned_cols=41  Identities=24%  Similarity=0.284  Sum_probs=36.6

Q ss_pred             hhhHhhHHhCCCCHHHH-HHHHHHhCCCHHHHHHHHHhhhhh
Q 024447          145 DESLSLVMSMGFKEQDA-KRALRICSQDVGSAIDFLVEEKAK  185 (267)
Q Consensus       145 ~~~l~~L~~MGF~~~~A-r~ALr~~~gdve~A~~wL~~~~~d  185 (267)
                      ++.|.+|.+|||+..++ ++||++|+|||++|++||+++.++
T Consensus        20 ~~ql~qL~~MGF~d~~an~~AL~at~Gnve~Ave~L~~~~~~   61 (67)
T 2dna_A           20 SKEMECLQAMGFVNYNANLQALIATDGDTNAAIYKLKSSQGF   61 (67)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHTTSCHHHHHHHHHHCCSS
T ss_pred             HHHHHHHHHcCCCcHHHHHHHHHHcCCCHHHHHHHHHhCCCc
Confidence            35899999999976666 999999999999999999999765

>2crn_A Ubash3A protein; compact three-helix bundle, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=98.92  E-value=4.9e-10  Score=81.40  Aligned_cols=44  Identities=16%  Similarity=0.205  Sum_probs=38.1

Q ss_pred             CcCCHHHHHHHHhCCCCHHHHHHHHHHcCC-CHHHHHHh-ccCCCc
Q 024447          213 KAVDIEKIKELVSIGFEKELVAEALRRNEN-DSQKALDD-LTNPES  256 (267)
Q Consensus       213 ~~vd~e~v~~L~~MGF~~~~A~~ALr~t~n-dve~Aldl-L~~pd~  256 (267)
                      ..++++.|++|++|||++..|++||+.|+| |++.|++| |.|.++
T Consensus         6 ~~~~e~~v~~L~~MGF~~~~a~~AL~~t~n~~~e~A~~wL~~h~~d   51 (64)
T 2crn_A            6 SGSSPSLLEPLLAMGFPVHTALKALAATGRKTAEEALAWLHDHCND   51 (64)
T ss_dssp             CCCSCSSHHHHHHTSCCHHHHHHHHHHHTSCCHHHHHHHHHHHSSS
T ss_pred             CCCCHHHHHHHHHcCCCHHHHHHHHHHhCCCCHHHHHHHHHhCCCC
Confidence            346788999999999999999999999998 99999995 456543

>1z96_A DNA-damage, UBA-domain protein MUD1; ubiquitin, three-helix bundle, protein transport; 1.80A {Schizosaccharomyces pombe} SCOP: a.5.2.1

Probab=98.91  E-value=1.5e-09  Score=70.87  Aligned_cols=35  Identities=37%  Similarity=0.399  Sum_probs=33.0

Q ss_pred             HHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhc
Q 024447          217 IEKIKELVSIGFEKELVAEALRRNENDSQKALDDL  251 (267)
Q Consensus       217 ~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL  251 (267)
                      .+.|.+|++|||+++.|+.||+.|+||+++|+++|
T Consensus         5 ~~~i~~L~~mGf~~~~a~~AL~~~~~n~e~A~~~L   39 (40)
T 1z96_A            5 NSKIAQLVSMGFDPLEAAQALDAANGDLDVAASFL   39 (40)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            46799999999999999999999999999999976

>2knz_A Ubiquilin-4; cytoplasm, endoplasmic reticulum, nucleus, phosphoprotein, protein binding; NMR {Mus musculus}

Probab=98.91  E-value=1.4e-09  Score=76.08  Aligned_cols=37  Identities=27%  Similarity=0.462  Sum_probs=33.7

Q ss_pred             HHHHHHHhCCC-CHHHHHHHHHHcCCCHHHHHHh-ccCC
Q 024447          218 EKIKELVSIGF-EKELVAEALRRNENDSQKALDD-LTNP  254 (267)
Q Consensus       218 e~v~~L~~MGF-~~~~A~~ALr~t~ndve~Aldl-L~~p  254 (267)
                      +.|.+|++||| +++.|+.||+.|+||+++|+++ |.|+
T Consensus        13 ~~l~~L~~MGF~~~~~~~~AL~~t~gnve~Ave~L~~~~   51 (53)
T 2knz_A           13 QQLEQLNSMGFINREANLQALIATGGDINAAIERLLGSQ   51 (53)
T ss_dssp             HHHHHHHTTTCCCHHHHHHHHHHHTSCHHHHHHHHHHCC
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHhCCCHHHHHHHHHHcC
Confidence            56999999999 9999999999999999999995 5565

>2dkl_A Trinucleotide repeat containing 6C protein; TNRC6C, KIAA1582 protein, UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=98.91  E-value=6.5e-10  Score=85.05  Aligned_cols=47  Identities=26%  Similarity=0.362  Sum_probs=41.8

Q ss_pred             CCcCCHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHh-ccCCCcch
Q 024447          212 KKAVDIEKIKELVSIGFEKELVAEALRRNENDSQKALDD-LTNPESNS  258 (267)
Q Consensus       212 ~~~vd~e~v~~L~~MGF~~~~A~~ALr~t~ndve~Aldl-L~~pd~~~  258 (267)
                      ..|++++.|++|++|||++..|++||+.++||+++|++| |.|+++.+
T Consensus        17 ~~~~n~~~I~qL~~MGF~~~~a~~AL~~~n~n~e~A~ewL~~h~~D~D   64 (85)
T 2dkl_A           17 EAWIMSRLIKQLTDMGFPREPAEEALKSNNMNLDQAMSALLEKKVDVD   64 (85)
T ss_dssp             HHHHHHHHHHHHHHHTCCHHHHHHHHHHTTSCHHHHHHHHHTTSCCSS
T ss_pred             ccccCHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHHHCcCCcc
Confidence            357889999999999999999999999999999999995 56877655

>2dai_A Ubadc1, ubiquitin associated domain containing 1; UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.89  E-value=9.8e-10  Score=83.70  Aligned_cols=43  Identities=23%  Similarity=0.410  Sum_probs=38.7

Q ss_pred             cCCHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHh-ccCCCc
Q 024447          214 AVDIEKIKELVSIGFEKELVAEALRRNENDSQKALDD-LTNPES  256 (267)
Q Consensus       214 ~vd~e~v~~L~~MGF~~~~A~~ALr~t~ndve~Aldl-L~~pd~  256 (267)
                      .++++.|.+|++|||++..|++||+.|+||+++|++| |.|+++
T Consensus        27 ~~~e~~i~~L~~MGF~~~~a~~AL~~t~~nve~A~ewL~~~~~d   70 (83)
T 2dai_A           27 RVDEAALRQLTEMGFPENRATKALQLNHMSVPQAMEWLIEHAED   70 (83)
T ss_dssp             SCCHHHHHHHHHHTCCHHHHHHHHHHTTSCHHHHHHHHHHGGGC
T ss_pred             CCCHHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHHHCCCC
Confidence            4799999999999999999999999999999999995 456554

>1vej_A Riken cDNA 4931431F19; UBA domain, three helix bundle, ubiquitin associated domain, structural genomics; NMR {Mus musculus} SCOP: a.5.2.1

Probab=98.88  E-value=1.2e-09  Score=81.51  Aligned_cols=42  Identities=21%  Similarity=0.364  Sum_probs=37.5

Q ss_pred             ChhhHhhHHhCCC-CHHHHHHHHHHhCCCHHHHHHHHHhhhhh
Q 024447          144 PDESLSLVMSMGF-KEQDAKRALRICSQDVGSAIDFLVEEKAK  185 (267)
Q Consensus       144 d~~~l~~L~~MGF-~~~~Ar~ALr~~~gdve~A~~wL~~~~~d  185 (267)
                      -++.|++|++||| ++..+++||++++||+++|++||+++++.
T Consensus        29 ye~qi~qL~eMGF~dr~~~~~AL~~t~Gnve~Ave~L~~~~~~   71 (74)
T 1vej_A           29 YQQELEELKALGFANRDANLQALVATDGDIHAAIEMLLGASGP   71 (74)
T ss_dssp             SHHHHHHHHHHTCCCHHHHHHHHHHTTSCHHHHHHHHHTCCCC
T ss_pred             HHHHHHHHHHcCCCcHHHHHHHHHHhCCCHHHHHHHHHhCCCC
Confidence            4578999999999 57888999999999999999999998643

>1dv0_A DNA repair protein HHR23A; helical bundle, DNA binding protein; HET: DNA; NMR {Homo sapiens} SCOP: a.5.2.1 PDB: 1f4i_A

Probab=98.85  E-value=1.1e-09  Score=74.76  Aligned_cols=42  Identities=26%  Similarity=0.351  Sum_probs=37.8

Q ss_pred             CHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHH-hccCCCcc
Q 024447          216 DIEKIKELVSIGFEKELVAEALRRNENDSQKALD-DLTNPESN  257 (267)
Q Consensus       216 d~e~v~~L~~MGF~~~~A~~ALr~t~ndve~Ald-lL~~pd~~  257 (267)
                      +.++|++|++|||++.+|++||..|++|++.|++ +|+|+++.
T Consensus         4 e~eaI~rL~~mGF~~~~a~~Al~a~~~n~e~A~~~Lf~~~~d~   46 (47)
T 1dv0_A            4 EKEAIERLKALGFPESLVIQAYFACEKNENLAANFLLSQNFDD   46 (47)
T ss_dssp             CHHHHTTTTTTTCCHHHHHHHHTTTTSCHHHHHHHTTSCCCCC
T ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHHhCcCCC
Confidence            5678999999999999999999999999999999 56688753

>2ooa_A E3 ubiquitin-protein ligase CBL-B; alpha-helical domain; 1.56A {Homo sapiens} PDB: 2oob_A 2jnh_A 2do6_A

Probab=98.84  E-value=2.6e-09  Score=74.12  Aligned_cols=35  Identities=31%  Similarity=0.304  Sum_probs=33.1

Q ss_pred             HHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhc
Q 024447          217 IEKIKELVSIGFEKELVAEALRRNENDSQKALDDL  251 (267)
Q Consensus       217 ~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL  251 (267)
                      .+.|.+||+|||+++.|++||+.++||++.|+.+|
T Consensus        12 ~~~Ia~Lm~mGFsr~~ai~AL~~a~nnve~AaniL   46 (52)
T 2ooa_A           12 DAKIAKLMGEGYAFEEVKRALEIAQNNVEVARSIL   46 (52)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHH
Confidence            38899999999999999999999999999999965

>1vek_A UBP14, ubiquitin-specific protease 14, putative; UBA domain, three helix bundle, ubiquitin associated domain, structural genomics; NMR {Arabidopsis thaliana} SCOP: a.5.2.1

Probab=98.83  E-value=3.3e-09  Score=80.90  Aligned_cols=46  Identities=20%  Similarity=0.295  Sum_probs=39.6

Q ss_pred             CCcCCHHHHHHHHhCCCCHHHHHHHHHHcC-CCHHHHHHh-ccCCCcc
Q 024447          212 KKAVDIEKIKELVSIGFEKELVAEALRRNE-NDSQKALDD-LTNPESN  257 (267)
Q Consensus       212 ~~~vd~e~v~~L~~MGF~~~~A~~ALr~t~-ndve~Aldl-L~~pd~~  257 (267)
                      ...++++.|.+|++|||++..|++||+.|+ +|+++|++| |.|+++.
T Consensus        25 ~~~~~e~~v~~L~~MGF~~~~a~~AL~~t~n~n~e~A~ewL~~h~~d~   72 (84)
T 1vek_A           25 QPVANEEIVAQLVSMGFSQLHCQKAAINTSNAGVEEAMNWLLSHMDDP   72 (84)
T ss_dssp             CCCCCHHHHHHHHHHTCCHHHHHHHHHHTTTCCHHHHHHHHHHHTTCS
T ss_pred             CCCCCHHHHHHHHHcCCCHHHHHHHHHHHcCCCHHHHHHHHHhCCCcc
Confidence            345799999999999999999999999997 599999995 5566543

>2dah_A Ubiquilin-3; UBA domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=98.82  E-value=3.7e-09  Score=74.29  Aligned_cols=42  Identities=19%  Similarity=0.199  Sum_probs=35.6

Q ss_pred             CHHHHHHHHhCCCCHH-HHHHHHHHcCCCHHHHHH-hccCCCcc
Q 024447          216 DIEKIKELVSIGFEKE-LVAEALRRNENDSQKALD-DLTNPESN  257 (267)
Q Consensus       216 d~e~v~~L~~MGF~~~-~A~~ALr~t~ndve~Ald-lL~~pd~~  257 (267)
                      ..+.|.+|++|||+.+ .+++||+.|+|||++|++ +|.+|+..
T Consensus         9 ~~~~l~~L~~MGF~d~~~n~~AL~~~~Gdv~~Ave~L~~~~~~~   52 (54)
T 2dah_A            9 FQVQLEQLRSMGFLNREANLQALIATGGDVDAAVEKLRQSSGPS   52 (54)
T ss_dssp             SHHHHHHHHHHTCCCHHHHHHHHHHHTSCHHHHHHHHHHHSCSS
T ss_pred             HHHHHHHHHHcCCCcHHHHHHHHHHcCCCHHHHHHHHHhCCCcC
Confidence            3678999999999665 569999999999999999 55677753

>2bwb_A Ubiquitin-like protein DSK2; UBA, signaling protein; 2.3A {Saccharomyces cerevisiae} SCOP: a.5.2.1 PDB: 2bwe_A

Probab=98.77  E-value=8.3e-09  Score=70.19  Aligned_cols=36  Identities=33%  Similarity=0.443  Sum_probs=31.7

Q ss_pred             HHHHHHHHhCCCC-HHHHHHHHHHcCCCHHHHHHhcc
Q 024447          217 IEKIKELVSIGFE-KELVAEALRRNENDSQKALDDLT  252 (267)
Q Consensus       217 ~e~v~~L~~MGF~-~~~A~~ALr~t~ndve~AldlL~  252 (267)
                      .+.|.+|++|||+ +..++.||+.++||+++|+++|.
T Consensus         8 ~~~i~~L~~MGF~d~~~~~~AL~~~~gnv~~Ave~L~   44 (46)
T 2bwb_A            8 EHQLRQLNDMGFFDFDRNVAALRRSGGSVQGALDSLL   44 (46)
T ss_dssp             HHHHHHHHHTTCCCHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCcHHHHHHHHHHhCCCHHHHHHHHH
Confidence            3679999999995 66789999999999999999654

>2ooa_A E3 ubiquitin-protein ligase CBL-B; alpha-helical domain; 1.56A {Homo sapiens} PDB: 2oob_A 2jnh_A 2do6_A

Probab=98.77  E-value=9.5e-09  Score=71.30  Aligned_cols=37  Identities=32%  Similarity=0.487  Sum_probs=35.0

Q ss_pred             hhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHh
Q 024447          145 DESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE  181 (267)
Q Consensus       145 ~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~  181 (267)
                      ++.|.+||+|||++++|.+||+.++||++.|.+.|.+
T Consensus        12 ~~~Ia~Lm~mGFsr~~ai~AL~~a~nnve~AaniLle   48 (52)
T 2ooa_A           12 DAKIAKLMGEGYAFEEVKRALEIAQNNVEVARSILRE   48 (52)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            3899999999999999999999999999999999865

>1wr1_B Ubiquitin-like protein DSK2; UBA domain, UBA-ubiquitin complex, signaling protein; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.1

Probab=98.76  E-value=6.2e-09  Score=74.20  Aligned_cols=38  Identities=32%  Similarity=0.433  Sum_probs=33.1

Q ss_pred             HHHHHHHHhCCCC-HHHHHHHHHHcCCCHHHHHHh-ccCC
Q 024447          217 IEKIKELVSIGFE-KELVAEALRRNENDSQKALDD-LTNP  254 (267)
Q Consensus       217 ~e~v~~L~~MGF~-~~~A~~ALr~t~ndve~Aldl-L~~p  254 (267)
                      .+.|++|++|||+ ++.+++||+.++||+++|+++ |++|
T Consensus        18 ~~qi~~L~~MGF~d~~~~~~AL~~~~gnve~Ave~L~~~~   57 (58)
T 1wr1_B           18 EHQLRQLNDMGFFDFDRNVAALRRSGGSVQGALDSLLNGD   57 (58)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHTSCHHHHHHHHHHTC
T ss_pred             HHHHHHHHHcCCCcHHHHHHHHHHhCCCHHHHHHHHHhCC
Confidence            3579999999995 778899999999999999994 5565

>2d9s_A CBL E3 ubiquitin protein ligase; UBA domain, dimer, protein binding, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=98.73  E-value=1.5e-08  Score=70.59  Aligned_cols=37  Identities=24%  Similarity=0.241  Sum_probs=34.0

Q ss_pred             CCHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhc
Q 024447          215 VDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDL  251 (267)
Q Consensus       215 vd~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL  251 (267)
                      +....|.+||+|||+++.|++||..++||++.|+.+|
T Consensus         8 ~~e~~I~~L~~lGF~r~~ai~AL~~a~nnve~Aa~iL   44 (53)
T 2d9s_A            8 QLSSEIERLMSQGYSYQDIQKALVIAHNNIEMAKNIL   44 (53)
T ss_dssp             CSHHHHHHHHHHTCCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             chHHHHHHHHHcCCCHHHHHHHHHHhcCCHHHHHHHH
Confidence            3457799999999999999999999999999999965

>1vej_A Riken cDNA 4931431F19; UBA domain, three helix bundle, ubiquitin associated domain, structural genomics; NMR {Mus musculus} SCOP: a.5.2.1

Probab=98.72  E-value=1.2e-08  Score=76.12  Aligned_cols=41  Identities=22%  Similarity=0.380  Sum_probs=35.5

Q ss_pred             CHHHHHHHHhCCC-CHHHHHHHHHHcCCCHHHHHH-hccCCCc
Q 024447          216 DIEKIKELVSIGF-EKELVAEALRRNENDSQKALD-DLTNPES  256 (267)
Q Consensus       216 d~e~v~~L~~MGF-~~~~A~~ALr~t~ndve~Ald-lL~~pd~  256 (267)
                      -.+.|.+|++||| +++.+++||+.++||+++|++ +|.+|+.
T Consensus        29 ye~qi~qL~eMGF~dr~~~~~AL~~t~Gnve~Ave~L~~~~~~   71 (74)
T 1vej_A           29 YQQELEELKALGFANRDANLQALVATDGDIHAAIEMLLGASGP   71 (74)
T ss_dssp             SHHHHHHHHHHTCCCHHHHHHHHHHTTSCHHHHHHHHHTCCCC
T ss_pred             HHHHHHHHHHcCCCcHHHHHHHHHHhCCCHHHHHHHHHhCCCC
Confidence            4578999999999 578889999999999999999 5567654

>2dna_A Unnamed protein product; ubiquitin associated domain, DSK2 protein, proteasome, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.5.2.1

Probab=98.69  E-value=1.1e-08  Score=74.97  Aligned_cols=40  Identities=18%  Similarity=0.195  Sum_probs=33.9

Q ss_pred             HHHHHHHHhCCCCHHHH-HHHHHHcCCCHHHHHH-hccCCCc
Q 024447          217 IEKIKELVSIGFEKELV-AEALRRNENDSQKALD-DLTNPES  256 (267)
Q Consensus       217 ~e~v~~L~~MGF~~~~A-~~ALr~t~ndve~Ald-lL~~pd~  256 (267)
                      ...|.+|++|||..+++ ++||+.|+|||++|++ +|+|++.
T Consensus        20 ~~ql~qL~~MGF~d~~an~~AL~at~Gnve~Ave~L~~~~~~   61 (67)
T 2dna_A           20 SKEMECLQAMGFVNYNANLQALIATDGDTNAAIYKLKSSQGF   61 (67)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHTTSCHHHHHHHHHHCCSS
T ss_pred             HHHHHHHHHcCCCcHHHHHHHHHHcCCCHHHHHHHHHhCCCc
Confidence            35799999999976655 9999999999999999 5567765

>2d9s_A CBL E3 ubiquitin protein ligase; UBA domain, dimer, protein binding, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=98.64  E-value=3.8e-08  Score=68.60  Aligned_cols=40  Identities=28%  Similarity=0.358  Sum_probs=36.4

Q ss_pred             CChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhh
Q 024447          143 VPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEE  182 (267)
Q Consensus       143 vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~  182 (267)
                      ..+..|.+||+|||++++|.+||..++||++.|.+.|.+.
T Consensus         8 ~~e~~I~~L~~lGF~r~~ai~AL~~a~nnve~Aa~iL~ef   47 (53)
T 2d9s_A            8 QLSSEIERLMSQGYSYQDIQKALVIAHNNIEMAKNILREF   47 (53)
T ss_dssp             CSHHHHHHHHHHTCCHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             chHHHHHHHHHcCCCHHHHHHHHHHhcCCHHHHHHHHHHh
Confidence            3557799999999999999999999999999999998764

>2juj_A E3 ubiquitin-protein ligase CBL; alpha helix, UBA domain, calcium, cytoplasm, metal- binding, phosphorylation, proto-oncogene, SH2 domain; NMR {Homo sapiens}

Probab=98.64  E-value=1.5e-08  Score=70.85  Aligned_cols=36  Identities=25%  Similarity=0.278  Sum_probs=33.6

Q ss_pred             CHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhc
Q 024447          216 DIEKIKELVSIGFEKELVAEALRRNENDSQKALDDL  251 (267)
Q Consensus       216 d~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL  251 (267)
                      .++.|.+||+|||+++.|++||..++|||+.|.++|
T Consensus         7 ~e~~Ia~L~smGfsr~da~~AL~ia~Ndv~~AtNiL   42 (56)
T 2juj_A            7 LSSEIENLMSQGYSYQDIQKALVIAQNNIEMAKNIL   42 (56)
T ss_dssp             HHHHHHHHHTTTCCHHHHHHHHHHTTTCSHHHHHHH
T ss_pred             ChHHHHHHHHcCCCHHHHHHHHHHhcccHHHHHHHH
Confidence            457899999999999999999999999999999965

>2juj_A E3 ubiquitin-protein ligase CBL; alpha helix, UBA domain, calcium, cytoplasm, metal- binding, phosphorylation, proto-oncogene, SH2 domain; NMR {Homo sapiens}

Probab=98.60  E-value=4.3e-08  Score=68.57  Aligned_cols=39  Identities=28%  Similarity=0.376  Sum_probs=35.9

Q ss_pred             ChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhh
Q 024447          144 PDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEE  182 (267)
Q Consensus       144 d~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~  182 (267)
                      .++.|.+||+|||+++.+++||..++|||+.|.+.|.+-
T Consensus         7 ~e~~Ia~L~smGfsr~da~~AL~ia~Ndv~~AtNiLlEf   45 (56)
T 2juj_A            7 LSSEIENLMSQGYSYQDIQKALVIAQNNIEMAKNILREF   45 (56)
T ss_dssp             HHHHHHHHHTTTCCHHHHHHHHHHTTTCSHHHHHHHHHS
T ss_pred             ChHHHHHHHHcCCCHHHHHHHHHHhcccHHHHHHHHHHH
Confidence            357899999999999999999999999999999998664

>2oo9_A E3 ubiquitin-protein ligase CBL; alpha-helical domain, homodimer; 2.10A {Homo sapiens}

Probab=98.56  E-value=7.5e-08  Score=64.98  Aligned_cols=34  Identities=26%  Similarity=0.350  Sum_probs=32.3

Q ss_pred             HHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhc
Q 024447          218 EKIKELVSIGFEKELVAEALRRNENDSQKALDDL  251 (267)
Q Consensus       218 e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL  251 (267)
                      ..|.+|++|||+++.|++||-.++|||+.|.++|
T Consensus         6 ~~I~~L~s~Gf~~~~~~rAL~ia~Nnie~A~nIL   39 (46)
T 2oo9_A            6 SEIENLMSQGYSYQDIQKALVIAQNNIEMAKNIL   39 (46)
T ss_dssp             HHHHHHHHTTBCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHhhccHHHHHHHH
Confidence            5699999999999999999999999999999965

>2cwb_A Chimera of immunoglobulin G binding protein G and ubiquitin-like protein SB132; helical bundle, protein binding; NMR {Streptococcus SP} PDB: 2den_A

Probab=98.54  E-value=7.5e-08  Score=76.65  Aligned_cols=40  Identities=20%  Similarity=0.344  Sum_probs=36.6

Q ss_pred             ChhhHhhHHhCCCC-HHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447          144 PDESLSLVMSMGFK-EQDAKRALRICSQDVGSAIDFLVEEK  183 (267)
Q Consensus       144 d~~~l~~L~~MGF~-~~~Ar~ALr~~~gdve~A~~wL~~~~  183 (267)
                      .++.|++|.+|||+ +..+++||+.++||+++|++||++++
T Consensus        66 ~~~qL~qL~eMGF~d~~~ni~AL~~t~Gdve~AVe~L~~~~  106 (108)
T 2cwb_A           66 WQPQLQQLRDMGIQDDELSLRALQATGGDIQAALELIFAGG  106 (108)
T ss_dssp             THHHHHHHHTTTCCCHHHHHHHHHHHTSCHHHHHHHHHHTS
T ss_pred             hHHHHHHHHHcCCCCHHHHHHHHHHhCCCHHHHHHHHHhcC
Confidence            46899999999995 58999999999999999999999875

>2cos_A Serine/threonine protein kinase LATS2; UBA domain, structure genomics, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.5.2.1

Probab=98.51  E-value=9.9e-08  Score=66.61  Aligned_cols=40  Identities=20%  Similarity=0.388  Sum_probs=36.7

Q ss_pred             CCChhhHhhHHhCCCCHHHHHHHHHHhCC-CHHHHHHHHHh
Q 024447          142 QVPDESLSLVMSMGFKEQDAKRALRICSQ-DVGSAIDFLVE  181 (267)
Q Consensus       142 ~vd~~~l~~L~~MGF~~~~Ar~ALr~~~g-dve~A~~wL~~  181 (267)
                      .++...+++|++|||+++.|.+||+.||| .++.|++||..
T Consensus         7 ~vn~qmlq~L~eMGFd~erae~Alk~Tg~~Gle~AmewL~k   47 (54)
T 2cos_A            7 GVNRQMLQELVNAGCDQEMAGRALKQTGSRSIEAALEYISK   47 (54)
T ss_dssp             SCCHHHHHHHHHHHCCHHHHHHHHHHHTSCCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHcCCCHHHHHHHHHHhCcccHHHHHHHHHH
Confidence            56888999999999999999999999998 69999999943

>2cos_A Serine/threonine protein kinase LATS2; UBA domain, structure genomics, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.5.2.1

Probab=98.47  E-value=1.6e-07  Score=65.50  Aligned_cols=40  Identities=25%  Similarity=0.490  Sum_probs=37.4

Q ss_pred             CcCCHHHHHHHHhCCCCHHHHHHHHHHcCC-CHHHHHHhcc
Q 024447          213 KAVDIEKIKELVSIGFEKELVAEALRRNEN-DSQKALDDLT  252 (267)
Q Consensus       213 ~~vd~e~v~~L~~MGF~~~~A~~ALr~t~n-dve~AldlL~  252 (267)
                      ..|+.+.+++|++|||+++.|..||++|+| .++.|++||.
T Consensus         6 ~~vn~qmlq~L~eMGFd~erae~Alk~Tg~~Gle~AmewL~   46 (54)
T 2cos_A            6 SGVNRQMLQELVNAGCDQEMAGRALKQTGSRSIEAALEYIS   46 (54)
T ss_dssp             CSCCHHHHHHHHHHHCCHHHHHHHHHHHTSCCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHcCCCHHHHHHHHHHhCcccHHHHHHHHH
Confidence            468999999999999999999999999999 8999999875

>2oo9_A E3 ubiquitin-protein ligase CBL; alpha-helical domain, homodimer; 2.10A {Homo sapiens}

Probab=98.45  E-value=2.5e-07  Score=62.48  Aligned_cols=38  Identities=29%  Similarity=0.406  Sum_probs=34.9

Q ss_pred             hhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhh
Q 024447          145 DESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEE  182 (267)
Q Consensus       145 ~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~  182 (267)
                      ++.|.+||+|||+.+.+++||-.++|||+.|.+.|.+.
T Consensus         5 e~~I~~L~s~Gf~~~~~~rAL~ia~Nnie~A~nIL~ef   42 (46)
T 2oo9_A            5 SSEIENLMSQGYSYQDIQKALVIAQNNIEMAKNILREF   42 (46)
T ss_dssp             HHHHHHHHHTTBCHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHhhccHHHHHHHHHHh
Confidence            46799999999999999999999999999999988653

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

Probab=98.38  E-value=5e-07  Score=93.58  Aligned_cols=82  Identities=20%  Similarity=0.274  Sum_probs=65.5

Q ss_pred             cCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhh-----HhhhccCCCChhhHhhHHhCCCCHHHHHHHHHHhCCCH
Q 024447           98 AGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSA-----QAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDV  172 (267)
Q Consensus        98 g~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a-----~~~~~~l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdv  172 (267)
                      |+.+.|.++        .|+.-|+.+.|...+.....     ......-.++++.|++|.+|||+..+|++||+.++||+
T Consensus       677 ~n~~~e~a~--------~wl~~hmdd~di~~p~~~~~~~~~~s~~~~~~~~~~e~i~~l~~mGf~~~~a~~aL~~t~~~~  748 (854)
T 3ihp_A          677 GNSGAEAAM--------NWVMSHMDDPDFANPLILPGSSGPGSTSAAADPPPEDCVTTIVSMGFSRDQALKALRATNNSL  748 (854)
T ss_dssp             TSCCHHHHH--------HHHHHHTTSCGGGSCCCCC--------------CCHHHHHHHHTTTCCHHHHHHHHHHTTTCH
T ss_pred             CCCchHHHh--------HHHhhccCcccccccccccccccccccccccCCCCHHHHHHHHHcCCCHHHHHHHHHhhcCcH
Confidence            889999999        99999998887766643211     00011135799999999999999999999999999999


Q ss_pred             HHHHHHHHhhhhhhh
Q 024447          173 GSAIDFLVEEKAKRV  187 (267)
Q Consensus       173 e~A~~wL~~~~~d~~  187 (267)
                      ++|++||++|+++..
T Consensus       749 eraidwlfs~~d~~~  763 (854)
T 3ihp_A          749 ERAVDWIFSHIDDLD  763 (854)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhcCccccc
Confidence            999999999998864

>2cwb_A Chimera of immunoglobulin G binding protein G and ubiquitin-like protein SB132; helical bundle, protein binding; NMR {Streptococcus SP} PDB: 2den_A

Probab=98.37  E-value=3.4e-07  Score=72.88  Aligned_cols=40  Identities=25%  Similarity=0.341  Sum_probs=34.7

Q ss_pred             CHHHHHHHHhCCC-CHHHHHHHHHHcCCCHHHHHH-hccCCC
Q 024447          216 DIEKIKELVSIGF-EKELVAEALRRNENDSQKALD-DLTNPE  255 (267)
Q Consensus       216 d~e~v~~L~~MGF-~~~~A~~ALr~t~ndve~Ald-lL~~pd  255 (267)
                      ..+.|.+|.+||| +++.++.||+.++||+++|++ ||++|.
T Consensus        66 ~~~qL~qL~eMGF~d~~~ni~AL~~t~Gdve~AVe~L~~~~~  107 (108)
T 2cwb_A           66 WQPQLQQLRDMGIQDDELSLRALQATGGDIQAALELIFAGGA  107 (108)
T ss_dssp             THHHHHHHHTTTCCCHHHHHHHHHHHTSCHHHHHHHHHHTSC
T ss_pred             hHHHHHHHHHcCCCCHHHHHHHHHHhCCCHHHHHHHHHhcCC
Confidence            4688999999999 567999999999999999999 555653

>4dbg_B Ring finger protein 31; ubiquitin fold, ubiquitination, ligase; 2.71A {Homo sapiens}

Probab=98.24  E-value=1.4e-06  Score=73.30  Aligned_cols=67  Identities=30%  Similarity=0.377  Sum_probs=57.5

Q ss_pred             CCHHHHHHHHHHhCCCHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHhhcCCCCCCCcCCHHHHHHHHhCC-CCHHHHH
Q 024447          156 FKEQDAKRALRICSQDVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIG-FEKELVA  234 (267)
Q Consensus       156 F~~~~Ar~ALr~~~gdve~A~~wL~~~~~d~~~~~~~~~e~~~~~~~~~~~~~~~~~~~vd~e~v~~L~~MG-F~~~~A~  234 (267)
                      +|..+||.||+..+||+++|+.-+...+             +                    .++..|++.| |+++++.
T Consensus        75 ~s~~EAr~Aw~~~~Gd~~~Av~~ci~~R-------------~--------------------~K~~eL~s~G~~~~~~~~  121 (162)
T 4dbg_B           75 FSCQEARRAWLDRHGNLDEAVEECVRTR-------------R--------------------RKVQELQSLGFGPEEGSL  121 (162)
T ss_dssp             CCHHHHHHHHHHTTTCHHHHHHHHHHHH-------------H--------------------HHHHHHHHTTCCGGGTHH
T ss_pred             ccHHHHHHHHHHccCChHHHHHHHHHHH-------------H--------------------HHHHHHHhcCCchHHHHH
Confidence            8899999999999999999999775432             1                    3488999999 6677999


Q ss_pred             HHHHHcCCCHHHHHHhccCCC
Q 024447          235 EALRRNENDSQKALDDLTNPE  255 (267)
Q Consensus       235 ~ALr~t~ndve~AldlL~~pd  255 (267)
                      +||+.++|||+.|+-.|+.|.
T Consensus       122 ~aL~~~~Gdv~~Al~eLqr~l  142 (162)
T 4dbg_B          122 QALFQHGGDVSRALTELQRQR  142 (162)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCcHHHHHHHHHHHH
Confidence            999999999999998887653

>1oqy_A HHR23A, UV excision repair protein RAD23 homolog A; DNA repair, proteasome-mediated degradation, protein- protein interaction, replication; NMR {Homo sapiens} SCOP: a.5.2.1 a.5.2.1 a.189.1.1 d.15.1.1 PDB: 1qze_A 1tp4_A

Probab=98.18  E-value=3.1e-07  Score=86.97  Aligned_cols=42  Identities=21%  Similarity=0.396  Sum_probs=40.4

Q ss_pred             ChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhhhh
Q 024447          144 PDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAK  185 (267)
Q Consensus       144 d~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~~d  185 (267)
                      ++++|.+|++|||++..|++||++|++|++.|++|||+|++|
T Consensus       325 e~eaI~rL~~mGF~~~~a~~al~a~~~n~e~A~~~L~~~~~d  366 (368)
T 1oqy_A          325 EKEAIERLKALGFPESLVIQAYFACEKNENLAANFLLSQNFD  366 (368)
T ss_dssp             THHHHHHHHHHTCCSHHHHHHTSSSSSCSSHHHHHHHHHHCC
T ss_pred             CHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHhhCcCc
Confidence            779999999999999999999999999999999999999876

>1wj7_A Hypothetical protein (RSGI RUH-015); UBA domain, ubiquitin associated domain, structural genomics, riken structural genomics/proteomics initiative; NMR {Mus musculus} SCOP: a.5.2.1

Probab=98.15  E-value=1.9e-06  Score=67.96  Aligned_cols=40  Identities=28%  Similarity=0.510  Sum_probs=37.7

Q ss_pred             hhhHhhHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHhhhh
Q 024447          145 DESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEEKA  184 (267)
Q Consensus       145 ~~~l~~L~~M-GF~~~~Ar~ALr~~~gdve~A~~wL~~~~~  184 (267)
                      ++.|..|++| ||++.+|+.||..|+||+++|+++|++...
T Consensus        40 eekVk~L~EmtG~seeeAr~AL~~~ngDl~~AI~~Lleg~~   80 (104)
T 1wj7_A           40 EEKVKQLIDITGKNQDECVIALHDCNGDVNRAINVLLEGNP   80 (104)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHTSCHHHHHHHHHTCSS
T ss_pred             HHHHHHHHHhhCCCHHHHHHHHHHcCCCHHHHHHHHHhCCC
Confidence            4789999999 999999999999999999999999998874

>3k9o_A Ubiquitin-conjugating enzyme E2 K; E2-25K, complex structure, ATP-binding, isopeptide BO ligase, nucleotide-binding, UBL conjugation pathway; 1.80A {Homo sapiens} PDB: 3k9p_A 1yla_A 2o25_A

Probab=98.10  E-value=2.7e-06  Score=73.89  Aligned_cols=38  Identities=26%  Similarity=0.368  Sum_probs=36.4

Q ss_pred             hhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhh
Q 024447          145 DESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEE  182 (267)
Q Consensus       145 ~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~  182 (267)
                      +++|++|++|||++.+|+.||..+++|+++|+++|+++
T Consensus       164 eekV~~l~~MGf~~~~a~~AL~~~~wd~~~A~e~L~~~  201 (201)
T 3k9o_A          164 TKKIENLCAMGFDRNAVIVALSSKSWDVETATELLLSN  201 (201)
T ss_dssp             HHHHHHHHTTTCCHHHHHHHHHHTTTCHHHHHHHHHHC
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHhcC
Confidence            58999999999999999999999999999999999874

>2cp8_A NEXT to BRCA1 gene 1 protein; UBA domain, structural genomics, human, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=98.10  E-value=1.9e-06  Score=60.40  Aligned_cols=39  Identities=15%  Similarity=0.314  Sum_probs=34.1

Q ss_pred             CHHHHHHHHhCCC-CHHHHHHHHHHcCCCHHHHHH-hccCC
Q 024447          216 DIEKIKELVSIGF-EKELVAEALRRNENDSQKALD-DLTNP  254 (267)
Q Consensus       216 d~e~v~~L~~MGF-~~~~A~~ALr~t~ndve~Ald-lL~~p  254 (267)
                      +...+.+|.+||| +++.-++||++++||+++|++ +|+.+
T Consensus         9 ~a~~L~~L~eMGF~D~~~N~~aL~~~~gnv~~aI~~Ll~~~   49 (54)
T 2cp8_A            9 TAALMAHLFEMGFCDRQLNLRLLKKHNYNILQVVTELLQLS   49 (54)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHTTTTTCHHHHHHHHHHHS
T ss_pred             hHHHHHHHHHcCCCcHHHHHHHHHHcCCCHHHHHHHHHhcc
Confidence            4467999999999 899999999999999999999 55544

>2cp8_A NEXT to BRCA1 gene 1 protein; UBA domain, structural genomics, human, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=98.04  E-value=2.8e-06  Score=59.60  Aligned_cols=40  Identities=18%  Similarity=0.248  Sum_probs=36.5

Q ss_pred             ChhhHhhHHhCCC-CHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447          144 PDESLSLVMSMGF-KEQDAKRALRICSQDVGSAIDFLVEEK  183 (267)
Q Consensus       144 d~~~l~~L~~MGF-~~~~Ar~ALr~~~gdve~A~~wL~~~~  183 (267)
                      ++..+.+|.+||| +.+.-++||+.++||+++||+.|++..
T Consensus         9 ~a~~L~~L~eMGF~D~~~N~~aL~~~~gnv~~aI~~Ll~~~   49 (54)
T 2cp8_A            9 TAALMAHLFEMGFCDRQLNLRLLKKHNYNILQVVTELLQLS   49 (54)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHTTTTTCHHHHHHHHHHHS
T ss_pred             hHHHHHHHHHcCCCcHHHHHHHHHHcCCCHHHHHHHHHhcc
Confidence            4568999999999 999999999999999999999998764

>3k9o_A Ubiquitin-conjugating enzyme E2 K; E2-25K, complex structure, ATP-binding, isopeptide BO ligase, nucleotide-binding, UBL conjugation pathway; 1.80A {Homo sapiens} PDB: 3k9p_A 1yla_A 2o25_A

Probab=98.04  E-value=7.7e-06  Score=70.94  Aligned_cols=36  Identities=31%  Similarity=0.434  Sum_probs=33.6

Q ss_pred             CHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhc
Q 024447          216 DIEKIKELVSIGFEKELVAEALRRNENDSQKALDDL  251 (267)
Q Consensus       216 d~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL  251 (267)
                      -.++|++|++|||++++|+.||+.+++|+++|++.|
T Consensus       163 ~eekV~~l~~MGf~~~~a~~AL~~~~wd~~~A~e~L  198 (201)
T 3k9o_A          163 YTKKIENLCAMGFDRNAVIVALSSKSWDVETATELL  198 (201)
T ss_dssp             HHHHHHHHHTTTCCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            368999999999999999999999999999999944

>1wj7_A Hypothetical protein (RSGI RUH-015); UBA domain, ubiquitin associated domain, structural genomics, riken structural genomics/proteomics initiative; NMR {Mus musculus} SCOP: a.5.2.1

Probab=97.72  E-value=3.1e-05  Score=61.03  Aligned_cols=38  Identities=29%  Similarity=0.412  Sum_probs=34.2

Q ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHcCCCHHHHHH-hccCC
Q 024447          217 IEKIKELVSI-GFEKELVAEALRRNENDSQKALD-DLTNP  254 (267)
Q Consensus       217 ~e~v~~L~~M-GF~~~~A~~ALr~t~ndve~Ald-lL~~p  254 (267)
                      .+.|..|++| ||+++.|+.||..++||+++|+. ||..+
T Consensus        40 eekVk~L~EmtG~seeeAr~AL~~~ngDl~~AI~~Lleg~   79 (104)
T 1wj7_A           40 EEKVKQLIDITGKNQDECVIALHDCNGDVNRAINVLLEGN   79 (104)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHTSCHHHHHHHHHTCS
T ss_pred             HHHHHHHHHhhCCCHHHHHHHHHHcCCCHHHHHHHHHhCC
Confidence            3679999999 99999999999999999999999 55543

>3e46_A Ubiquitin-conjugating enzyme E2-25 kDa; huntington interacting, ligase, alternative splicing, cytoplasm, UBL conjugation, UBL conjugation pathway; 1.86A {Homo sapiens} SCOP: a.5.2.1 d.20.1.1 PDB: 3f92_A*

Probab=97.24  E-value=0.00029  Score=63.46  Aligned_cols=37  Identities=24%  Similarity=0.325  Sum_probs=35.5

Q ss_pred             hhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHh
Q 024447          145 DESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE  181 (267)
Q Consensus       145 ~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~  181 (267)
                      +++|.+|++|||++..|+.||..+++|++.|++.|++
T Consensus       216 ~~~v~~l~~mgf~~~~~~~al~~~nWd~~~A~e~L~~  252 (253)
T 3e46_A          216 TKKIENLCAAGFDRNAVIVALSSKSWDVETATELLLS  252 (253)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHhc
Confidence            5899999999999999999999999999999999986

>3e46_A Ubiquitin-conjugating enzyme E2-25 kDa; huntington interacting, ligase, alternative splicing, cytoplasm, UBL conjugation, UBL conjugation pathway; 1.86A {Homo sapiens} SCOP: a.5.2.1 d.20.1.1 PDB: 3f92_A*

Probab=97.22  E-value=0.00057  Score=61.53  Aligned_cols=36  Identities=31%  Similarity=0.444  Sum_probs=33.5

Q ss_pred             HHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHH-hcc
Q 024447          217 IEKIKELVSIGFEKELVAEALRRNENDSQKALD-DLT  252 (267)
Q Consensus       217 ~e~v~~L~~MGF~~~~A~~ALr~t~ndve~Ald-lL~  252 (267)
                      .++|++|++|||+++.|+.||..+++|+++|++ +|.
T Consensus       216 ~~~v~~l~~mgf~~~~~~~al~~~nWd~~~A~e~L~~  252 (253)
T 3e46_A          216 TKKIENLCAAGFDRNAVIVALSSKSWDVETATELLLS  252 (253)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHhc
Confidence            578999999999999999999999999999999 554

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=97.11  E-value=0.0079  Score=46.34  Aligned_cols=98  Identities=11%  Similarity=0.068  Sum_probs=68.2

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      +-.+.++|..++++|+|++|+..+-.|=+           .-.+.+..-..+.+||+.+++   ..+|.       ..|.
T Consensus        13 a~~~~~~G~~~~~~g~~~~A~~~~~~al~-----------~~p~~~~~~~~~~~~~~~~~~---~~~A~-------~~~~   71 (126)
T 4gco_A           13 AQEEKNKGNEYFKKGDYPTAMRHYNEAVK-----------RDPENAILYSNRAACLTKLME---FQRAL-------DDCD   71 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH-----------HCTTCHHHHHHHHHHHHHTTC---HHHHH-------HHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----------hCCCCHHHHHHHhhHHHhhcc---HHHHH-------HHHH
Confidence            45678999999999999999999877633           333556677889999999876   34444       4444


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                      ++-          +-....-.+.+.     .|.+.+..|+.++|...+.++-..
T Consensus        72 ~al----------~~~p~~~~a~~~-----lg~~~~~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           72 TCI----------RLDSKFIKGYIR-----KAACLVAMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HHH----------HHCTTCHHHHHH-----HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHH----------HhhhhhhHHHHH-----HHHHHHHCCCHHHHHHHHHHHHHH
Confidence            332          111112223333     489999999999999998876543

>2cp9_A EF-TS, EF-TSMT, elongation factor TS, mitochondrial; UBA, structural genomics, human, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.2

Probab=97.04  E-value=0.00091  Score=48.32  Aligned_cols=41  Identities=27%  Similarity=0.354  Sum_probs=35.9

Q ss_pred             CCChhhHhhHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHhh
Q 024447          142 QVPDESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEE  182 (267)
Q Consensus       142 ~vd~~~l~~L~~M-GF~~~~Ar~ALr~~~gdve~A~~wL~~~  182 (267)
                      .|..+.|..|.+. |.+..+|+.||..|+||++.|++||...
T Consensus         7 ~it~~~Vk~LRe~TGag~~dcKkAL~e~~GDi~~Ai~~Lr~k   48 (64)
T 2cp9_A            7 GSSKELLMKLRRKTGYSFVNCKKALETCGGDLKQAEIWLHKE   48 (64)
T ss_dssp             CCCCHHHHHHHHHHCCCHHHHHHHHHHHTSCHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            4566888888886 9999999999999999999999999543

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=96.94  E-value=0.024  Score=42.21  Aligned_cols=146  Identities=12%  Similarity=-0.019  Sum_probs=95.9

Q ss_pred             hhhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 024447            3 MGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGI   82 (267)
Q Consensus         3 ~~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f   82 (267)
                      .+..+...|......++|++|+.++..|=+.+..-+..     ...+.....+.++|+.+++   .+.|...+.+|-+.+
T Consensus         8 ~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~-----~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~a~~~~   79 (164)
T 3ro3_A            8 QGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDK-----AAERIAYSNLGNAYIFLGE---FETASEYYKKTLLLA   79 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH-----HHHHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCc-----hHHHHHHHHHHHHHHHcCC---HHHHHHHHHHHHHHH
Confidence            45678889999999999999999999998877653221     2335667789999998764   678888888877776


Q ss_pred             HHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhCCCCHHHHH
Q 024447           83 ERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAK  162 (267)
Q Consensus        83 ~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MGF~~~~Ar  162 (267)
                      .+.- ..               ....+.+..-|.+.+..|+.++|...+..+-....+..........+..         
T Consensus        80 ~~~~-~~---------------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~---------  134 (164)
T 3ro3_A           80 RQLK-DR---------------AVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWS---------  134 (164)
T ss_dssp             HHTT-CH---------------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH---------
T ss_pred             HHhC-Cc---------------HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHH---------
Confidence            5531 11               1123344455888999999999999988775544333211111111111         


Q ss_pred             HHH-HHhCCCHHHHHHHHHh
Q 024447          163 RAL-RICSQDVGSAIDFLVE  181 (267)
Q Consensus       163 ~AL-r~~~gdve~A~~wL~~  181 (267)
                      .|. ....|+.+.|..++..
T Consensus       135 la~~~~~~g~~~~A~~~~~~  154 (164)
T 3ro3_A          135 LGNAYTALGNHDQAMHFAEK  154 (164)
T ss_dssp             HHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHH
Confidence            121 2234788888887744

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=96.92  E-value=0.021  Score=44.74  Aligned_cols=110  Identities=21%  Similarity=0.257  Sum_probs=75.4

Q ss_pred             hhhhhhHhHHHHHHhhchHHHHHHHHhhhhhhcc-------CChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHH
Q 024447            3 MGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSL-------CDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRL   75 (267)
Q Consensus         3 ~~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~-------c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL   75 (267)
                      .+..+.++|..++++++|++|+..+..|=+.+..       .++..-..-.+.+.+...+..||+.+++.   ..|.   
T Consensus        10 ~a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~---~~A~---   83 (162)
T 3rkv_A           10 SVEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDL---HEAE---   83 (162)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCH---HHHH---
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcH---HHHH---
Confidence            3567899999999999999999999888776533       23333333456677788899999999863   3343   


Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447           76 RKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus        76 ~~ae~~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                          ..|.++.-.++          ..-.+++.+     |.+.+..|+.++|...+..+-..
T Consensus        84 ----~~~~~al~~~p----------~~~~a~~~~-----g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           84 ----ETSSEVLKREE----------TNEKALFRR-----AKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             ----HHHHHHHHHST----------TCHHHHHHH-----HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ----HHHHHHHhcCC----------cchHHHHHH-----HHHHHHHhcHHHHHHHHHHHHhc
Confidence                33333331121          122344444     99999999999999988766543

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=96.88  E-value=0.052  Score=42.84  Aligned_cols=148  Identities=9%  Similarity=-0.027  Sum_probs=99.3

Q ss_pred             hhhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 024447            3 MGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGI   82 (267)
Q Consensus         3 ~~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f   82 (267)
                      .+..+...|...+..++|++|+.++..|=+.+...+..     ...+.....+.|+|..+++   .++|...+.+|-+.+
T Consensus        25 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~-----~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~al~~~   96 (203)
T 3gw4_A           25 ASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDH-----TAEHRALHQVGMVERMAGN---WDAARRCFLEERELL   96 (203)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCH-----HHHHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCc-----HHHHHHHHHHHHHHHHcCC---HHHHHHHHHHHHHHH
Confidence            35667888999999999999999999998888766432     2345667788999998765   678888888888887


Q ss_pred             HHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhH-hhHHhCCCCHHHH
Q 024447           83 ERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESL-SLVMSMGFKEQDA  161 (267)
Q Consensus        83 ~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l-~~L~~MGF~~~~A  161 (267)
                      + ..|.++...              ...+..-|.+.+..|+.++|...+..+-....+.. ++... ..+..        
T Consensus        97 ~-~~~~~~~~~--------------~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~-~~~~~~~~~~~--------  152 (203)
T 3gw4_A           97 A-SLPEDPLAA--------------SANAYEVATVALHFGDLAGARQEYEKSLVYAQQAD-DQVAIACAFRG--------  152 (203)
T ss_dssp             H-HSCCCHHHH--------------HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTT-CHHHHHHHHHH--------
T ss_pred             H-HcCccHHHH--------------HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcc-chHHHHHHHHH--------
Confidence            7 555443221              12233448888899999999999887654332221 11111 11111        


Q ss_pred             HHH-HHHhCCCHHHHHHHHHhhh
Q 024447          162 KRA-LRICSQDVGSAIDFLVEEK  183 (267)
Q Consensus       162 r~A-Lr~~~gdve~A~~wL~~~~  183 (267)
                       .| +....|+.+.|..++..-.
T Consensus       153 -la~~~~~~g~~~~A~~~~~~al  174 (203)
T 3gw4_A          153 -LGDLAQQEKNLLEAQQHWLRAR  174 (203)
T ss_dssp             -HHHHHHHTTCHHHHHHHHHHHH
T ss_pred             -HHHHHHHCcCHHHHHHHHHHHH
Confidence             22 2334678899988875543

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=96.73  E-value=0.03  Score=44.96  Aligned_cols=97  Identities=19%  Similarity=0.300  Sum_probs=67.5

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      ++.++.+|..++++++|++|+..+..|-              |..+-....+.+||+.+++   .++|...+.+|-+.  
T Consensus         6 ~~~~~~~g~~~~~~~~~~~A~~~~~~a~--------------~~~~~~~~~lg~~~~~~g~---~~~A~~~~~~al~~--   66 (213)
T 1hh8_A            6 AISLWNEGVLAADKKDWKGALDAFSAVQ--------------DPHSRICFNIGCMYTILKN---MTEAEKAFTRSINR--   66 (213)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHTSS--------------SCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHc--------------CCChHHHHHHHHHHHHcCC---HHHHHHHHHHHHHh--
Confidence            4567899999999999999999998771              2235567788999998876   34555444444332  


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhc
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFF  139 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~  139 (267)
                           ++          ..-.+     +..-|.+.+..|+.++|...+..+-...+
T Consensus        67 -----~~----------~~~~~-----~~~lg~~~~~~~~~~~A~~~~~~al~~~~  102 (213)
T 1hh8_A           67 -----DK----------HLAVA-----YFQRGMLYYQTEKYDLAIKDLKEALIQLR  102 (213)
T ss_dssp             -----CT----------TCHHH-----HHHHHHHHHHTTCHHHHHHHHHHHHHTTT
T ss_pred             -----Cc----------cchHH-----HHHHHHHHHHcccHHHHHHHHHHHHHhCC
Confidence                 11          11122     23348888899999999999987755433

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=96.72  E-value=0.014  Score=44.74  Aligned_cols=116  Identities=15%  Similarity=0.049  Sum_probs=79.3

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      |+.+.+.|..+.++|+|++|+.++-.|=+.    +|       +.+..-..+..||+.+++   .++|..-+.+|-+...
T Consensus         8 A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~----~p-------~~~~~~~nlg~~~~~~~~---~~~A~~~~~~al~~~~   73 (127)
T 4gcn_A            8 AIAEKDLGNAAYKQKDFEKAHVHYDKAIEL----DP-------SNITFYNNKAAVYFEEKK---FAECVQFCEKAVEVGR   73 (127)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CT-------TCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh----CC-------CCHHHHHhHHHHHHHhhh---HHHHHHHHHHHHHhCc
Confidence            677889999999999999999999877443    12       345666788999999875   5666666666655443


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHH
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVM  152 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~  152 (267)
                      ... .....+              -+.+.-.|.+....|+.++|.+.+.++-.    ..+|++.+..|.
T Consensus        74 ~~~-~~~~~~--------------a~~~~~lg~~~~~~~~~~~A~~~~~kal~----~~~~~~~~~~l~  123 (127)
T 4gcn_A           74 ETR-ADYKLI--------------AKAMSRAGNAFQKQNDLSLAVQWFHRSLS----EFRDPELVKKVK  123 (127)
T ss_dssp             HTT-CCHHHH--------------HHHHHHHHHHHHHTTCHHHHHHHHHHHHH----HSCCHHHHHHHH
T ss_pred             ccc-hhhHHH--------------HHHHHHHHHHHHHcCCHHHHHHHHHHHHh----hCcCHHHHHHHH
Confidence            332 232222              12333357888899999999998886543    234666665554

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=96.67  E-value=0.037  Score=41.13  Aligned_cols=111  Identities=13%  Similarity=-0.075  Sum_probs=81.6

Q ss_pred             hhhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 024447            3 MGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGI   82 (267)
Q Consensus         3 ~~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f   82 (267)
                      ++..++..|...+..++|++|+.++..|=+.+...+..     ...+.....+.|||+.+++   .++|...+.++-+.+
T Consensus        48 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~-----~~~~~~~~~l~~~~~~~~~---~~~A~~~~~~a~~~~  119 (164)
T 3ro3_A           48 ERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDR-----AVEAQSCYSLGNTYTLLQD---YEKAIDYHLKHLAIA  119 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH-----HHHHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCc-----HHHHHHHHHHHHHHHHHhh---HHHHHHHHHHHHHHH
Confidence            34677889999999999999999999998887766432     2345667788999998765   678888888887776


Q ss_pred             HHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447           83 ERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus        83 ~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                      .+.- ..               ....+.+..-+.+.+..|+.++|...+..+-..
T Consensus       120 ~~~~-~~---------------~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  158 (164)
T 3ro3_A          120 QELK-DR---------------IGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  158 (164)
T ss_dssp             HHTT-CH---------------HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHcc-ch---------------HhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            5532 11               111233444578888999999999998876543

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=96.67  E-value=0.038  Score=46.23  Aligned_cols=152  Identities=14%  Similarity=0.008  Sum_probs=101.9

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      +..+...|......++|++|+.++..|=+.+....   -..-.+.+.....+.+||+.++   ..++|...+.++-+.++
T Consensus        69 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~---~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~a~~~~~  142 (311)
T 3nf1_A           69 ATMLNILALVYRDQNKYKDAANLLNDALAIREKTL---GKDHPAVAATLNNLAVLYGKRG---KYKEAEPLCKRALEIRE  142 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHHHHcC---cHHHHHHHHHHHHHHHH
Confidence            34567789999999999999999988876654320   0112345666778899998765   57889999999999998


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccC--CCChhhHhhHHhCCCCHHHH
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQL--QVPDESLSLVMSMGFKEQDA  161 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l--~vd~~~l~~L~~MGF~~~~A  161 (267)
                      +.+|.+....              ...+..-|.+.+..|+.++|...+..+-....+.  .-++.....+..+|      
T Consensus       143 ~~~~~~~~~~--------------~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la------  202 (311)
T 3nf1_A          143 KVLGKDHPDV--------------AKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLA------  202 (311)
T ss_dssp             HHHCTTCHHH--------------HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHH------
T ss_pred             HhcCCCChHH--------------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHH------
Confidence            8887654332              2233445788889999999999998776544333  11333333333222      


Q ss_pred             HHHHHHhCCCHHHHHHHHHhhh
Q 024447          162 KRALRICSQDVGSAIDFLVEEK  183 (267)
Q Consensus       162 r~ALr~~~gdve~A~~wL~~~~  183 (267)
                        -+....|+.+.|+.++..-.
T Consensus       203 --~~~~~~g~~~~A~~~~~~al  222 (311)
T 3nf1_A          203 --SCYLKQGKFKQAETLYKEIL  222 (311)
T ss_dssp             --HHHHHHTCHHHHHHHHHHHH
T ss_pred             --HHHHHcCCHHHHHHHHHHHH
Confidence              11233578899998875544

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=96.60  E-value=0.043  Score=44.98  Aligned_cols=152  Identities=13%  Similarity=-0.033  Sum_probs=101.6

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      +..++..|......++|++|+.++..|=+.+.....   ..-.+.+.....+.+||..+++   .+.|...+.+|-+.++
T Consensus        43 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~---~~~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~al~~~~  116 (283)
T 3edt_B           43 ATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLG---KDHPAVAATLNNLAVLYGKRGK---YKEAEPLCKRALEIRE  116 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC---TTCHHHHHHHHHHHHHHHTTTC---HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcC---CcchHHHHHHHHHHHHHHHhcc---HHHHHHHHHHHHHHHH
Confidence            456778899999999999999999988766543200   1112345567778899987764   6899999999999999


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCC--ChhhHhhHHhCCCCHHHH
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQV--PDESLSLVMSMGFKEQDA  161 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~v--d~~~l~~L~~MGF~~~~A  161 (267)
                      +.+|.+....              ...+..-|.+.+..|+.++|...+.++-........  ++.....+..+|.     
T Consensus       117 ~~~~~~~~~~--------------~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~-----  177 (283)
T 3edt_B          117 KVLGKFHPDV--------------AKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLAS-----  177 (283)
T ss_dssp             HHHCTTCHHH--------------HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHH-----
T ss_pred             HHcCCCChHH--------------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH-----
Confidence            8887653221              223444588888999999999999877554333211  3333333333221     


Q ss_pred             HHHHHHhCCCHHHHHHHHHhhh
Q 024447          162 KRALRICSQDVGSAIDFLVEEK  183 (267)
Q Consensus       162 r~ALr~~~gdve~A~~wL~~~~  183 (267)
                         +....|+.+.|+.++..-.
T Consensus       178 ---~~~~~g~~~~A~~~~~~~l  196 (283)
T 3edt_B          178 ---CYLKQGKYQDAETLYKEIL  196 (283)
T ss_dssp             ---HHHHHTCHHHHHHHHHHHH
T ss_pred             ---HHHHcCCHHHHHHHHHHHH
Confidence               1223578899998875543

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=96.59  E-value=0.039  Score=46.14  Aligned_cols=115  Identities=16%  Similarity=0.010  Sum_probs=83.7

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      +..+...|..++..++|++|+.++-.|-+.+.....   ..-.+.+....-+.+||+.++   ..++|...+.++-+.++
T Consensus        27 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~---~~~~~~~~~~~~la~~~~~~g---~~~~A~~~~~~al~~~~  100 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSG---HDHPDVATMLNILALVYRDQN---KYKDAANLLNDALAIRE  100 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHC---SSSHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcC---CCCHHHHHHHHHHHHHHHHCC---CHHHHHHHHHHHHHHHH
Confidence            345778899999999999999999988776543210   011234556677889998876   57889999999999888


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhh
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKF  138 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~  138 (267)
                      +.+|.+....              ...+..-|.+.+..|+.++|...+.++-...
T Consensus       101 ~~~~~~~~~~--------------~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  141 (311)
T 3nf1_A          101 KTLGKDHPAV--------------AATLNNLAVLYGKRGKYKEAEPLCKRALEIR  141 (311)
T ss_dssp             HHHCTTCHHH--------------HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHH
T ss_pred             HHhCCCChHH--------------HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHH
Confidence            8887654332              2233344778889999999999988775543

>1q02_A Sequestosome 1; helical bundle, protein binding; NMR {Homo sapiens} SCOP: a.5.2.1 PDB: 2jy7_A 2jy8_A 2k0b_X 2knv_A 2rru_A 3b0f_A

Probab=96.47  E-value=0.0033  Score=43.43  Aligned_cols=36  Identities=28%  Similarity=0.438  Sum_probs=31.9

Q ss_pred             HHHHHHHhCCCCHHHH--HHHHHHcCCCHHHHHHhccC
Q 024447          218 EKIKELVSIGFEKELV--AEALRRNENDSQKALDDLTN  253 (267)
Q Consensus       218 e~v~~L~~MGF~~~~A--~~ALr~t~ndve~AldlL~~  253 (267)
                      ++|.++++|||+.+-.  .+.|...+||+.+|+|.++.
T Consensus        12 ~al~qMl~MGF~negGWLt~LL~~k~gDI~~aLD~lq~   49 (52)
T 1q02_A           12 ESLSQMLSMGFSDEGGWLTRLLQTKNYDIGAALDTIQY   49 (52)
T ss_dssp             HHHHHHHTTTCCCTTSHHHHHHHHTTTCHHHHHHHHTT
T ss_pred             HHHHHHHHcCCCccccHHHHHHHHccCCHHHHHHHhhh
Confidence            6799999999999854  58999999999999998764

>2cp9_A EF-TS, EF-TSMT, elongation factor TS, mitochondrial; UBA, structural genomics, human, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.2

Probab=96.47  E-value=0.0036  Score=45.16  Aligned_cols=40  Identities=20%  Similarity=0.091  Sum_probs=35.9

Q ss_pred             CcCCHHHHHHHHhC-CCCHHHHHHHHHHcCCCHHHHHHhcc
Q 024447          213 KAVDIEKIKELVSI-GFEKELVAEALRRNENDSQKALDDLT  252 (267)
Q Consensus       213 ~~vd~e~v~~L~~M-GF~~~~A~~ALr~t~ndve~AldlL~  252 (267)
                      ..++.+.|..|.+. |..-..|++||..++||++.|+++|.
T Consensus         6 ~~it~~~Vk~LRe~TGag~~dcKkAL~e~~GDi~~Ai~~Lr   46 (64)
T 2cp9_A            6 SGSSKELLMKLRRKTGYSFVNCKKALETCGGDLKQAEIWLH   46 (64)
T ss_dssp             SCCCCHHHHHHHHHHCCCHHHHHHHHHHHTSCHHHHHHHHH
T ss_pred             ccCCHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            34677889999886 99999999999999999999999884

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=96.38  E-value=0.14  Score=41.68  Aligned_cols=131  Identities=10%  Similarity=-0.018  Sum_probs=82.0

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA   85 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~   85 (267)
                      .++.+|..+++.++|++|+..+-.|=+....         .|..+. .-+.+||+.+++          ...|...|.++
T Consensus         9 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~---------~~~~~~-~~~~~~~~~~~~----------~~~A~~~~~~a   68 (228)
T 4i17_A            9 QLKNEGNDALNAKNYAVAFEKYSEYLKLTNN---------QDSVTA-YNCGVCADNIKK----------YKEAADYFDIA   68 (228)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHTTT---------CCHHHH-HHHHHHHHHTTC----------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhccCC---------CCcHHH-HHHHHHHHHhhc----------HHHHHHHHHHH
Confidence            5788999999999999999999888665431         222233 338999999875          34445555555


Q ss_pred             hCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhH----hhHHhCCCCHHHH
Q 024447           86 HGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESL----SLVMSMGFKEQDA  161 (267)
Q Consensus        86 yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l----~~L~~MGF~~~~A  161 (267)
                      ...++.               ....+..-|.+.+..|+.++|...+..+-...+.   ++...    .....+|.     
T Consensus        69 l~~~p~---------------~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~---~~~~~~~~~~~~~~~g~-----  125 (228)
T 4i17_A           69 IKKNYN---------------LANAYIGKSAAYRDMKNNQEYIATLTEGIKAVPG---NATIEKLYAIYYLKEGQ-----  125 (228)
T ss_dssp             HHTTCS---------------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT---CHHHHHHHHHHHHHHHH-----
T ss_pred             HHhCcc---------------hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC---cHHHHHHHHHHHHHHhH-----
Confidence            423322               1223344588899999999999998876554222   22221    12222221     


Q ss_pred             HHHHHHhCCCHHHHHHHHHhh
Q 024447          162 KRALRICSQDVGSAIDFLVEE  182 (267)
Q Consensus       162 r~ALr~~~gdve~A~~wL~~~  182 (267)
                         +....|+.+.|+.++..-
T Consensus       126 ---~~~~~~~~~~A~~~~~~a  143 (228)
T 4i17_A          126 ---KFQQAGNIEKAEENYKHA  143 (228)
T ss_dssp             ---HHHHTTCHHHHHHHHHHH
T ss_pred             ---HHHHhccHHHHHHHHHHH
Confidence               123467888888877443

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=96.36  E-value=0.039  Score=41.00  Aligned_cols=98  Identities=15%  Similarity=0.075  Sum_probs=67.7

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      +-.+.++|..++++++|++|+.++-.|=+..           -+.+....-+.+||+.+++   .++|..       .|+
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-----------p~~~~~~~~~a~~~~~~~~---~~~A~~-------~~~   62 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-----------PEDARGYSNRAAALAKLMS---FPEAIA-------DCN   62 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------TTCHHHHHHHHHHHHHTTC---HHHHHH-------HHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-----------CCChHHHHHHHHHHHHhcC---HHHHHH-------HHH
Confidence            4568899999999999999999998775442           2345677788999998875   344444       444


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                      ++.-.++          ..-.+.     ..-|.+.+..|+.++|...+.++-..
T Consensus        63 ~al~~~p----------~~~~~~-----~~lg~~~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           63 KAIEKDP----------NFVRAY-----IRKATAQIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHHHHCT----------TCHHHH-----HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCC----------CcHHHH-----HHHHHHHHHHhCHHHHHHHHHHHHHh
Confidence            4331121          111223     33488899999999999988876544

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=96.34  E-value=0.048  Score=45.55  Aligned_cols=123  Identities=14%  Similarity=-0.016  Sum_probs=80.2

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCC----------CCHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDI----------SWLSEAGI   73 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~----------~~l~dA~~   73 (267)
                      +..++..|......++|++|+.++..|-+.+...+..     ...+.....+.++|..+.+.          ...++|..
T Consensus        83 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~  157 (338)
T 3ro2_A           83 AKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDK-----VGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRN  157 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH-----HHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCc-----hHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHH
Confidence            3456777888899999999999998888777654432     23456677889999998872          22445555


Q ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhcc
Q 024447           74 RLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQ  140 (267)
Q Consensus        74 rL~~ae~~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~  140 (267)
                      .+..|...|+++.-    -...+ +    ........+...|.+.+..|+.++|...+..+-...+.
T Consensus       158 ~~~~A~~~~~~a~~----~~~~~-~----~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~  215 (338)
T 3ro2_A          158 ALQAAVDLYEENLS----LVTAL-G----DRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKE  215 (338)
T ss_dssp             HHHHHHHHHHHHHH----HHHHH-T----CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH----HHHhc-C----CHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHh
Confidence            56666666665540    00000 1    11223344555688888999999999998877554443

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=96.33  E-value=0.065  Score=47.78  Aligned_cols=112  Identities=11%  Similarity=0.073  Sum_probs=80.6

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA   85 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~   85 (267)
                      .++-+|.....+++|++|+.++..|-+.+..-+..     ...|.....+.++|+.++   ..+.|...+.+|-+.|.+.
T Consensus       103 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~-----~~~a~~~~~lg~~y~~~~---~~~~A~~~~~~al~~~~~~  174 (378)
T 3q15_A          103 SLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDD-----IEKAEFHFKVAEAYYHMK---QTHVSMYHILQALDIYQNH  174 (378)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCH-----HHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCCh-----HHHHHHHHHHHHHHHHcC---CcHHHHHHHHHHHHHHHhC
Confidence            45678999999999999999999998887665433     345667778899999877   4688999999998888765


Q ss_pred             hCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhcc
Q 024447           86 HGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQ  140 (267)
Q Consensus        86 yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~  140 (267)
                      .+.++ +              ....+..-|.+.+..|+.++|.+.+.++-....+
T Consensus       175 ~~~~~-~--------------~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~  214 (378)
T 3q15_A          175 PLYSI-R--------------TIQSLFVIAGNYDDFKHYDKALPHLEAALELAMD  214 (378)
T ss_dssp             TTCHH-H--------------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             CCchh-h--------------HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHH
Confidence            43121 1              1122233477777888888888888766554433

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=96.32  E-value=0.087  Score=46.85  Aligned_cols=111  Identities=13%  Similarity=0.098  Sum_probs=79.1

Q ss_pred             hhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHh
Q 024447            7 LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAH   86 (267)
Q Consensus         7 l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~y   86 (267)
                      ++-+|...+.+++|++|+.++..|-+.+...+...     ..|.....+.|||+.+++   .+.|...+.+|-+.+.+.-
T Consensus       106 ~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~-----~~a~~~~~lg~~~~~~~~---~~~A~~~~~~al~~~~~~~  177 (383)
T 3ulq_A          106 NFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRI-----EKAEFFFKMSESYYYMKQ---TYFSMDYARQAYEIYKEHE  177 (383)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHH-----HHHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHHHTCS
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHH-----HHHHHHHHHHHHHHHcCC---HHHHHHHHHHHHHHHHhCc
Confidence            34589999999999999999999998876654332     356677889999999764   6889999999988887652


Q ss_pred             CCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhcc
Q 024447           87 GKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQ  140 (267)
Q Consensus        87 G~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~  140 (267)
                       ....+.              .+.+..-|.+.+..|+.++|...+.++-...++
T Consensus       178 -~~~~~~--------------~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~  216 (383)
T 3ulq_A          178 -AYNIRL--------------LQCHSLFATNFLDLKQYEDAISHFQKAYSMAEA  216 (383)
T ss_dssp             -TTHHHH--------------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             -cchHHH--------------HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHH
Confidence             212221              122333466777778888888877766544443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=96.32  E-value=0.047  Score=40.12  Aligned_cols=103  Identities=16%  Similarity=0.109  Sum_probs=66.2

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER   84 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r   84 (267)
                      -.++.+|..+++.++|++|+..+-.+-+.+....        ..+-...-+.+||+.+++   .++|.       ..|++
T Consensus         3 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~--------~~~~~~~~lg~~~~~~~~---~~~A~-------~~~~~   64 (129)
T 2xev_A            3 RTAYNVAFDALKNGKYDDASQLFLSFLELYPNGV--------YTPNALYWLGESYYATRN---FQLAE-------AQFRD   64 (129)
T ss_dssp             CCHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSST--------THHHHHHHHHHHHHHTTC---HHHHH-------HHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHCCCCc--------ccHHHHHHHHHHHHHhcc---HHHHH-------HHHHH
Confidence            4578899999999999999999988766554321        011345668999998876   34444       44443


Q ss_pred             HhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447           85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus        85 ~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                      ..-.++       .+.....+++     .-|.+.+..|+.++|...+..+-..
T Consensus        65 ~~~~~p-------~~~~~~~~~~-----~la~~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           65 LVSRYP-------THDKAAGGLL-----KLGLSQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHCT-------TSTTHHHHHH-----HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCC-------CCcccHHHHH-----HHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            331111       0000122333     3388888999999999988866554

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=96.30  E-value=0.1  Score=46.09  Aligned_cols=150  Identities=9%  Similarity=-0.022  Sum_probs=96.9

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      +..++..|...++.++|++|+.++-.|-+.+......     ...+.....+.+||+.+++   .++|...+.++-+.+.
T Consensus       223 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~-----~~~~~~~~~la~~~~~~g~---~~~A~~~~~~al~~~~  294 (411)
T 4a1s_A          223 GRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDR-----AAERRANSNLGNSHIFLGQ---FEDAAEHYKRTLALAV  294 (411)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH-----HHHHHHHHHHHHHHHTTTC---HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCc-----HHHHHHHHHHHHHHHHCcC---HHHHHHHHHHHHHHHH
Confidence            4567888999999999999999999988776653221     2234566778888887764   6788888887777665


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhCCCCHHHHHH
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKR  163 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MGF~~~~Ar~  163 (267)
                      +. |...               .....+..-|.+.+..|+.++|..++..+-....+..-.......+..+|        
T Consensus       295 ~~-~~~~---------------~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la--------  350 (411)
T 4a1s_A          295 EL-GERE---------------VEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLG--------  350 (411)
T ss_dssp             HT-TCHH---------------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH--------
T ss_pred             Hc-CCHH---------------HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHH--------
Confidence            53 2211               11233444578888999999999999877554433321111111221111        


Q ss_pred             HHHHhCCCHHHHHHHHHhhhhh
Q 024447          164 ALRICSQDVGSAIDFLVEEKAK  185 (267)
Q Consensus       164 ALr~~~gdve~A~~wL~~~~~d  185 (267)
                      -+....|+.+.|+.++..-..-
T Consensus       351 ~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          351 NAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHH
Confidence            1233468999999987655443

>1q02_A Sequestosome 1; helical bundle, protein binding; NMR {Homo sapiens} SCOP: a.5.2.1 PDB: 2jy7_A 2jy8_A 2k0b_X 2knv_A 2rru_A 3b0f_A

Probab=96.26  E-value=0.0029  Score=43.72  Aligned_cols=35  Identities=40%  Similarity=0.627  Sum_probs=30.9

Q ss_pred             hhHhhHHhCCCCHHHHH--HHHHHhCCCHHHHHHHHH
Q 024447          146 ESLSLVMSMGFKEQDAK--RALRICSQDVGSAIDFLV  180 (267)
Q Consensus       146 ~~l~~L~~MGF~~~~Ar--~ALr~~~gdve~A~~wL~  180 (267)
                      +.|+++++|||+-+..-  +.|...+|||.+|++-|.
T Consensus        12 ~al~qMl~MGF~negGWLt~LL~~k~gDI~~aLD~lq   48 (52)
T 1q02_A           12 ESLSQMLSMGFSDEGGWLTRLLQTKNYDIGAALDTIQ   48 (52)
T ss_dssp             HHHHHHHTTTCCCTTSHHHHHHHHTTTCHHHHHHHHT
T ss_pred             HHHHHHHHcCCCccccHHHHHHHHccCCHHHHHHHhh
Confidence            67999999999998885  778889999999999764

>1wgl_A TOLL-interacting protein; CUE domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, immune system; NMR {Homo sapiens} SCOP: a.5.2.4

Probab=96.24  E-value=0.0067  Score=42.96  Aligned_cols=40  Identities=15%  Similarity=0.357  Sum_probs=35.5

Q ss_pred             CcCCHHHHHHHHhC--CCCHHHHHHHHHHcCCCHHHHHH-hcc
Q 024447          213 KAVDIEKIKELVSI--GFEKELVAEALRRNENDSQKALD-DLT  252 (267)
Q Consensus       213 ~~vd~e~v~~L~~M--GF~~~~A~~ALr~t~ndve~Ald-lL~  252 (267)
                      ..+..+.|.+|.+|  ++++..++.+|+.++||++.|++ +|.
T Consensus         6 ~~~~ee~l~~L~emFP~ld~~~I~~vL~a~~gdvd~aI~~LL~   48 (59)
T 1wgl_A            6 SGCSEEDLKAIQDMFPNMDQEVIRSVLEAQRGNKDAAINSLLQ   48 (59)
T ss_dssp             SSSCHHHHHHHHHHCSSSCHHHHHHHHTTTTTCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHc
Confidence            34688999999999  67899999999999999999999 544

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=96.21  E-value=0.075  Score=44.33  Aligned_cols=147  Identities=12%  Similarity=-0.007  Sum_probs=93.8

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      +..++..|...+..++|++|+.++-.|=+.+...+.     ....+.....++++|+.+++   .++|...+.++-+.+.
T Consensus       183 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~al~~~~  254 (338)
T 3ro2_A          183 GRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGD-----KAAERRAYSNLGNAYIFLGE---FETASEYYKKTLLLAR  254 (338)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTC-----HHHHHHHHHHHHHHHHHHTC---HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCC-----hHHHHHHHHHHHHHHHHcCC---HHHHHHHHHHHHHHHH
Confidence            456778899999999999999999888776654322     22345567788999998875   5677777777766655


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhCCCCHHHHHH
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKR  163 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MGF~~~~Ar~  163 (267)
                      +.- ..               .........-|.+.+..|+.++|...+..+-...++..-.......+..+|      . 
T Consensus       255 ~~~-~~---------------~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la------~-  311 (338)
T 3ro2_A          255 QLK-DR---------------AVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLG------N-  311 (338)
T ss_dssp             HTT-CH---------------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH------H-
T ss_pred             hhc-ch---------------hHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHH------H-
Confidence            431 11               112233444578888999999999998877554443322111111222211      1 


Q ss_pred             HHHHhCCCHHHHHHHHHhh
Q 024447          164 ALRICSQDVGSAIDFLVEE  182 (267)
Q Consensus       164 ALr~~~gdve~A~~wL~~~  182 (267)
                       +....|+.+.|..++..-
T Consensus       312 -~~~~~g~~~~A~~~~~~a  329 (338)
T 3ro2_A          312 -AYTALGNHDQAMHFAEKH  329 (338)
T ss_dssp             -HHHHHTCHHHHHHHHHHH
T ss_pred             -HHHHcCChHHHHHHHHHH
Confidence             123357899999887443

>1otr_A Protein CUE2; protein-protein complex, cell cycle; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.4

Probab=96.16  E-value=0.0055  Score=41.91  Aligned_cols=40  Identities=23%  Similarity=0.377  Sum_probs=35.5

Q ss_pred             hhhHhhHHhC--CCCHHHHHHHHHHhCCCHHHHHHHHHhhhh
Q 024447          145 DESLSLVMSM--GFKEQDAKRALRICSQDVGSAIDFLVEEKA  184 (267)
Q Consensus       145 ~~~l~~L~~M--GF~~~~Ar~ALr~~~gdve~A~~wL~~~~~  184 (267)
                      ++.+..|.+|  .-+...++.+|+.++||+++|++-|++..+
T Consensus         5 e~~v~~L~EMFP~~~~~~ik~~L~~~~Gd~d~Ai~~LL~~~~   46 (49)
T 1otr_A            5 ESKLSILMDMFPAISKSKLQVHLLENNNDLDLTIGLLLKEND   46 (49)
T ss_dssp             HHHHHHHHHHCSSSCHHHHHHHHHHTTTCSHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHhccc
Confidence            4678899999  678999999999999999999999988743

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=96.13  E-value=0.12  Score=42.23  Aligned_cols=113  Identities=16%  Similarity=0.045  Sum_probs=81.3

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      +..+...|...+..++|++|+.++..|=+.+.....   ..--+.+.....+.+||+.++   ..+.|...+.++-+.++
T Consensus        85 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~---~~~~~~~~~~~~la~~~~~~g---~~~~A~~~~~~al~~~~  158 (283)
T 3edt_B           85 AATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLG---KFHPDVAKQLNNLALLCQNQG---KAEEVEYYYRRALEIYA  158 (283)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcC---CCChHHHHHHHHHHHHHHHcC---CHHHHHHHHHHHHHHHH
Confidence            456778899999999999999999988776532200   001234556677889998776   46889999999999888


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                      +.+|.+....              ...+..-|.+.+..|+.++|...+..+-.
T Consensus       159 ~~~~~~~~~~--------------~~~~~~la~~~~~~g~~~~A~~~~~~~l~  197 (283)
T 3edt_B          159 TRLGPDDPNV--------------AKTKNNLASCYLKQGKYQDAETLYKEILT  197 (283)
T ss_dssp             HHSCTTCHHH--------------HHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HhcCCCCHHH--------------HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            8877653322              22233447788899999999998876644

>1wgl_A TOLL-interacting protein; CUE domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, immune system; NMR {Homo sapiens} SCOP: a.5.2.4

Probab=96.09  E-value=0.0065  Score=43.02  Aligned_cols=44  Identities=16%  Similarity=0.234  Sum_probs=38.6

Q ss_pred             CCCChhhHhhHHhC--CCCHHHHHHHHHHhCCCHHHHHHHHHhhhh
Q 024447          141 LQVPDESLSLVMSM--GFKEQDAKRALRICSQDVGSAIDFLVEEKA  184 (267)
Q Consensus       141 l~vd~~~l~~L~~M--GF~~~~Ar~ALr~~~gdve~A~~wL~~~~~  184 (267)
                      ..+.++.+.+|.+|  +++....+.+|++++||+|.|++-|++...
T Consensus         6 ~~~~ee~l~~L~emFP~ld~~~I~~vL~a~~gdvd~aI~~LL~m~~   51 (59)
T 1wgl_A            6 SGCSEEDLKAIQDMFPNMDQEVIRSVLEAQRGNKDAAINSLLQMGE   51 (59)
T ss_dssp             SSSCHHHHHHHHHHCSSSCHHHHHHHHTTTTTCHHHHHHHHHHSSC
T ss_pred             CCCCHHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcCcC
Confidence            45688999999999  567899999999999999999999987643

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=96.05  E-value=0.11  Score=45.10  Aligned_cols=148  Identities=12%  Similarity=-0.005  Sum_probs=95.7

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      +..+...|...+..++|++|+.++-.|-+.+...+..     ...+.....+.+||+.+++   .+.|...+.++-+.+.
T Consensus       187 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~-----~~~~~~~~~la~~~~~~g~---~~~A~~~~~~al~~~~  258 (406)
T 3sf4_A          187 GRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDK-----AAERRAYSNLGNAYIFLGE---FETASEYYKKTLLLAR  258 (406)
T ss_dssp             HHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCH-----HHHHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCc-----HHHHHHHHHHHHHHHHcCC---hHHHHHHHHHHHHHHH
Confidence            4467788999999999999999999998887765432     2345567788999988765   5777777777776665


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhCCCCHHHHHH
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKR  163 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MGF~~~~Ar~  163 (267)
                      +.- ..               ......+..-|.+.+..|+.++|...+..+-....+..-.+.....+..+|        
T Consensus       259 ~~~-~~---------------~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la--------  314 (406)
T 3sf4_A          259 QLK-DR---------------AVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLG--------  314 (406)
T ss_dssp             HTT-CH---------------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH--------
T ss_pred             hCc-Cc---------------hHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHH--------
Confidence            531 11               112233344578888999999999999877554444322222122222111        


Q ss_pred             HHHHhCCCHHHHHHHHHhhh
Q 024447          164 ALRICSQDVGSAIDFLVEEK  183 (267)
Q Consensus       164 ALr~~~gdve~A~~wL~~~~  183 (267)
                      -+....|+.+.|+.++..-.
T Consensus       315 ~~~~~~g~~~~A~~~~~~al  334 (406)
T 3sf4_A          315 NAYTALGNHDQAMHFAEKHL  334 (406)
T ss_dssp             HHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHH
Confidence            01223578888888765543

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=96.01  E-value=0.036  Score=43.41  Aligned_cols=98  Identities=16%  Similarity=0.171  Sum_probs=68.2

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      +-.++..|..++++++|++|+.++-.|=+..           -+.+.....+.+||+.+++   ..+|.       ..|+
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-----------p~~~~~~~~l~~~~~~~g~---~~~A~-------~~~~   69 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSIA-----------PANPIYLSNRAAAYSASGQ---HEKAA-------EDAE   69 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-----------TTCHHHHHHHHHHHHHTTC---HHHHH-------HHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-----------CcCHHHHHHHHHHHHHccC---HHHHH-------HHHH
Confidence            4568899999999999999999998875543           2346677888999999875   34444       4444


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                      +..-.++.          .     ...+..-|.+.+..|+.++|...+..+-..
T Consensus        70 ~al~~~p~----------~-----~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           70 LATVVDPK----------Y-----SKAWSRLGLARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHHCTT----------C-----HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCCC----------C-----HHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            44322221          1     222334488899999999999988866443

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=95.98  E-value=0.091  Score=41.40  Aligned_cols=114  Identities=12%  Similarity=-0.043  Sum_probs=80.4

Q ss_pred             hhhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 024447            3 MGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGI   82 (267)
Q Consensus         3 ~~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f   82 (267)
                      .+..++..|...+..++|++|+.++..|=+.+..-+..    ....+.....+.++|+.+++   .++|...+.++-+.+
T Consensus        65 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~----~~~~~~~~~~lg~~~~~~g~---~~~A~~~~~~al~~~  137 (203)
T 3gw4_A           65 EHRALHQVGMVERMAGNWDAARRCFLEERELLASLPED----PLAASANAYEVATVALHFGD---LAGARQEYEKSLVYA  137 (203)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCC----HHHHHHHHHHHHHHHHHHTC---HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCcc----HHHHHHHHHHHHHHHHHhCC---HHHHHHHHHHHHHHH
Confidence            35677888999999999999999999998887654421    12346677888999999876   567877777776664


Q ss_pred             HHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhc
Q 024447           83 ERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFF  139 (267)
Q Consensus        83 ~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~  139 (267)
                      ++. |...               .....+..-|.+.+..|+.++|...+..+-+...
T Consensus       138 ~~~-~~~~---------------~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  178 (203)
T 3gw4_A          138 QQA-DDQV---------------AIACAFRGLGDLAQQEKNLLEAQQHWLRARDIFA  178 (203)
T ss_dssp             HHT-TCHH---------------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             Hhc-cchH---------------HHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence            432 1111               1122234458888899999999998886654433

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=95.85  E-value=0.31  Score=43.20  Aligned_cols=150  Identities=10%  Similarity=-0.010  Sum_probs=100.8

Q ss_pred             hhhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 024447            3 MGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGI   82 (267)
Q Consensus         3 ~~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f   82 (267)
                      .+..++..|......++|++|+..+..|=+.|..-+..    -.+.+.....+.+||..+++   .+.|...+.+|-+.+
T Consensus       142 ~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~----~~~~~~~~~~lg~~~~~~g~---~~~A~~~~~~al~~~  214 (383)
T 3ulq_A          142 KAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAY----NIRLLQCHSLFATNFLDLKQ---YEDAISHFQKAYSMA  214 (383)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTT----HHHHHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccc----hHHHHHHHHHHHHHHHHhcC---HHHHHHHHHHHHHHH
Confidence            35677888999999999999999999999888776431    12345566777888888764   678888888888777


Q ss_pred             HHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhCCCCHHHHH
Q 024447           83 ERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAK  162 (267)
Q Consensus        83 ~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MGF~~~~Ar  162 (267)
                      .+. |..+.               ..+.+.--|++.+..|+.++|...+.++-....+....+.....+..+|.      
T Consensus       215 ~~~-~~~~~---------------~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~------  272 (383)
T 3ulq_A          215 EAE-KQPQL---------------MGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQ------  272 (383)
T ss_dssp             HHT-TCHHH---------------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHH------
T ss_pred             HHc-CChHH---------------HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHH------
Confidence            654 22111               11222334888999999999999998776543333221333334444331      


Q ss_pred             HHHHHhCCCHHHHHHHHHhhh
Q 024447          163 RALRICSQDVGSAIDFLVEEK  183 (267)
Q Consensus       163 ~ALr~~~gdve~A~~wL~~~~  183 (267)
                        +....|+.+.|..++..-.
T Consensus       273 --~~~~~g~~~~A~~~~~~al  291 (383)
T 3ulq_A          273 --IHYKLGKIDKAHEYHSKGM  291 (383)
T ss_dssp             --HHHHTTCHHHHHHHHHHHH
T ss_pred             --HHHHCCCHHHHHHHHHHHH
Confidence              2233678999998875544

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=95.81  E-value=0.42  Score=42.44  Aligned_cols=144  Identities=14%  Similarity=-0.025  Sum_probs=95.3

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      +..+.--|....+.++|++|+..+..|=+.+...+...     ..+.....+.|||+.+++   .+.|...+.+|-+.++
T Consensus       182 ~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~-----~~~~~~~~lg~~y~~~~~---~~~A~~~~~~al~~~~  253 (378)
T 3q15_A          182 IQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDR-----FIAISLLNIANSYDRSGD---DQMAVEHFQKAAKVSR  253 (378)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH-----HHHHHHHHHHHHHHHHTC---HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHH-----HHHHHHHHHHHHHHHCCC---HHHHHHHHHHHHHHHH
Confidence            45566788999999999999999999988776554332     456677789999999875   5778887877777766


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhCCCCHHHHHH
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKR  163 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MGF~~~~Ar~  163 (267)
                      ..-            .  +..   ......-|.+.+..|+.++|...+.++-+...+.. ++.....+        ....
T Consensus       254 ~~~------------~--~~~---~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~-~~~~~~~~--------~~l~  307 (378)
T 3q15_A          254 EKV------------P--DLL---PKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARS-HKFYKELF--------LFLQ  307 (378)
T ss_dssp             HHC------------G--GGH---HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTC-CSCHHHHH--------HHHH
T ss_pred             hhC------------C--hhH---HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcC-CHHHHHHH--------HHHH
Confidence            542            1  111   22233448888999999999999987766444331 22111111        1122


Q ss_pred             HHHHhCCC---HHHHHHHHHh
Q 024447          164 ALRICSQD---VGSAIDFLVE  181 (267)
Q Consensus       164 ALr~~~gd---ve~A~~wL~~  181 (267)
                      ++....|+   ++.|+.++..
T Consensus       308 ~ly~~~~~~~~~~~al~~~~~  328 (378)
T 3q15_A          308 AVYKETVDERKIHDLLSYFEK  328 (378)
T ss_dssp             HHHSSSCCHHHHHHHHHHHHH
T ss_pred             HHHhCCCcHHHHHHHHHHHHh
Confidence            33344556   7777777644

>4dbg_B Ring finger protein 31; ubiquitin fold, ubiquitination, ligase; 2.71A {Homo sapiens}

Probab=95.81  E-value=0.018  Score=48.47  Aligned_cols=58  Identities=21%  Similarity=0.268  Sum_probs=46.8

Q ss_pred             HhhhhccCCchhHhh-hhHhhHhhhccCCCChhhHhhHHhCC-CCHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447          115 GVAAYHSGQFDKARN-ALTSAQAKFFQLQVPDESLSLVMSMG-FKEQDAKRALRICSQDVGSAIDFLVEEK  183 (267)
Q Consensus       115 g~v~~h~g~~d~A~~-~l~~a~~~~~~l~vd~~~l~~L~~MG-F~~~~Ar~ALr~~~gdve~A~~wL~~~~  183 (267)
                      .|+. |.||.++|.. .+...+          .++..|++.| |+..++..||+..+|||+.|+--|....
T Consensus        83 Aw~~-~~Gd~~~Av~~ci~~R~----------~K~~eL~s~G~~~~~~~~~aL~~~~Gdv~~Al~eLqr~l  142 (162)
T 4dbg_B           83 AWLD-RHGNLDEAVEECVRTRR----------RKVQELQSLGFGPEEGSLQALFQHGGDVSRALTELQRQR  142 (162)
T ss_dssp             HHHH-TTTCHHHHHHHHHHHHH----------HHHHHHHHTTCCGGGTHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHH-ccCChHHHHHHHHHHHH----------HHHHHHHhcCCchHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            5556 8899998887 444444          4588899999 8899999999999999999998775543

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=95.76  E-value=0.28  Score=42.59  Aligned_cols=147  Identities=14%  Similarity=0.040  Sum_probs=95.2

Q ss_pred             hhhhhHhHHHHHHhhc--------------------hHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhC
Q 024447            4 GLMLHANAKSLIKRHM--------------------YKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLR   63 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~--------------------y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~   63 (267)
                      +..+...|......++                    |++|+.++..|-+.+...+.     -...+.....+.++|+.++
T Consensus       127 ~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~-----~~~~~~~~~~la~~~~~~g  201 (406)
T 3sf4_A          127 ARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGD-----RAAQGRAFGNLGNTHYLLG  201 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTC-----HHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccC-----cHHHHHHHHHHHHHHHHcc
Confidence            4467788889999999                    99999988888776654432     2345667778899999887


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCC
Q 024447           64 DISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQV  143 (267)
Q Consensus        64 ~~~~l~dA~~rL~~ae~~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~v  143 (267)
                      +   .++|...+.+|-+.+.+. |...               .....+..-|.+.+..|+.++|...+..+-...+....
T Consensus       202 ~---~~~A~~~~~~al~~~~~~-~~~~---------------~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  262 (406)
T 3sf4_A          202 N---FRDAVIAHEQRLLIAKEF-GDKA---------------AERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKD  262 (406)
T ss_dssp             B---HHHHHHHHHHHHHHHHHT-TCHH---------------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             C---HHHHHHHHHHHHHHHHhc-CCcH---------------HHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcC
Confidence            5   677888888777766652 1211               11234445588888999999999999877654444322


Q ss_pred             ChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhh
Q 024447          144 PDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEE  182 (267)
Q Consensus       144 d~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~  182 (267)
                      .......+..+|.        +....|+.+.|+.++..-
T Consensus       263 ~~~~~~~~~~la~--------~~~~~g~~~~A~~~~~~a  293 (406)
T 3sf4_A          263 RAVEAQSCYSLGN--------TYTLLQDYEKAIDYHLKH  293 (406)
T ss_dssp             HHHHHHHHHHHHH--------HHHHTTCHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHH--------HHHHhCcHHHHHHHHHHH
Confidence            2222222222221        223367888888876443

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=95.75  E-value=0.068  Score=49.07  Aligned_cols=109  Identities=17%  Similarity=0.082  Sum_probs=76.4

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccC-----ChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLC-----DPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKA   78 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c-----~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~a   78 (267)
                      +-.+...|..++++++|++|+..+-.|=+.+..+     ..+..+.-.+.+.+...+.|||+.+++          ...|
T Consensus       223 a~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~----------~~~A  292 (370)
T 1ihg_A          223 SEDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSD----------WQGA  292 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTC----------HHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccC----------HHHH
Confidence            4457889999999999999999998887755442     112222334567778889999999886          3455


Q ss_pred             HHHHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447           79 REGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus        79 e~~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                      ...|.+..-.++          ..-.+++.+     |.+.+..|+.++|...+..+-..
T Consensus       293 ~~~~~~al~~~p----------~~~~a~~~l-----g~~~~~~g~~~eA~~~l~~Al~l  336 (370)
T 1ihg_A          293 VDSCLEALEIDP----------SNTKALYRR-----AQGWQGLKEYDQALADLKKAQEI  336 (370)
T ss_dssp             HHHHHHHHTTCT----------TCHHHHHHH-----HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCc----------hhHHHHHHH-----HHHHHHccCHHHHHHHHHHHHHh
Confidence            666666654443          223344444     88889999999999888866543

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=95.63  E-value=0.33  Score=39.18  Aligned_cols=139  Identities=17%  Similarity=0.044  Sum_probs=76.5

Q ss_pred             hhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHH-----
Q 024447            7 LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREG-----   81 (267)
Q Consensus         7 l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~-----   81 (267)
                      +...|...++.++|++|+.++..|=+......+    .....+.....++.||..+++   .++|..-+.++-+.     
T Consensus        41 ~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~---~~~A~~~~~~a~~~~~~~~  113 (258)
T 3uq3_A           41 LNNRAAAEYEKGEYETAISTLNDAVEQGREMRA----DYKVISKSFARIGNAYHKLGD---LKKTIEYYQKSLTEHRTAD  113 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHCCCHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHhCccccc----chHHHHHHHHHHHHHHHHccc---HHHHHHHHHHHHhcCchhH
Confidence            344555555555555555555554443322211    111226677788889988765   46677766666552     


Q ss_pred             --------------HHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChhh
Q 024447           82 --------------IERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDES  147 (267)
Q Consensus        82 --------------f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~  147 (267)
                                    |++....            .++   ....+...|.+.+..|+.++|...+.++-...      +..
T Consensus       114 ~~~~~~~~~~a~~~~~~~~~~------------~~~---~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~------~~~  172 (258)
T 3uq3_A          114 ILTKLRNAEKELKKAEAEAYV------------NPE---KAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA------PED  172 (258)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC------------CHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------TTC
T ss_pred             HHHHHhHHHHHHHHHHHHHHc------------Ccc---hHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC------ccc
Confidence                          2221111            121   12344556888999999999999988765432      211


Q ss_pred             HhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHh
Q 024447          148 LSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE  181 (267)
Q Consensus       148 l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~  181 (267)
                      ...+..+|        -+....|+.+.|+.++..
T Consensus       173 ~~~~~~l~--------~~~~~~~~~~~A~~~~~~  198 (258)
T 3uq3_A          173 ARGYSNRA--------AALAKLMSFPEAIADCNK  198 (258)
T ss_dssp             HHHHHHHH--------HHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHH--------HHHHHhCCHHHHHHHHHH
Confidence            12222211        112346788888887744

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=95.60  E-value=0.45  Score=38.32  Aligned_cols=103  Identities=13%  Similarity=0.024  Sum_probs=71.5

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      +-.+...|..+++.++|++|+.++-.|=+..            +.+....-+.+||+.+++   .+.|..-+.++-+...
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~------------~~~~~~~~~~~~~~~~~~---~~~A~~~~~~a~~~~~   69 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH------------KDITYLNNRAAAEYEKGE---YETAISTLNDAVEQGR   69 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS------------CCTHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh------------ccHHHHHHHHHHHHHccc---HHHHHHHHHHHHHhCc
Confidence            4568899999999999999999999887654            223455678999999875   4556555555544433


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                      ...               +........+..-|.+.+..|+.++|...+.++-.
T Consensus        70 ~~~---------------~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~  107 (258)
T 3uq3_A           70 EMR---------------ADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLT  107 (258)
T ss_dssp             HTT---------------CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccc---------------cchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHh
Confidence            221               11222344555568888899999999998877654

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=95.56  E-value=0.11  Score=38.43  Aligned_cols=98  Identities=16%  Similarity=0.191  Sum_probs=68.1

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      +..++..|..+++.++|++|+.++-.|=+...           +.+.....+.+||+.+++.   ++|...+.++-+.  
T Consensus         9 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~-----------~~~~~~~~l~~~~~~~~~~---~~A~~~~~~al~~--   72 (137)
T 3q49_B            9 AQELKEQGNRLFVGRKYPEAAACYGRAITRNP-----------LVAVYYTNRALCYLKMQQP---EQALADCRRALEL--   72 (137)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-----------TCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCc-----------CcHHHHHHHHHHHHHhcCH---HHHHHHHHHHHHh--
Confidence            45678999999999999999999988766532           2355677889999988764   4444444433321  


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                           ++.         .      ...+..-|.+.+..|+.++|...+..+-..
T Consensus        73 -----~p~---------~------~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           73 -----DGQ---------S------VKAHFFLGQCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             -----CTT---------C------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             -----Cch---------h------HHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence                 111         1      122334588899999999999988876544

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=95.52  E-value=0.21  Score=44.02  Aligned_cols=147  Identities=14%  Similarity=0.081  Sum_probs=92.9

Q ss_pred             hhhhhHhHHHHHHhhc-----------------hHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCC
Q 024447            4 GLMLHANAKSLIKRHM-----------------YKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDIS   66 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~-----------------y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~   66 (267)
                      +..+...|......++                 |++|+.++-.|-+.+...+     .....+.....+.++|+.+++  
T Consensus       166 ~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~-----~~~~~~~~~~~la~~~~~~g~--  238 (411)
T 4a1s_A          166 GRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLG-----DRGAQGRACGNLGNTYYLLGD--  238 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHT-----CHHHHHHHHHHHHHHHHHTTC--
T ss_pred             HHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcC-----CHHHHHHHHHHHHHHHHHcCC--
Confidence            3456778888899999                 7777777777655543322     223456677788999998765  


Q ss_pred             CHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChh
Q 024447           67 WLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDE  146 (267)
Q Consensus        67 ~l~dA~~rL~~ae~~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~  146 (267)
                       .++|...+.++-+.+.+. |....               ..+.+..-|.+.+..|+.++|...+..+-....+......
T Consensus       239 -~~~A~~~~~~al~~~~~~-~~~~~---------------~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  301 (411)
T 4a1s_A          239 -FQAAIEHHQERLRIAREF-GDRAA---------------ERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREV  301 (411)
T ss_dssp             -HHHHHHHHHHHHHHHHHH-TCHHH---------------HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             -hHHHHHHHHHHHHHHHhc-CCcHH---------------HHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHH
Confidence             677888888877776652 22211               1233444588888999999999999877655444322211


Q ss_pred             hHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhh
Q 024447          147 SLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEE  182 (267)
Q Consensus       147 ~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~  182 (267)
                      ....+..+|        -+....|+.+.|..++..-
T Consensus       302 ~~~~~~~la--------~~~~~~g~~~~A~~~~~~a  329 (411)
T 4a1s_A          302 EAQSCYSLG--------NTYTLLHEFNTAIEYHNRH  329 (411)
T ss_dssp             HHHHHHHHH--------HHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHH--------HHHHHcCCHHHHHHHHHHH
Confidence            122222211        1233468899999887544

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=95.42  E-value=0.37  Score=33.77  Aligned_cols=96  Identities=13%  Similarity=0.022  Sum_probs=65.0

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER   84 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r   84 (267)
                      -.++..|..++..++|++|+.++..|=+.+.           +.+.....+.+||+.+++   .++|...+.++-+.   
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-----------~~~~~~~~~a~~~~~~~~---~~~A~~~~~~~~~~---   67 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKLDP-----------HNHVLYSNRSAAYAKKGD---YQKAYEDGCKTVDL---   67 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-----------TCHHHHHHHHHHHHHHTC---HHHHHHHHHHHHHH---
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-----------CcHHHHHHHHHHHHhhcc---HHHHHHHHHHHHHh---
Confidence            4578899999999999999999988765432           224566778899998875   34454444443322   


Q ss_pred             HhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        85 ~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                          ++         .. .     ..+..-|.+.+..|+.++|...+..+-.
T Consensus        68 ----~~---------~~-~-----~~~~~~a~~~~~~~~~~~A~~~~~~~~~  100 (118)
T 1elw_A           68 ----KP---------DW-G-----KGYSRKAAALEFLNRFEEAKRTYEEGLK  100 (118)
T ss_dssp             ----CT---------TC-H-----HHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             ----Cc---------cc-H-----HHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence                11         11 1     1233347788899999999998876543

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=95.38  E-value=0.076  Score=51.35  Aligned_cols=124  Identities=11%  Similarity=0.134  Sum_probs=92.1

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhh----hhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMG----EEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKARE   80 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~a----d~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~   80 (267)
                      ..+.+++..+..+|+|++|+.++..|    .+.|..-.+.++.+.+|.|.+-          .+....++|.....++-.
T Consensus       310 ~~~le~a~~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y----------~~~g~~~eA~~~~~~aL~  379 (490)
T 3n71_A          310 KDTLEKIDKARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVL----------SYLQAYEEASHYARRMVD  379 (490)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHH----------HHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHH----------HHhcCHHHHHHHHHHHHH
Confidence            34567888888999999999877655    5567788899999999988764          234678999999999999


Q ss_pred             HHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhcc-CCCChhhHhhHH
Q 024447           81 GIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQ-LQVPDESLSLVM  152 (267)
Q Consensus        81 ~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~-l~vd~~~l~~L~  152 (267)
                      .+++.||.++--+.....+      |        |.+.+++|+.++|..++.+|-+-... +-.|...+..+.
T Consensus       380 i~~~~lG~~Hp~~a~~l~n------L--------a~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~  438 (490)
T 3n71_A          380 GYMKLYHHNNAQLGMAVMR------A--------GLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLE  438 (490)
T ss_dssp             HHHHHSCTTCHHHHHHHHH------H--------HHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHH
T ss_pred             HHHHHcCCCCHHHHHHHHH------H--------HHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHH
Confidence            9999999998776444321      1        56677999999999999877543322 233444444443

>1otr_A Protein CUE2; protein-protein complex, cell cycle; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.4

Probab=95.34  E-value=0.017  Score=39.45  Aligned_cols=35  Identities=23%  Similarity=0.272  Sum_probs=31.1

Q ss_pred             HHHHHHHhC--CCCHHHHHHHHHHcCCCHHHHHHhcc
Q 024447          218 EKIKELVSI--GFEKELVAEALRRNENDSQKALDDLT  252 (267)
Q Consensus       218 e~v~~L~~M--GF~~~~A~~ALr~t~ndve~AldlL~  252 (267)
                      +.+..|.+|  .-+...++.+|+.++||+++|+++|-
T Consensus         6 ~~v~~L~EMFP~~~~~~ik~~L~~~~Gd~d~Ai~~LL   42 (49)
T 1otr_A            6 SKLSILMDMFPAISKSKLQVHLLENNNDLDLTIGLLL   42 (49)
T ss_dssp             HHHHHHHHHCSSSCHHHHHHHHHHTTTCSHHHHHHHH
T ss_pred             HHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            568899999  78899999999999999999999543

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=95.32  E-value=0.11  Score=40.70  Aligned_cols=60  Identities=15%  Similarity=0.087  Sum_probs=42.2

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHH
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKA   78 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~a   78 (267)
                      -.+...|....++|+|++|+..+-.|=+.    +|       |.+-...-+.+||+.+++   .++|...+.++
T Consensus         6 ~iy~~lG~~~~~~g~~~~A~~~~~~al~~----~p-------~~~~~~~~la~~~~~~~~---~~~a~~~~~~~   65 (184)
T 3vtx_A            6 TIYMDIGDKKRTKGDFDGAIRAYKKVLKA----DP-------NNVETLLKLGKTYMDIGL---PNDAIESLKKF   65 (184)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH----CT-------TCHHHHHHHHHHHHHTTC---HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh----CC-------CCHHHHHHHHHHHHHCCC---HHHHHHHHHHH
Confidence            35678899999999999999999877443    22       234445667889988775   44555555444

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=95.16  E-value=0.22  Score=37.69  Aligned_cols=98  Identities=14%  Similarity=0.059  Sum_probs=67.2

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      +..++..|..+++.++|++|+..+..|=+....           .+.....+.+||+.+++   .++|..-+.++-+.  
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~-----------~~~~~~~~a~~~~~~~~---~~~A~~~~~~a~~~--   76 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELNPS-----------NAIYYGNRSLAYLRTEC---YGYALGDATRAIEL--   76 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-----------CHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-----------ChHHHHHHHHHHHHcCC---HHHHHHHHHHHHHh--
Confidence            456889999999999999999999887654322           24556678999998765   34444444443332  


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                           ++.          .-     ..+..-|.+.+..|+.++|...+.++-..
T Consensus        77 -----~~~----------~~-----~~~~~~a~~~~~~~~~~~A~~~~~~a~~~  110 (166)
T 1a17_A           77 -----DKK----------YI-----KGYYRRAASNMALGKFRAALRDYETVVKV  110 (166)
T ss_dssp             -----CTT----------CH-----HHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             -----Ccc----------cH-----HHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence                 111          11     12334588888999999999998876543

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=95.09  E-value=0.52  Score=33.63  Aligned_cols=104  Identities=14%  Similarity=0.070  Sum_probs=71.4

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      +-.++..|..+++.++|++|+.++..|=+...           +.+.....+.+||+..++   .++|...+.++-....
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-----------~~~~~~~~la~~~~~~~~---~~~A~~~~~~~~~~~~   69 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELDP-----------TNMTYITNQAAVYFEKGD---YNKCRELCEKAIEVGR   69 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-----------TCHHHHHHHHHHHHHHTC---HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-----------ccHHHHHHHHHHHHHhcc---HHHHHHHHHHHHhhcc
Confidence            34678899999999999999999988765432           224566788999998875   4566666666655443


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                      .. +.+.              ......+..-|.+.+..|+.++|...+..+-.
T Consensus        70 ~~-~~~~--------------~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  107 (131)
T 1elr_A           70 EN-REDY--------------RQIAKAYARIGNSYFKEEKYKDAIHFYNKSLA  107 (131)
T ss_dssp             HS-TTCH--------------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cc-chhH--------------HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            22 1111              11123344558888899999999998876644

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=95.07  E-value=0.39  Score=34.18  Aligned_cols=97  Identities=13%  Similarity=0.002  Sum_probs=66.0

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER   84 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r   84 (267)
                      -.++..|...+..++|++|+.++..+=+...           +.+.....+.+||+.+++   .++|..-+.++-+.   
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-----------~~~~~~~~~a~~~~~~~~---~~~A~~~~~~~~~~---   75 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVHFYGKAIELNP-----------ANAVYFCNRAAAYSKLGN---YAGAVQDCERAICI---   75 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-----------TCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHH---
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHcCC-----------CCHHHHHHHHHHHHHhhc---hHHHHHHHHHHHhc---
Confidence            4678899999999999999999987765422           235567788999998775   34444444444321   


Q ss_pred             HhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447           85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus        85 ~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                          ++         . .-     ..+..-|.+.+..|+.++|...+..+-..
T Consensus        76 ----~~---------~-~~-----~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  109 (131)
T 2vyi_A           76 ----DP---------A-YS-----KAYGRMGLALSSLNKHVEAVAYYKKALEL  109 (131)
T ss_dssp             ----CT---------T-CH-----HHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ----Cc---------c-CH-----HHHHHHHHHHHHhCCHHHHHHHHHHHHhc
Confidence                11         1 11     12234478888999999999988866543

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=95.02  E-value=0.25  Score=35.71  Aligned_cols=98  Identities=14%  Similarity=0.063  Sum_probs=65.9

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      ...+...|..+++.++|++|+.++..|=+....           .+-....+.+||+.+++   ..+|...+.++-+.  
T Consensus        16 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~-----------~~~~~~~la~~~~~~~~---~~~A~~~~~~a~~~--   79 (133)
T 2lni_A           16 ALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPK-----------DAKLYSNRAACYTKLLE---FQLALKDCEECIQL--   79 (133)
T ss_dssp             HHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTT-----------CHHHHHHHHHHHTTTTC---HHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-----------cHHHHHHHHHHHHHhcc---HHHHHHHHHHHHHh--
Confidence            346788999999999999999999888664322           24456678888877654   45555554444332  


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                           ++          ....     .+..-|.+.+..|+.++|...+..+-..
T Consensus        80 -----~~----------~~~~-----~~~~la~~~~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           80 -----EP----------TFIK-----GYTRKAAALEAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             -----CT----------TCHH-----HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             -----CC----------CchH-----HHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence                 11          1111     2233478888999999999988866543

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=95.01  E-value=0.27  Score=40.61  Aligned_cols=62  Identities=16%  Similarity=0.313  Sum_probs=45.3

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHH
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRK   77 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~   77 (267)
                      -.++.+|..++++|+|++|+..|-.+-+.+....        ..+-..+.+.+||+.+++   .+.|...+.+
T Consensus         5 ~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~--------~~~~a~~~lg~~~~~~~~---~~~A~~~~~~   66 (225)
T 2yhc_A            5 NEIYATAQQKLQDGNWRQAITQLEALDNRYPFGP--------YSQQVQLDLIYAYYKNAD---LPLAQAAIDR   66 (225)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTST--------THHHHHHHHHHHHHHTTC---HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCh--------HHHHHHHHHHHHHHhcCC---HHHHHHHHHH
Confidence            4578999999999999999999998887655422        123456778999999886   3444443333

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=94.94  E-value=0.55  Score=41.07  Aligned_cols=114  Identities=15%  Similarity=0.050  Sum_probs=72.1

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER   84 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r   84 (267)
                      ..++-.|...+.+++|++|+.++..|=+.+...+...     ..+.....+.++|+...   .+++|...+.++-+.+.+
T Consensus        54 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~-----~~~~~~~~la~~~~~~G---~~~~A~~~~~~al~~~~~  125 (373)
T 1hz4_A           54 VATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWH-----YALWSLIQQSEILFAQG---FLQTAWETQEKAFQLINE  125 (373)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHH-----HHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHH-----HHHHHHHHHHHHHHHCC---CHHHHHHHHHHHHHHHHH
Confidence            3456667777888888888888887777666544321     12334456677777665   456777777777666655


Q ss_pred             HhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhcc
Q 024447           85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQ  140 (267)
Q Consensus        85 ~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~  140 (267)
                      ..|.+.           +.   ....+..-|.+.+..|+.++|..++..+-+..++
T Consensus       126 ~~~~~~-----------~~---~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  167 (373)
T 1hz4_A          126 QHLEQL-----------PM---HEFLVRIRAQLLWAWARLDEAEASARSGIEVLSS  167 (373)
T ss_dssp             TTCTTS-----------TH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTT
T ss_pred             hccccC-----------cH---HHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhc
Confidence            443211           11   1223344578888999999999998877554443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=94.92  E-value=0.53  Score=39.73  Aligned_cols=95  Identities=14%  Similarity=0.084  Sum_probs=64.1

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA   85 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~   85 (267)
                      .+...|+.+++.++|++|+.++-.+=+...           +.+....-+.+||+.+++   .+.|..-+.++-+.    
T Consensus         5 ~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p-----------~~~~~~~~~a~~~~~~~~---~~~A~~~~~~~~~~----   66 (359)
T 3ieg_A            5 KHLELGKKLLAAGQLADALSQFHAAVDGDP-----------DNYIAYYRRATVFLAMGK---SKAALPDLTKVIAL----   66 (359)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-----------TCHHHHHHHHHHHHHHTC---HHHHHHHHHHHHHH----
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-----------ccHHHHHHHHHHHHHccC---HHHHHHHHHHHHHh----
Confidence            467889999999999999999987755321           234566788999999876   34444444433322    


Q ss_pred             hCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           86 HGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        86 yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                         ++          ....     .+..-|.+.+..|+.++|...+..+-.
T Consensus        67 ---~~----------~~~~-----~~~~l~~~~~~~~~~~~A~~~~~~~~~   99 (359)
T 3ieg_A           67 ---KM----------DFTA-----ARLQRGHLLLKQGKLDEAEDDFKKVLK   99 (359)
T ss_dssp             ---CT----------TCHH-----HHHHHHHHHHHHTCHHHHHHHHHHHHT
T ss_pred             ---CC----------Ccch-----HHHHHHHHHHHcCChHHHHHHHHHHHh
Confidence               11          1112     233447888899999999998876643

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=94.88  E-value=0.47  Score=35.88  Aligned_cols=127  Identities=13%  Similarity=0.045  Sum_probs=79.9

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      +..++..|...++.++|++|+.++-.+-+.+..           .+.....+.++|+..++   .++|...+.++-+.  
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-----------~~~~~~~~~~~~~~~~~---~~~A~~~~~~~~~~--   71 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDADAF-----------DVDVALHLGIAYVKTGA---VDRGTELLERSLAD--   71 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSC-----------CHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHH--
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcc-----------ChHHHHHHHHHHHHcCC---HHHHHHHHHHHHhc--
Confidence            456788999999999999999999887654332           24556778899988765   45555555544332  


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhCCCCHHHHHH
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKR  163 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MGF~~~~Ar~  163 (267)
                        . .+           ..      ..+...+.+.+..|+.++|...+.++-...+.   +.   ..+         ...
T Consensus        72 --~-~~-----------~~------~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~---~~---~~~---------~~~  116 (186)
T 3as5_A           72 --A-PD-----------NV------KVATVLGLTYVQVQKYDLAVPLLIKVAEANPI---NF---NVR---------FRL  116 (186)
T ss_dssp             --C-TT-----------CH------HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT---CH---HHH---------HHH
T ss_pred             --C-CC-----------CH------HHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcH---hH---HHH---------HHH
Confidence              1 11           11      12233477788889999999988876543221   11   111         111


Q ss_pred             H-HHHhCCCHHHHHHHHHh
Q 024447          164 A-LRICSQDVGSAIDFLVE  181 (267)
Q Consensus       164 A-Lr~~~gdve~A~~wL~~  181 (267)
                      | +....|+.+.|+.++..
T Consensus       117 a~~~~~~~~~~~A~~~~~~  135 (186)
T 3as5_A          117 GVALDNLGRFDEAIDSFKI  135 (186)
T ss_dssp             HHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHcCcHHHHHHHHHH
Confidence            2 12336788999887743

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=94.82  E-value=0.4  Score=36.55  Aligned_cols=97  Identities=15%  Similarity=0.055  Sum_probs=64.8

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA   85 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~   85 (267)
                      .++..|..+++.++|++|+.++-.|=+.           -.+.+-....+.+||+.+++          ...|...|++.
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~~~~~al~~-----------~p~~~~~~~~lg~~~~~~g~----------~~~A~~~~~~a   78 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQKIFQALCML-----------DHYDARYFLGLGACRQSLGL----------YEQALQSYSYG   78 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH-----------CTTCHHHHHHHHHHHHHTTC----------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHHh-----------CCccHHHHHHHHHHHHHHhh----------HHHHHHHHHHH
Confidence            4678899999999999999998665432           22334455678999998775          34455555554


Q ss_pred             hCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhh
Q 024447           86 HGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKF  138 (267)
Q Consensus        86 yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~  138 (267)
                      .-.+         ...++ +     +..-|.+.+..|+.++|...+..+-...
T Consensus        79 l~~~---------p~~~~-~-----~~~lg~~~~~~g~~~~A~~~~~~al~~~  116 (142)
T 2xcb_A           79 ALMD---------INEPR-F-----PFHAAECHLQLGDLDGAESGFYSARALA  116 (142)
T ss_dssp             HHHC---------TTCTH-H-----HHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HhcC---------CCCcH-H-----HHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            3111         11222 2     2234888899999999999988765543

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=94.77  E-value=0.32  Score=35.92  Aligned_cols=101  Identities=20%  Similarity=0.153  Sum_probs=67.3

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      +..+...|..+++.++|++|+.++..+=+....   .     +..+.....+..||+.+++   .++|..-+.++-+.  
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~---~-----~~~~~~~~~~a~~~~~~~~---~~~A~~~~~~~~~~--   94 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALGLDAT---P-----QDQAVLHRNRAACHLKLED---YDKAETEASKAIEK--   94 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCC---H-----HHHHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHccc---c-----hHHHHHHHHHHHHHHHHcc---HHHHHHHHHHHHhh--
Confidence            346788999999999999999999877543221   0     1146777889999998875   44554444443322  


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                        +   +          ..     ...+...|.+.+..|+.++|...+.++-..
T Consensus        95 --~---~----------~~-----~~~~~~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A           95 --D---G----------GD-----VKALYRRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             --T---S----------CC-----HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             --C---c----------cC-----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence              1   1          11     122334588888999999999988866543

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=94.61  E-value=0.43  Score=38.23  Aligned_cols=108  Identities=17%  Similarity=0.162  Sum_probs=68.2

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccc-----hhhhhhhHHHHHHHhCCCCCHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDN-----GPLLQIDMVWCYFMLRDISWLSEAGIRLRKA   78 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn-----~a~l~ldivwcy~~l~~~~~l~dA~~rL~~a   78 (267)
                      +-.+..+|..++++++|++|+.++..|=+.+..........++.     .+.+...+..||+.+++   ..+|...+.+|
T Consensus        38 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~---~~~A~~~~~~a  114 (198)
T 2fbn_A           38 AFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKD---YPKAIDHASKV  114 (198)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTC---HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcC---HHHHHHHHHHH
Confidence            44678999999999999999999988876554432100000000     12455677888888765   45555555444


Q ss_pred             HHHHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           79 REGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        79 e~~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                      -+.       ++          ..-.++     ..-|.+.+..|+.++|...+..+-.
T Consensus       115 l~~-------~p----------~~~~~~-----~~lg~~~~~~~~~~~A~~~~~~al~  150 (198)
T 2fbn_A          115 LKI-------DK----------NNVKAL-----YKLGVANMYFGFLEEAKENLYKAAS  150 (198)
T ss_dssp             HHH-------ST----------TCHHHH-----HHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHh-------Cc----------ccHHHH-----HHHHHHHHHcccHHHHHHHHHHHHH
Confidence            432       11          111223     3348888899999999998876644

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=94.53  E-value=0.27  Score=46.07  Aligned_cols=108  Identities=18%  Similarity=0.172  Sum_probs=72.1

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCC---h-hhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCD---P-KVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAR   79 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~---~-~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae   79 (267)
                      +-.++.+|..++++++|++|+..+-.|=+......   . .-.+.-...+.+...+.+||+.+++   ...|..      
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~---~~~A~~------  338 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLRE---YTKAVE------  338 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTC---HHHHHH------
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcC---HHHHHH------
Confidence            34678999999999999999999988866554432   1 1111122336677789999999875   344444      


Q ss_pred             HHHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           80 EGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        80 ~~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                       .|.++.-.++          ....+++-|     |.+.+..|+.++|...+.++-.
T Consensus       339 -~~~~al~~~p----------~~~~a~~~~-----g~a~~~~g~~~~A~~~~~~al~  379 (457)
T 1kt0_A          339 -CCDKALGLDS----------ANEKGLYRR-----GEAQLLMNEFESAKGDFEKVLE  379 (457)
T ss_dssp             -HHHHHHHHST----------TCHHHHHHH-----HHHHHHTTCHHHHHHHHHHHHT
T ss_pred             -HHHHHHhcCC----------ccHHHHHHH-----HHHHHHccCHHHHHHHHHHHHH
Confidence             4444331121          223445444     8889999999999999887654

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=94.47  E-value=0.29  Score=44.09  Aligned_cols=96  Identities=22%  Similarity=0.261  Sum_probs=66.5

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      +-.+..+|..+++.|+|++|+.++-.|=+..    |       | +..-..+..||+.+++   .++|..-+.++-+.  
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~----p-------~-~~~~~~la~~~~~~g~---~~~A~~~~~~al~~--   68 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELK----E-------D-PVFYSNLSACYVSVGD---LKKVVEMSTKALEL--   68 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC----C-------C-HHHHHHHHHHHHHHTC---HHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC----c-------c-HHHHHhHHHHHHHHhh---HHHHHHHHHHHhcc--
Confidence            4568899999999999999999998886653    1       1 4566778899999876   44555544444321  


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                           +|          ..-.++     ...|.+.+..|+.++|...+.++-.
T Consensus        69 -----~p----------~~~~~~-----~~l~~~~~~~g~~~~A~~~~~~~~~  101 (514)
T 2gw1_A           69 -----KP----------DYSKVL-----LRRASANEGLGKFADAMFDLSVLSL  101 (514)
T ss_dssp             -----CS----------CCHHHH-----HHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             -----Ch----------HHHHHH-----HHHHHHHHHHhhHHHHHHHHHHHHh
Confidence                 11          111223     3348888899999999988876543

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=94.44  E-value=0.34  Score=39.86  Aligned_cols=58  Identities=22%  Similarity=0.268  Sum_probs=40.2

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRK   77 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~   77 (267)
                      .+..+|..+++.++|++|+.++-.+=+....           .+-...-+.+||+.+++   .++|...+.+
T Consensus         5 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~-----------~~~~~~~l~~~~~~~~~---~~~A~~~~~~   62 (272)
T 3u4t_A            5 VEFRYADFLFKNNNYAEAIEVFNKLEAKKYN-----------SPYIYNRRAVCYYELAK---YDLAQKDIET   62 (272)
T ss_dssp             CHHHHHHHHHTTTCHHHHHHHHHHHHHTTCC-----------CSTTHHHHHHHHHHTTC---HHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-----------cHHHHHHHHHHHHHHhh---HHHHHHHHHH
Confidence            4678999999999999999999888554332           22244557788988775   3444444333

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=94.40  E-value=0.61  Score=38.87  Aligned_cols=105  Identities=12%  Similarity=0.029  Sum_probs=69.5

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER   84 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r   84 (267)
                      -.++.+|..++++++|++|+.++-.+=+.+..-        ...+-..+.+.+||+.+++   .++|...+.++-+.+- 
T Consensus        16 ~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~--------~~~~~a~~~lg~~~~~~~~---~~~A~~~~~~~l~~~p-   83 (261)
T 3qky_A           16 QEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTH--------EWAADAQFYLARAYYQNKE---YLLAASEYERFIQIYQ-   83 (261)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCS--------TTHHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHCT-
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCC--------cchHHHHHHHHHHHHHhCc---HHHHHHHHHHHHHHCC-
Confidence            457899999999999999999998876665321        1225566788999999875   4455544444332210 


Q ss_pred             HhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhc--------cCCchhHhhhhHhhHhhhc
Q 024447           85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYH--------SGQFDKARNALTSAQAKFF  139 (267)
Q Consensus        85 ~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h--------~g~~d~A~~~l~~a~~~~~  139 (267)
                                   ++.....+++..     |.+.+.        .|+.++|...+.++-...+
T Consensus        84 -------------~~~~~~~a~~~l-----g~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p  128 (261)
T 3qky_A           84 -------------IDPRVPQAEYER-----AMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYP  128 (261)
T ss_dssp             -------------TCTTHHHHHHHH-----HHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCT
T ss_pred             -------------CCchhHHHHHHH-----HHHHHHhcccccccchhHHHHHHHHHHHHHHCc
Confidence                         111222334333     777777        8999999998887655544

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=94.28  E-value=0.63  Score=41.47  Aligned_cols=109  Identities=20%  Similarity=0.165  Sum_probs=73.0

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCCh----hhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDP----KVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAR   79 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~----~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae   79 (267)
                      +..++..|..++++++|++|+..+-.|=+.......    .-.+.-...+.....+.+||+.+++   ..+|...+.+|-
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~---~~~A~~~~~~al  223 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQA---FSAAIESCNKAL  223 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTC---HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCC---HHHHHHHHHHHH
Confidence            456788999999999999999999888776554421    1111122235677889999999875   344444444443


Q ss_pred             HHHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447           80 EGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus        80 ~~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                      +.       ++          ..-.+++.+     |.+.+..|+.++|...+.++-..
T Consensus       224 ~~-------~p----------~~~~a~~~l-----g~~~~~~g~~~~A~~~~~~al~l  259 (336)
T 1p5q_A          224 EL-------DS----------NNEKGLSRR-----GEAHLAVNDFELARADFQKVLQL  259 (336)
T ss_dssp             HH-------CT----------TCHHHHHHH-----HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             Hh-------CC----------CcHHHHHHH-----HHHHHHCCCHHHHHHHHHHHHHH
Confidence            22       22          122344333     88899999999999999877554

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=94.21  E-value=0.52  Score=40.98  Aligned_cols=109  Identities=11%  Similarity=-0.006  Sum_probs=63.5

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA   85 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~   85 (267)
                      .+..-|..+.+.++|++|+.++..|=+.|...+.     .+..+.....|.++|..    ...+.|..-+.+|-+.+...
T Consensus        78 ~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~-----~~~~a~~~~~lg~~~~~----g~~~~A~~~~~~Al~~~~~~  148 (307)
T 2ifu_A           78 AFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGT-----PDTAAMALDRAGKLMEP----LDLSKAVHLYQQAAAVFENE  148 (307)
T ss_dssp             HHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTC-----HHHHHHHHHHHHHHHTT----TCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCC-----HHHHHHHHHHHHHHHHc----CCHHHHHHHHHHHHHHHHhC
Confidence            4555666666677777777777776665544332     12334445566777743    56677777777776665542


Q ss_pred             hCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhc
Q 024447           86 HGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFF  139 (267)
Q Consensus        86 yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~  139 (267)
                       |...               .....+.--|.+.+..|+.++|...+..+-...+
T Consensus       149 -~~~~---------------~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~  186 (307)
T 2ifu_A          149 -ERLR---------------QAAELIGKASRLLVRQQKFDEAAASLQKEKSMYK  186 (307)
T ss_dssp             -TCHH---------------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             -CChh---------------HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence             1110               0011122236677788999999988876654433

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=94.16  E-value=0.63  Score=32.26  Aligned_cols=98  Identities=9%  Similarity=-0.079  Sum_probs=63.8

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER   84 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r   84 (267)
                      -.++..|..+++.++|++|+.++-.|=+...           +.+....-+..||+.+++   .++|       ...|++
T Consensus         7 ~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~-----------~~~~~~~~~a~~~~~~~~---~~~A-------~~~~~~   65 (112)
T 2kck_A            7 EEYYLEGVLQYDAGNYTESIDLFEKAIQLDP-----------EESKYWLMKGKALYNLER---YEEA-------VDCYNY   65 (112)
T ss_dssp             TGGGGHHHHHHSSCCHHHHHHHHHHHHHHCC-----------CCHHHHHHHHHHHHHTTC---HHHH-------HHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhCc-----------CCHHHHHHHHHHHHHccC---HHHH-------HHHHHH
Confidence            4577889999999999999999987755432           223345677888888875   3444       444444


Q ss_pred             HhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhcc-CCchhHhhhhHhhHh
Q 024447           85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHS-GQFDKARNALTSAQA  136 (267)
Q Consensus        85 ~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~-g~~d~A~~~l~~a~~  136 (267)
                      +.-.++.        .....+     ...-+.+.+.. |+.++|...+..+-.
T Consensus        66 a~~~~~~--------~~~~~~-----~~~l~~~~~~~~~~~~~A~~~~~~~~~  105 (112)
T 2kck_A           66 VINVIED--------EYNKDV-----WAAKADALRYIEGKEVEAEIAEARAKL  105 (112)
T ss_dssp             HHHTSCC--------TTCHHH-----HHHHHHHHTTCSSCSHHHHHHHHHHGG
T ss_pred             HHHhCcc--------cchHHH-----HHHHHHHHHHHhCCHHHHHHHHHHHhh
Confidence            4322211        001122     23347888899 999999998876544

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=94.12  E-value=0.63  Score=37.86  Aligned_cols=97  Identities=18%  Similarity=0.065  Sum_probs=64.4

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      +-.++..|+.++..++|++|+.++..|=+..           .+.+.....+.+||+..++   .++|..-+.++-+.  
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-----------~~~~~~~~~la~~~~~~~~---~~~A~~~~~~a~~~--  100 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-----------PSSADAHAALAVVFQTEME---PKLADEEYRKALAS--  100 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-----------TTCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-----------CChHHHHHHHHHHHHHcCC---HHHHHHHHHHHHHH--
Confidence            3467889999999999999999998775542           2234556778899988764   45555555444332  


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                           ++         ..      ...+..-+.+.+..|+.++|...+.++-.
T Consensus       101 -----~~---------~~------~~~~~~la~~~~~~g~~~~A~~~~~~~~~  133 (252)
T 2ho1_A          101 -----DS---------RN------ARVLNNYGGFLYEQKRYEEAYQRLLEASQ  133 (252)
T ss_dssp             -----CT---------TC------HHHHHHHHHHHHHTTCHHHHHHHHHHHTT
T ss_pred             -----Cc---------Cc------HHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Confidence                 11         01      11223346777788999999988876543

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=94.12  E-value=0.16  Score=48.21  Aligned_cols=106  Identities=13%  Similarity=-0.007  Sum_probs=82.2

Q ss_pred             hhHhHHHHHHhhchHHHHHHHHhh----hhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 024447            7 LHANAKSLIKRHMYKDALEVLTMG----EEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGI   82 (267)
Q Consensus         7 l~ek~r~~~~~~~y~~al~~ll~a----d~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f   82 (267)
                      ..|+++..-+.++|++|+.++..|    .+.|..=.+.++.+.+|.|.+-.          +....++|.....++-..+
T Consensus       301 ~le~~~~~~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~----------~~g~~~eA~~~~~~aL~i~  370 (433)
T 3qww_A          301 VIEEFRRAKHYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCL----------YMQDWEGALKYGQKIIKPY  370 (433)
T ss_dssp             HHHHHHHHTTTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHH----------HTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHH----------hhcCHHHHHHHHHHHHHHH
Confidence            345566555667899999987665    45677888999999999887642          3467899999999999999


Q ss_pred             HHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           83 ERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        83 ~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                      ++.||.++--+.....      -|        |.+.+++|+.++|..++.+|-+
T Consensus       371 ~~~lG~~Hp~~a~~l~------nL--------a~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          371 SKHYPVYSLNVASMWL------KL--------GRLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHSCSSCHHHHHHHH------HH--------HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCCChHHHHHHH------HH--------HHHHHhccCHHHHHHHHHHHHH
Confidence            9999998877644322      12        6667899999999999987754

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=94.05  E-value=0.68  Score=34.97  Aligned_cols=127  Identities=14%  Similarity=0.054  Sum_probs=78.3

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER   84 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r   84 (267)
                      ..+...|...++.++|++|+.++-.+-+...           +.+....-+.++|+..++   .++|..-+.++-+.   
T Consensus        43 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-----------~~~~~~~~~a~~~~~~~~---~~~A~~~~~~~~~~---  105 (186)
T 3as5_A           43 DVALHLGIAYVKTGAVDRGTELLERSLADAP-----------DNVKVATVLGLTYVQVQK---YDLAVPLLIKVAEA---  105 (186)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-----------TCHHHHHHHHHHHHHHTC---HHHHHHHHHHHHHH---
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-----------CCHHHHHHHHHHHHHhcC---HHHHHHHHHHHHhc---
Confidence            3466789999999999999999987765521           223445667888888765   34444444443322   


Q ss_pred             HhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhCCCCHHHHHHH
Q 024447           85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRA  164 (267)
Q Consensus        85 ~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MGF~~~~Ar~A  164 (267)
                          ++.         .      .......|.+.+..|+.++|...+..+-...      +.....+         ...|
T Consensus       106 ----~~~---------~------~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~------~~~~~~~---------~~la  151 (186)
T 3as5_A          106 ----NPI---------N------FNVRFRLGVALDNLGRFDEAIDSFKIALGLR------PNEGKVH---------RAIA  151 (186)
T ss_dssp             ----CTT---------C------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------TTCHHHH---------HHHH
T ss_pred             ----CcH---------h------HHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC------ccchHHH---------HHHH
Confidence                110         1      1233445788889999999999988765432      1111111         1122


Q ss_pred             -HHHhCCCHHHHHHHHHhh
Q 024447          165 -LRICSQDVGSAIDFLVEE  182 (267)
Q Consensus       165 -Lr~~~gdve~A~~wL~~~  182 (267)
                       +....|+.+.|+.++..-
T Consensus       152 ~~~~~~~~~~~A~~~~~~~  170 (186)
T 3as5_A          152 FSYEQMGRHEEALPHFKKA  170 (186)
T ss_dssp             HHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHH
Confidence             233468999999987443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=93.97  E-value=1.8  Score=33.93  Aligned_cols=96  Identities=15%  Similarity=0.032  Sum_probs=62.9

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER   84 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r   84 (267)
                      ..+...|..+++.++|++|+.++-.+-+...           +.+.....+.+||+.+++   .++|..-+.++-+..  
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-----------~~~~~~~~l~~~~~~~~~---~~~A~~~~~~a~~~~--   72 (225)
T 2vq2_A            9 NIKTQLAMEYMRGQDYRQATASIEDALKSDP-----------KNELAWLVRAEIYQYLKV---NDKAQESFRQALSIK--   72 (225)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-----------TCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHhCc-----------cchHHHHHHHHHHHHcCC---hHHHHHHHHHHHHhC--
Confidence            4567889999999999999999988766543           224455678899988765   455655555543321  


Q ss_pred             HhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhcc-CCchhHhhhhHhhHh
Q 024447           85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHS-GQFDKARNALTSAQA  136 (267)
Q Consensus        85 ~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~-g~~d~A~~~l~~a~~  136 (267)
                         .+           ..+      .+..-+.+.+.. |+.++|...+..+-.
T Consensus        73 ---~~-----------~~~------~~~~l~~~~~~~~~~~~~A~~~~~~~~~  105 (225)
T 2vq2_A           73 ---PD-----------SAE------INNNYGWFLCGRLNRPAESMAYFDKALA  105 (225)
T ss_dssp             ---TT-----------CHH------HHHHHHHHHHTTTCCHHHHHHHHHHHHT
T ss_pred             ---CC-----------ChH------HHHHHHHHHHHhcCcHHHHHHHHHHHHc
Confidence               11           111      122236667788 888888888776544

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=93.93  E-value=0.62  Score=41.38  Aligned_cols=96  Identities=14%  Similarity=0.090  Sum_probs=64.7

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER   84 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r   84 (267)
                      -.+...|..+++.++|++|+.++-.+=+.           .-+.+.....+.+||+.+++   .++|..-+.++-+.   
T Consensus        27 ~~~~~~~~~~~~~g~~~~A~~~~~~~l~~-----------~p~~~~~~~~l~~~~~~~g~---~~~A~~~~~~al~~---   89 (450)
T 2y4t_A           27 EKHLELGKKLLAAGQLADALSQFHAAVDG-----------DPDNYIAYYRRATVFLAMGK---SKAALPDLTKVIQL---   89 (450)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----------CTTCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHH---
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh-----------CCccHHHHHHHHHHHHHCCC---HHHHHHHHHHHHhc---
Confidence            35678899999999999999999877543           22336667778999998875   45555544444322   


Q ss_pred             HhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        85 ~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                          ++         ..      ...+..-|.+.+..|+.++|...+..+-.
T Consensus        90 ----~p---------~~------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  122 (450)
T 2y4t_A           90 ----KM---------DF------TAARLQRGHLLLKQGKLDEAEDDFKKVLK  122 (450)
T ss_dssp             ----CT---------TC------HHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             ----CC---------Cc------HHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence                11         11      11223347777788999999998876643

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=93.89  E-value=1.3  Score=36.94  Aligned_cols=133  Identities=13%  Similarity=0.063  Sum_probs=70.0

Q ss_pred             hhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHh
Q 024447            7 LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAH   86 (267)
Q Consensus         7 l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~y   86 (267)
                      +...|..+++.++|++|+.++-.|-+.+...           +....-+.++|+.+++          ...|...|+++.
T Consensus       128 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~-----------~~~~~~l~~~~~~~~~----------~~~A~~~~~~al  186 (330)
T 3hym_B          128 WIAYGHSFAVESEHDQAMAAYFTAAQLMKGC-----------HLPMLYIGLEYGLTNN----------SKLAERFFSQAL  186 (330)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHTTTC-----------SHHHHHHHHHHHHTTC----------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhcccc-----------HHHHHHHHHHHHHHhh----------HHHHHHHHHHHH
Confidence            4556667777777777777776665544331           1122226777776654          234444555544


Q ss_pred             CCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhCCCCHHHHHHHH-
Q 024447           87 GKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRAL-  165 (267)
Q Consensus        87 G~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MGF~~~~Ar~AL-  165 (267)
                      ..++.-               ......-|.+.+..|+.++|...+..+-...+...-...      .-.++......|. 
T Consensus       187 ~~~~~~---------------~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~------~~~~~~~~~~la~~  245 (330)
T 3hym_B          187 SIAPED---------------PFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVT------VDKWEPLLNNLGHV  245 (330)
T ss_dssp             TTCTTC---------------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCT------TTTCCHHHHHHHHH
T ss_pred             HhCCCC---------------hHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhcccccc------ccHHHHHHHHHHHH
Confidence            333221               122334477788889999999888876554332211000      0111222222232 


Q ss_pred             HHhCCCHHHHHHHHHh
Q 024447          166 RICSQDVGSAIDFLVE  181 (267)
Q Consensus       166 r~~~gdve~A~~wL~~  181 (267)
                      ....|+.+.|+.++..
T Consensus       246 ~~~~g~~~~A~~~~~~  261 (330)
T 3hym_B          246 CRKLKKYAEALDYHRQ  261 (330)
T ss_dssp             HHHTTCHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHH
Confidence            2336788888887643

>2dhy_A CUE domain-containing protein 1; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=93.84  E-value=0.064  Score=38.84  Aligned_cols=38  Identities=13%  Similarity=0.267  Sum_probs=33.2

Q ss_pred             CCHHHHHHHHhC--CCCHHHHHHHHHHcCCCHHHHHH-hcc
Q 024447          215 VDIEKIKELVSI--GFEKELVAEALRRNENDSQKALD-DLT  252 (267)
Q Consensus       215 vd~e~v~~L~~M--GF~~~~A~~ALr~t~ndve~Ald-lL~  252 (267)
                      .-++.+.+|.+|  -++++.++..|+.++||++.|++ +|.
T Consensus        17 ~~~~~v~~L~~MFP~lD~~vI~~vL~a~~G~vd~aId~LL~   57 (67)
T 2dhy_A           17 EFNQAMDDFKTMFPNMDYDIIECVLRANSGAVDATIDQLLQ   57 (67)
T ss_dssp             CSHHHHHHHHHHCSSSCHHHHHHHHHHHTSCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHh
Confidence            456889999999  45789999999999999999999 553

>1tr8_A Conserved protein (MTH177); chaperones, nascent polypeptide-associated complex, ribosome domain, ubiquitin, chaperone; 2.27A {Methanothermobacter marburgensis}

Probab=93.79  E-value=0.061  Score=42.02  Aligned_cols=39  Identities=36%  Similarity=0.599  Sum_probs=34.2

Q ss_pred             CCCChhhHhhHHh-CCCCHHHHHHHHHHhCCCHHHHHHHH
Q 024447          141 LQVPDESLSLVMS-MGFKEQDAKRALRICSQDVGSAIDFL  179 (267)
Q Consensus       141 l~vd~~~l~~L~~-MGF~~~~Ar~ALr~~~gdve~A~~wL  179 (267)
                      ..++++.|..+|+ .|-|+..|++||+.|+||+-.|+-+|
T Consensus        62 ~~i~~edi~lv~~q~~vs~~~A~~aL~~~~gDiv~Ai~~L  101 (102)
T 1tr8_A           62 MEIPEDDIELVMNQTGASREDATRALQETGGDLAEAIMRL  101 (102)
T ss_dssp             CCCCHHHHHHHHHHHCCCHHHHHHHHHHTTTCHHHHHHHC
T ss_pred             CCCCHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHh
Confidence            5688899997765 79999999999999999999888765

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=93.57  E-value=0.96  Score=38.12  Aligned_cols=105  Identities=10%  Similarity=0.024  Sum_probs=62.8

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER   84 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r   84 (267)
                      ..++..|..+++.++|++|+..+-.+=+..           .+.+....-+.+||+.+++          ...|...|++
T Consensus        38 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-----------~~~~~~~~~l~~~~~~~~~----------~~~A~~~~~~   96 (359)
T 3ieg_A           38 IAYYRRATVFLAMGKSKAALPDLTKVIALK-----------MDFTAARLQRGHLLLKQGK----------LDEAEDDFKK   96 (359)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-----------TTCHHHHHHHHHHHHHHTC----------HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhC-----------CCcchHHHHHHHHHHHcCC----------hHHHHHHHHH
Confidence            356788999999999999999997775542           2334556778999998875          3455566666


Q ss_pred             HhCCCH---HHHHHHH--cCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhH
Q 024447           85 AHGKDS---SRVRLLQ--AGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQ  135 (267)
Q Consensus        85 ~yG~~~---~rl~~lk--g~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~  135 (267)
                      ..-.++   .-.....  |..     ...+-....+.+.+..|+.++|...+..+-
T Consensus        97 ~~~~~~~~~~~~~~~~~l~~~-----~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~  147 (359)
T 3ieg_A           97 VLKSNPSEQEEKEAESQLVKA-----DEMQRLRSQALDAFDGADYTAAITFLDKIL  147 (359)
T ss_dssp             HHTSCCCHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHhcCCcccChHHHHHHHHHH-----HHHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            654444   2221111  110     011222333555666666666666665543

>1aip_C EF-TS, elongation factor TS; nucleotide exchange, GTP-binding, complex of two elongation factors; 3.00A {Thermus thermophilus} SCOP: a.5.2.2 d.43.1.1

Probab=93.54  E-value=0.082  Score=45.86  Aligned_cols=38  Identities=29%  Similarity=0.277  Sum_probs=32.1

Q ss_pred             hhHhhHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447          146 ESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEEK  183 (267)
Q Consensus       146 ~~l~~L~~M-GF~~~~Ar~ALr~~~gdve~A~~wL~~~~  183 (267)
                      ..|..|-++ |.+.-+|++||..|+||++.|++||-..-
T Consensus         5 ~~VKeLRe~TGagmmdCKkAL~e~~GD~ekAie~LR~kG   43 (196)
T 1aip_C            5 ELIKKLREATGAGMMDVKRALEDAGWDEEKAVQLLRERG   43 (196)
T ss_dssp             HHHHHHHHHHCCCHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHHcC
Confidence            346666665 89999999999999999999999997643

>2pwq_A Ubiquitin conjugating enzyme; structural genomics consortium, SGC, ligase; 1.90A {Plasmodium yoelii}

Probab=93.51  E-value=0.013  Score=51.32  Aligned_cols=37  Identities=30%  Similarity=0.399  Sum_probs=0.0

Q ss_pred             hhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHh
Q 024447          145 DESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE  181 (267)
Q Consensus       145 ~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~  181 (267)
                      +++|..+++|||++..++.||..++.|++.|++.|++
T Consensus       178 ~~~v~~~~~mgf~~~~~~~al~~~~~~~~~~~~~l~~  214 (216)
T 2pwq_A          178 EVIIKKITEMGFSEDQAKNALIKANWNETLALNTLLE  214 (216)
T ss_dssp             -------------------------------------
T ss_pred             hhHHHHHHHcCCCHHHHHHHHHHcCCchHHHHHHHhc
Confidence            5899999999999999999999999999999998865

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.46  E-value=0.2  Score=44.65  Aligned_cols=161  Identities=11%  Similarity=0.090  Sum_probs=89.7

Q ss_pred             hhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhh-hhccc-----hhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 024447            7 LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVL-EFVDN-----GPLLQIDMVWCYFMLRDISWLSEAGIRLRKARE   80 (267)
Q Consensus         7 l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l-~~vDn-----~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~   80 (267)
                      .-|.|+.+++.|+|++|+..+..+-+.......... ..+..     +.---.-|+-.|+..++.   ++|..-+.++..
T Consensus         7 ~l~~a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~---~~a~~~~~~~~~   83 (434)
T 4b4t_Q            7 KLEEARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAK---DKLREFIPHSTE   83 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCH---HHHHHHHHHTHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCH---HHHHHHHHHHHH
Confidence            458899999999999999999999887765544211 11111     111124568888888775   455555555544


Q ss_pred             HHHHHhCCCH-HH-HHHHHcC-----Ccchh------------------hHHHHHHHHHHhhhhccCCchhHhhhhHhhH
Q 024447           81 GIERAHGKDS-SR-VRLLQAG-----RHPEL------------------ALHLRMELLEGVAAYHSGQFDKARNALTSAQ  135 (267)
Q Consensus        81 ~f~r~yG~~~-~r-l~~lkg~-----~~~E~------------------al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~  135 (267)
                      .+.. .+... .+ +..+.|.     ...+.                  .+..|++.--+-+.+..|+.++|...+..+.
T Consensus        84 ~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~  162 (434)
T 4b4t_Q           84 YMMQ-FAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLL  162 (434)
T ss_dssp             HHHT-SCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHH-ccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHH
Confidence            4332 11110 00 1111110     00011                  1224555556788888999999999988776


Q ss_pred             hhhccCCCChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHH
Q 024447          136 AKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFL  179 (267)
Q Consensus       136 ~~~~~l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL  179 (267)
                      .......-.+..+..+...|        -+...-||.++|..++
T Consensus       163 ~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~A~~~~  198 (434)
T 4b4t_Q          163 REFKKLDDKPSLVDVHLLES--------KVYHKLRNLAKSKASL  198 (434)
T ss_dssp             HHHTTSSCSTHHHHHHHHHH--------HHHHHTTCHHHHHHHH
T ss_pred             HHHHhcccchhHHHHHHHHH--------HHHHHhCcHHHHHHHH
Confidence            66555443444444333322        1223356666666655

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=93.43  E-value=1.4  Score=38.10  Aligned_cols=25  Identities=32%  Similarity=0.347  Sum_probs=17.3

Q ss_pred             HHHHhhhhccCCchhHhhhhHhhHh
Q 024447          112 LLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus       112 lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                      ..-|.+.+..|+.++|...+..+-.
T Consensus       217 ~~l~~~~~~~g~~~~A~~~~~~al~  241 (365)
T 4eqf_A          217 TGLGVLFHLSGEFNRAIDAFNAALT  241 (365)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            3346777777888888887776544

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=93.40  E-value=0.85  Score=39.52  Aligned_cols=95  Identities=9%  Similarity=-0.109  Sum_probs=64.9

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA   85 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~   85 (267)
                      .++.+|..+++.++|++|+.++-.|=+...           +.+.....+.+||+.+++   .+.|..-+.++-+.    
T Consensus        67 ~~~~~~~~~~~~g~~~~A~~~~~~al~~~p-----------~~~~~~~~lg~~~~~~g~---~~~A~~~~~~al~~----  128 (365)
T 4eqf_A           67 GAFEEGLKRLKEGDLPVTILFMEAAILQDP-----------GDAEAWQFLGITQAENEN---EQAAIVALQRCLEL----  128 (365)
T ss_dssp             THHHHHHHHHHHTCHHHHHHHHHHHHHHCT-----------TCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHH----
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCc-----------CCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHhc----
Confidence            478899999999999999999988866532           234456778999998876   44444444444322    


Q ss_pred             hCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           86 HGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        86 yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                         ++          ....+     +..-|.+.+..|+.++|...+.++-.
T Consensus       129 ---~p----------~~~~~-----~~~l~~~~~~~g~~~~A~~~~~~al~  161 (365)
T 4eqf_A          129 ---QP----------NNLKA-----LMALAVSYTNTSHQQDACEALKNWIK  161 (365)
T ss_dssp             ---CT----------TCHHH-----HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ---CC----------CCHHH-----HHHHHHHHHccccHHHHHHHHHHHHH
Confidence               11          11112     22337778899999999998887644

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=93.31  E-value=0.41  Score=39.18  Aligned_cols=107  Identities=11%  Similarity=-0.056  Sum_probs=61.5

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhh-----hhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVL-----EFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKARE   80 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l-----~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~   80 (267)
                      .+..+|..+++.++|++|+.++-.|=+.......-..     ....-.+-+...+..||+.+++   .+       .|..
T Consensus         6 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~---~~-------~A~~   75 (208)
T 3urz_A            6 EMLQKVSAAIEAGQNGQAVSYFRQTIALNIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRN---YD-------KAYL   75 (208)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTC---HH-------HHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCC---HH-------HHHH
Confidence            3678999999999999999999877443221100000     0001112223347788877654   33       4444


Q ss_pred             HHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447           81 GIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus        81 ~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                      .|++..-.+|.          .-.++     ..-|.+.+..|+.++|...+.++-+.
T Consensus        76 ~~~~al~~~p~----------~~~~~-----~~lg~~~~~~g~~~~A~~~~~~al~~  117 (208)
T 3urz_A           76 FYKELLQKAPN----------NVDCL-----EACAEMQVCRGQEKDALRMYEKILQL  117 (208)
T ss_dssp             HHHHHHHHCTT----------CHHHH-----HHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCC----------CHHHH-----HHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            44443322221          11222     23388888899999999988866543

>1xb2_B EF-TS, elongation factor TS, mitochondrial, EF-TSMT; protein-protein complex, translation; HET: MSE; 2.20A {Bos taurus} SCOP: a.5.2.2 d.43.1.1 d.43.1.1

Probab=93.30  E-value=0.083  Score=48.36  Aligned_cols=38  Identities=26%  Similarity=0.406  Sum_probs=32.7

Q ss_pred             hhHhhHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447          146 ESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEEK  183 (267)
Q Consensus       146 ~~l~~L~~M-GF~~~~Ar~ALr~~~gdve~A~~wL~~~~  183 (267)
                      ..|..|-++ |.+.-.|++||..++||+++|++||....
T Consensus         6 ~~VKeLRe~TGagmmdCKKAL~e~~GD~ekAie~LR~~a   44 (291)
T 1xb2_B            6 ELLMKLRRKTGYSFINCKKALETCGGDLKQAESWLHKQA   44 (291)
T ss_dssp             HHHHHHHHHHCCCHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            456677766 89999999999999999999999997643

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=93.20  E-value=1.3  Score=35.38  Aligned_cols=50  Identities=12%  Similarity=0.017  Sum_probs=15.8

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCC
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRD   64 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~   64 (267)
                      +..+..+|..+++.++|++|+.++-.+=+...           +.+....-+.+||+.+++
T Consensus        23 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~-----------~~~~~~~~la~~~~~~~~   72 (243)
T 2q7f_A           23 SMTGGQQMGRGSEFGDYEKAAEAFTKAIEENK-----------EDAIPYINFANLLSSVNE   72 (243)
T ss_dssp             -------------------CCTTHHHHHTTCT-----------TCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCc-----------ccHHHHHHHHHHHHHcCC
Confidence            45566777777777777777777766644211           113344456666666554

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=93.17  E-value=1.5  Score=30.81  Aligned_cols=125  Identities=18%  Similarity=0.099  Sum_probs=75.2

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA   85 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~   85 (267)
                      +++..|...++.++|++|+.++..+-+...           +.+.....++.+|+..++   .++|..-+.++-+.    
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-----------~~~~~~~~~a~~~~~~~~---~~~A~~~~~~~~~~----   64 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELDP-----------RSAEAWYNLGNAYYKQGD---YDEAIEYYQKALEL----   64 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-----------TCHHHHHHHHHHHHHHTC---HHHHHHHHHHHHHH----
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcCC-----------cchhHHHHHHHHHHHhcC---HHHHHHHHHHHHHH----
Confidence            567789999999999999999988755421           112334457888887764   45555554444321    


Q ss_pred             hCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhCCCCHHHHHHH-
Q 024447           86 HGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRA-  164 (267)
Q Consensus        86 yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MGF~~~~Ar~A-  164 (267)
                       +.+           .+      ..+..-+.+.+..|+.++|...+..+-...+.   +..   .+.         ..| 
T Consensus        65 -~~~-----------~~------~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~---~~~---~~~---------~la~  111 (136)
T 2fo7_A           65 -DPR-----------SA------EAWYNLGNAYYKQGDYDEAIEYYQKALELDPR---SAE---AWY---------NLGN  111 (136)
T ss_dssp             -CTT-----------CH------HHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT---CHH---HHH---------HHHH
T ss_pred             -CCC-----------ch------HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC---ChH---HHH---------HHHH
Confidence             111           11      12233477778899999999988766443211   111   111         112 


Q ss_pred             HHHhCCCHHHHHHHHHh
Q 024447          165 LRICSQDVGSAIDFLVE  181 (267)
Q Consensus       165 Lr~~~gdve~A~~wL~~  181 (267)
                      +....|+.+.|..++..
T Consensus       112 ~~~~~~~~~~A~~~~~~  128 (136)
T 2fo7_A          112 AYYKQGDYDEAIEYYQK  128 (136)
T ss_dssp             HHHTTTCHHHHHHHHHH
T ss_pred             HHHHHccHHHHHHHHHH
Confidence            23346889999988743

>2pwq_A Ubiquitin conjugating enzyme; structural genomics consortium, SGC, ligase; 1.90A {Plasmodium yoelii}

Probab=93.12  E-value=0.017  Score=50.70  Aligned_cols=35  Identities=26%  Similarity=0.387  Sum_probs=0.0

Q ss_pred             HHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhc
Q 024447          217 IEKIKELVSIGFEKELVAEALRRNENDSQKALDDL  251 (267)
Q Consensus       217 ~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL  251 (267)
                      .+.|+.+++|||+++.++.||...+.|+++|++.|
T Consensus       178 ~~~v~~~~~mgf~~~~~~~al~~~~~~~~~~~~~l  212 (216)
T 2pwq_A          178 EVIIKKITEMGFSEDQAKNALIKANWNETLALNTL  212 (216)
T ss_dssp             -----------------------------------
T ss_pred             hhHHHHHHHcCCCHHHHHHHHHHcCCchHHHHHHH
Confidence            57899999999999999999999999999999943

>2dhy_A CUE domain-containing protein 1; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=93.11  E-value=0.14  Score=36.98  Aligned_cols=41  Identities=20%  Similarity=0.194  Sum_probs=34.8

Q ss_pred             ChhhHhhHHhC--CCCHHHHHHHHHHhCCCHHHHHHHHHhhhh
Q 024447          144 PDESLSLVMSM--GFKEQDAKRALRICSQDVGSAIDFLVEEKA  184 (267)
Q Consensus       144 d~~~l~~L~~M--GF~~~~Ar~ALr~~~gdve~A~~wL~~~~~  184 (267)
                      -++.+.+|.+|  .++....+.+|++++||++.|++-|++...
T Consensus        18 ~~~~v~~L~~MFP~lD~~vI~~vL~a~~G~vd~aId~LL~ms~   60 (67)
T 2dhy_A           18 FNQAMDDFKTMFPNMDYDIIECVLRANSGAVDATIDQLLQMNL   60 (67)
T ss_dssp             SHHHHHHHHHHCSSSCHHHHHHHHHHHTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHhcCC
Confidence            45789999999  346888999999999999999999987653

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=93.11  E-value=1.7  Score=34.75  Aligned_cols=60  Identities=18%  Similarity=0.007  Sum_probs=40.1

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHH
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKA   78 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~a   78 (267)
                      ..+...|...++.++|++|+.++-.+=+...           +.+.....+.+||+.+++   ...|..-+.++
T Consensus        58 ~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-----------~~~~~~~~la~~~~~~~~---~~~A~~~~~~~  117 (243)
T 2q7f_A           58 IPYINFANLLSSVNELERALAFYDKALELDS-----------SAATAYYGAGNVYVVKEM---YKEAKDMFEKA  117 (243)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-----------TCHHHHHHHHHHHHHTTC---HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-----------cchHHHHHHHHHHHHhcc---HHHHHHHHHHH
Confidence            3456778888889999999988877655422           234556677888887664   44555544444

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=93.06  E-value=1  Score=35.05  Aligned_cols=96  Identities=16%  Similarity=0.064  Sum_probs=62.6

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA   85 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~   85 (267)
                      .++..|..+++.++|++|+.++-.|=+.           --+.+....-+.+||+.+++   .++|       ...|++.
T Consensus        23 ~~~~~g~~~~~~g~~~~A~~~~~~al~~-----------~p~~~~~~~~lg~~~~~~g~---~~~A-------~~~~~~a   81 (148)
T 2vgx_A           23 QLYSLAFNQYQSGXYEDAHXVFQALCVL-----------DHYDSRFFLGLGACRQAMGQ---YDLA-------IHSYSYG   81 (148)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH-----------CTTCHHHHHHHHHHHHHTTC---HHHH-------HHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHc-----------CcccHHHHHHHHHHHHHHhh---HHHH-------HHHHHHH
Confidence            4678999999999999999998766432           12233444567888888765   3444       4444443


Q ss_pred             hCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447           86 HGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus        86 yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                      .-.++         ..+ .+.     .--|.+.+..|+.++|...+.++-..
T Consensus        82 l~l~p---------~~~-~~~-----~~lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           82 AVMDI---------XEP-RFP-----FHAAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHST---------TCT-HHH-----HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HhcCC---------CCc-hHH-----HHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            31111         111 122     22388899999999999998876554

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=93.03  E-value=1.8  Score=37.26  Aligned_cols=108  Identities=12%  Similarity=0.005  Sum_probs=68.7

Q ss_pred             hHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhC
Q 024447            8 HANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHG   87 (267)
Q Consensus         8 ~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~yG   87 (267)
                      ..-|..+...++|++|+..+..|=+.+...+.     ..+.+..-..+.+||..+++   .+.|...+.+|-+.+.+. |
T Consensus        41 ~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~-----~~~~a~~~~~lg~~~~~~g~---~~~A~~~~~~Al~l~~~~-g  111 (292)
T 1qqe_A           41 VQAATIYRLRKELNLAGDSFLKAADYQKKAGN-----EDEAGNTYVEAYKCFKSGGN---SVNAVDSLENAIQIFTHR-G  111 (292)
T ss_dssp             HHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTC-----HHHHHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHHHHT-T
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCC-----HHHHHHHHHHHHHHHHHCCC---HHHHHHHHHHHHHHHHHc-C
Confidence            34466677788888888888888666554432     12345566788999988764   677888888777766432 1


Q ss_pred             CCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhcc-CCchhHhhhhHhhHhhhc
Q 024447           88 KDSSRVRLLQAGRHPELALHLRMELLEGVAAYHS-GQFDKARNALTSAQAKFF  139 (267)
Q Consensus        88 ~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~-g~~d~A~~~l~~a~~~~~  139 (267)
                                 ........    +.--|.+.... |+.++|..++.++-...+
T Consensus       112 -----------~~~~~a~~----~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~  149 (292)
T 1qqe_A          112 -----------QFRRGANF----KFELGEILENDLHDYAKAIDCYELAGEWYA  149 (292)
T ss_dssp             -----------CHHHHHHH----HHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             -----------CHHHHHHH----HHHHHHHHHHhhcCHHHHHHHHHHHHHHHH
Confidence                       11111111    11225666676 999999999987755433

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=92.87  E-value=1.5  Score=40.65  Aligned_cols=60  Identities=20%  Similarity=0.174  Sum_probs=32.4

Q ss_pred             HHhhhhccCCchhHhhhhHhhHhhhccCCCChhh-HhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHh
Q 024447          114 EGVAAYHSGQFDKARNALTSAQAKFFQLQVPDES-LSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE  181 (267)
Q Consensus       114 qg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~-l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~  181 (267)
                      -+.+.+..|+.++|...+.++-+..++...++.. ...+..+|        -+....|+++.|+.++..
T Consensus       481 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~--------~~~~~~g~~~~A~~~~~~  541 (597)
T 2xpi_A          481 LGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLG--------HAYRKLKMYDAAIDALNQ  541 (597)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHH--------HHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHH--------HHHHHhcCHHHHHHHHHH
Confidence            3566667777777777777665544433333332 22222222        112236788888876633

>1tr8_A Conserved protein (MTH177); chaperones, nascent polypeptide-associated complex, ribosome domain, ubiquitin, chaperone; 2.27A {Methanothermobacter marburgensis}

Probab=92.80  E-value=0.15  Score=39.75  Aligned_cols=38  Identities=21%  Similarity=0.307  Sum_probs=32.7

Q ss_pred             cCCHHHHHHHHh-CCCCHHHHHHHHHHcCCCHHHHHHhc
Q 024447          214 AVDIEKIKELVS-IGFEKELVAEALRRNENDSQKALDDL  251 (267)
Q Consensus       214 ~vd~e~v~~L~~-MGF~~~~A~~ALr~t~ndve~AldlL  251 (267)
                      .++++.|+.+++ .|-++..|++||+.++||+-.|+-.|
T Consensus        63 ~i~~edi~lv~~q~~vs~~~A~~aL~~~~gDiv~Ai~~L  101 (102)
T 1tr8_A           63 EIPEDDIELVMNQTGASREDATRALQETGGDLAEAIMRL  101 (102)
T ss_dssp             CCCHHHHHHHHHHHCCCHHHHHHHHHHTTTCHHHHHHHC
T ss_pred             CCCHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHh
Confidence            367788888765 69999999999999999999998654

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=92.71  E-value=4.6  Score=35.05  Aligned_cols=111  Identities=8%  Similarity=-0.069  Sum_probs=74.9

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      +-.+.-+|..++.+++|++|+.++-.|=+.+..-++      .-++.....+.++|+...+   .++|...+.++.....
T Consensus        14 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~------~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~al~~~~   84 (373)
T 1hz4_A           14 AEFNALRAQVAINDGNPDEAERLAKLALEELPPGWF------YSRIVATSVLGEVLHCKGE---LTRSLALMQQTEQMAR   84 (373)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCH------HHHHHHHHHHHHHHHHHTC---HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCch------hHHHHHHHHHHHHHHhcCc---HHHHHHHHHHHHHHHH
Confidence            344566788999999999999998887665432111      1234456677888988764   6788888888887766


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhc
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFF  139 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~  139 (267)
                      +. |.....               .......|.+.+..|+.++|..++..+-+...
T Consensus        85 ~~-~~~~~~---------------~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~  124 (373)
T 1hz4_A           85 QH-DVWHYA---------------LWSLIQQSEILFAQGFLQTAWETQEKAFQLIN  124 (373)
T ss_dssp             HT-TCHHHH---------------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             hc-CcHHHH---------------HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence            52 222111               12223347888899999999998887655433

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=92.70  E-value=0.24  Score=35.04  Aligned_cols=99  Identities=13%  Similarity=0.109  Sum_probs=62.9

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      +-.++..|..+++.++|++|+..+..|=+...           +.+.....+..||+.+++          ...|...|+
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p-----------~~~~~~~~lg~~~~~~g~----------~~~A~~~~~   62 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQP-----------QNPVGYSNKAMALIKLGE----------YTQAIQMCQ   62 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT-----------TCHHHHHHHHHHHHHTTC----------HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-----------CCHHHHHHHHHHHHHhcC----------HHHHHHHHH
Confidence            34678899999999999999999987755422           234556788999998875          345555565


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhH
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALT  132 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~  132 (267)
                      ++.-.++.-         .....+...+...|.+....|+.+.|...+.
T Consensus        63 ~al~~~p~~---------~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  102 (111)
T 2l6j_A           63 QGLRYTSTA---------EHVAIRSKLQYRLELAQGAVGSVQIPVVEVD  102 (111)
T ss_dssp             HHHTSCSST---------TSHHHHHHHHHHHHHHHHHHHCCCCCSSSSS
T ss_pred             HHHHhCCCc---------cHHHHHHHHHHHHHHHHHHHHhHhhhHhHHH
Confidence            555333321         1222233444445666666666666665544

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=92.64  E-value=3  Score=35.56  Aligned_cols=142  Identities=11%  Similarity=0.026  Sum_probs=80.1

Q ss_pred             hHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhCCC
Q 024447           10 NAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHGKD   89 (267)
Q Consensus        10 k~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~yG~~   89 (267)
                      -|-..+.+++|++|+..+-.|=+.+..-+..     -..+.....|..||+.+++   .+.|...+.+|-+.++..-+ +
T Consensus       121 l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~-----~~~~~~~~~lg~~y~~~g~---~~~A~~~~~~al~~~~~~~~-~  191 (293)
T 3u3w_A          121 VAAYVLKKVDYEYCILELKKLLNQQLTGIDV-----YQNLYIENAIANIYAENGY---LKKGIDLFEQILKQLEALHD-N  191 (293)
T ss_dssp             HHHHHTTSSCHHHHHHHHHHHHHTCCCCSCT-----THHHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHHHHSSC-C
T ss_pred             HHHHHHcccCHHHHHHHHHHHHHHhcccccH-----HHHHHHHHHHHHHHHHcCC---HHHHHHHHHHHHHHHHhccc-c
Confidence            3444555567777777776666543322211     1123345678888888775   57788888887776655322 2


Q ss_pred             HHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhCCCCHHHHHHHHHHhC
Q 024447           90 SSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICS  169 (267)
Q Consensus        90 ~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~  169 (267)
                      .              ....+.+.--|++.+..|+.++|...+.++-+...+..........+..+|.       +....+
T Consensus       192 ~--------------~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~-------~~~~~g  250 (293)
T 3u3w_A          192 E--------------EFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGE-------CLRKLE  250 (293)
T ss_dssp             H--------------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHH-------HHHHTT
T ss_pred             h--------------hHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHH-------HHHHhC
Confidence            2              2333344455888999999999999988775543333211111222222221       223333


Q ss_pred             CCHHHHHHHHHh
Q 024447          170 QDVGSAIDFLVE  181 (267)
Q Consensus       170 gdve~A~~wL~~  181 (267)
                      .+.+.|+.++..
T Consensus       251 ~~~~~A~~~~~~  262 (293)
T 3u3w_A          251 YEEAEIEDAYKK  262 (293)
T ss_dssp             CCHHHHHHHHHH
T ss_pred             CcHHHHHHHHHH
Confidence            356777777643

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=92.62  E-value=2.4  Score=36.24  Aligned_cols=26  Identities=35%  Similarity=0.390  Sum_probs=19.2

Q ss_pred             HHHHHhhhhccCCchhHhhhhHhhHh
Q 024447          111 ELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus       111 ~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                      +..-|.+.+..|+.++|...+..+-.
T Consensus       220 ~~~l~~~~~~~g~~~~A~~~~~~al~  245 (368)
T 1fch_A          220 QCGLGVLFNLSGEYDKAVDCFTAALS  245 (368)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            33457778888999999888876644

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=92.47  E-value=1.1  Score=35.69  Aligned_cols=95  Identities=8%  Similarity=-0.048  Sum_probs=66.1

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA   85 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~   85 (267)
                      .++..|..+++.|+|++|+.++-.|=+..    |       +.+-.-..+..||+.+++          ...|..+|++.
T Consensus        38 ~~~~lg~~~~~~g~~~eA~~~~~~al~~~----P-------~~~~~~~~lg~~~~~~g~----------~~~Ai~~~~~a   96 (151)
T 3gyz_A           38 DIYSYAYDFYNKGRIEEAEVFFRFLCIYD----F-------YNVDYIMGLAAIYQIKEQ----------FQQAADLYAVA   96 (151)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC----T-------TCHHHHHHHHHHHHHTTC----------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC----C-------CCHHHHHHHHHHHHHHcc----------HHHHHHHHHHH
Confidence            57889999999999999999998764432    2       344455667888888765          45566666665


Q ss_pred             hCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           86 HGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        86 yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                      .-.+|         ..++ +.+-     -|.+.+..|+.++|...+.++-.
T Consensus        97 l~l~P---------~~~~-~~~~-----lg~~~~~lg~~~eA~~~~~~al~  132 (151)
T 3gyz_A           97 FALGK---------NDYT-PVFH-----TGQCQLRLKAPLKAKECFELVIQ  132 (151)
T ss_dssp             HHHSS---------SCCH-HHHH-----HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HhhCC---------CCcH-HHHH-----HHHHHHHcCCHHHHHHHHHHHHH
Confidence            52222         1222 2322     38889999999999999887654

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=92.37  E-value=3.3  Score=33.64  Aligned_cols=97  Identities=13%  Similarity=-0.013  Sum_probs=64.8

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER   84 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r   84 (267)
                      -.++..|+..++.++|++|+.++-.|=+.+.           +.+.....+.+||+.+++   .++|..-+.++-+.   
T Consensus        44 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~-----------~~~~~~~~la~~~~~~~~---~~~A~~~~~~al~~---  106 (275)
T 1xnf_A           44 QLLYERGVLYDSLGLRALARNDFSQALAIRP-----------DMPEVFNYLGIYLTQAGN---FDAAYEAFDSVLEL---  106 (275)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-----------CCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHH---
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHcCC-----------CcHHHHHHHHHHHHHccC---HHHHHHHHHHHHhc---
Confidence            4567789999999999999999887766532           234455678888888764   44555544444332   


Q ss_pred             HhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447           85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus        85 ~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                          ++         ..      ...+...|.+.+..|+.++|...+.++-..
T Consensus       107 ----~~---------~~------~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  140 (275)
T 1xnf_A          107 ----DP---------TY------NYAHLNRGIALYYGGRDKLAQDDLLAFYQD  140 (275)
T ss_dssp             ----CT---------TC------THHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ----Cc---------cc------cHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence                11         11      122334478888999999999988876543

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=92.27  E-value=1.3  Score=35.05  Aligned_cols=112  Identities=10%  Similarity=-0.072  Sum_probs=68.3

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER   84 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r   84 (267)
                      -.++..|...++.++|++|+..+-.|=+..           .+.+.....+.+||+.+++   .++|..-+.++-+....
T Consensus        38 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-----------~~~~~~~~~lg~~~~~~~~---~~~A~~~~~~al~~~~~  103 (213)
T 1hh8_A           38 RICFNIGCMYTILKNMTEAEKAFTRSINRD-----------KHLAVAYFQRGMLYYQTEK---YDLAIKDLKEALIQLRG  103 (213)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------TTCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHTTTT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-----------ccchHHHHHHHHHHHHccc---HHHHHHHHHHHHHhCCC
Confidence            356778999999999999999998876543           2345566788999998765   45555554444332111


Q ss_pred             HhCCCHHHHHHHHcC-CcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447           85 AHGKDSSRVRLLQAG-RHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus        85 ~yG~~~~rl~~lkg~-~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                      .-+..    ....|. ..+.   ....+...|.+.+..|+.++|...+..+-..
T Consensus       104 ~~~~~----~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A          104 NQLID----YKILGLQFKLF---ACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             CSEEE----CGGGTBCCEEE---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             ccHHH----HHHhccccCcc---chHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            00000    000000 1111   1123344588899999999999998866543

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=92.21  E-value=0.54  Score=44.33  Aligned_cols=104  Identities=16%  Similarity=0.078  Sum_probs=80.0

Q ss_pred             HhHHHHHHhhchHHHHHHHHhh----hhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 024447            9 ANAKSLIKRHMYKDALEVLTMG----EEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER   84 (267)
Q Consensus         9 ek~r~~~~~~~y~~al~~ll~a----d~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r   84 (267)
                      ..-..+-++++|++|+.+.-.+    .+.|..-.+.++.+.+|.|.+..       .   .....+|.....++-..+++
T Consensus       292 ~~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~-------~---~g~~~eA~~~~~~~L~i~~~  361 (429)
T 3qwp_A          292 KKIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACI-------N---LGLLEEALFYGTRTMEPYRI  361 (429)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHH-------H---HTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHH-------h---hccHHHHHHHHHHHHHhHHH
Confidence            3344566789999999988766    45678889999999999887643       2   35789999999999999999


Q ss_pred             HhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        85 ~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                      .||.++--+....-          .    -|.+..++|+.++|..++.+|-+
T Consensus       362 ~lg~~Hp~~a~~l~----------n----La~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          362 FFPGSHPVRGVQVM----------K----VGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HSCSSCHHHHHHHH----------H----HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HcCCCChHHHHHHH----------H----HHHHHHhcCCHHHHHHHHHHHHH
Confidence            99988766533221          1    15567789999999999887754

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=92.20  E-value=0.9  Score=34.08  Aligned_cols=94  Identities=10%  Similarity=-0.131  Sum_probs=63.0

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA   85 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~   85 (267)
                      .++++|..+++.++|++|+..+-.|=+....           .+-....+..||..+++          ...|...|++.
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~-----------~~~a~~~lg~~~~~~g~----------~~~A~~~~~~a   77 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKEPE-----------REEAWRSLGLTQAENEK----------DGLAIIALNHA   77 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-----------CHHHHHHHHHHHHHTTC----------HHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-----------CHHHHHHHHHHHHHcCC----------HHHHHHHHHHH
Confidence            4678999999999999999998776543322           24445667888888765          44555666655


Q ss_pred             hCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhH
Q 024447           86 HGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQ  135 (267)
Q Consensus        86 yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~  135 (267)
                      .-.++.         .++ +.+     .-|.+.+..|+.++|...+..+-
T Consensus        78 l~l~P~---------~~~-~~~-----~la~~~~~~g~~~~A~~~~~~al  112 (121)
T 1hxi_A           78 RMLDPK---------DIA-VHA-----ALAVSHTNEHNANAALASLRAWL  112 (121)
T ss_dssp             HHHCTT---------CHH-HHH-----HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhCCC---------CHH-HHH-----HHHHHHHHcCCHHHHHHHHHHHH
Confidence            533332         111 222     23777778899999998887653

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=91.99  E-value=2.2  Score=29.76  Aligned_cols=97  Identities=21%  Similarity=0.144  Sum_probs=63.7

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      +-.++..|..+++.++|++|+.++..+-+...           +.+.....++.||+..++   ..+|..-+.++-+.  
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-----------~~~~~~~~la~~~~~~~~---~~~A~~~~~~~~~~--   72 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-----------NNAEAWYNLGNAYYKQGD---YDEAIEYYQKALEL--   72 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-----------TCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-----------CcHHHHHHHHHHHHHhCC---HHHHHHHHHHHHHh--
Confidence            34678889999999999999999988866532           223455677888887654   45555554444321  


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                        . .+           .+      .....-+.+.+..|+.++|...+..+-.
T Consensus        73 --~-~~-----------~~------~~~~~la~~~~~~~~~~~A~~~~~~~~~  105 (125)
T 1na0_A           73 --D-PN-----------NA------EAWYNLGNAYYKQGDYDEAIEYYQKALE  105 (125)
T ss_dssp             --C-TT-----------CH------HHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             --C-Cc-----------cH------HHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence              1 11           11      1122337777889999999988876544

>1tte_A Ubiquitin-conjugating enzyme E2-24 kDa; UBC1, ubiquitin-dependent degradation, ligase; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.1 d.20.1.1

Probab=91.94  E-value=0.12  Score=45.23  Aligned_cols=30  Identities=43%  Similarity=0.586  Sum_probs=27.5

Q ss_pred             CCHHHHHHHHhCCCCHHHHHHHHHHcCCCH
Q 024447          215 VDIEKIKELVSIGFEKELVAEALRRNENDS  244 (267)
Q Consensus       215 vd~e~v~~L~~MGF~~~~A~~ALr~t~ndv  244 (267)
                      .+.+.|+.+++|||+++.|+.||...+.|-
T Consensus       168 ~~~~~v~~~~~mg~~~~~~~~al~~~~~~~  197 (215)
T 1tte_A          168 IDHDLIDEFESQGFEKDKIVEVLRRLGVKS  197 (215)
T ss_dssp             CSHHHHHHHHHHTCCHHHHHHHHHHSCCSS
T ss_pred             ccHHHHHHHHHcCCCHHHHHHHHHHcCCCc
Confidence            468899999999999999999999998875

>1v92_A NSFL1 cofactor P47; 3-helix bundle, recombination; NMR {Rattus norvegicus} SCOP: a.5.2.3

Probab=91.54  E-value=0.24  Score=32.29  Aligned_cols=36  Identities=25%  Similarity=0.242  Sum_probs=28.9

Q ss_pred             HHHHHHhC-CCCHHHHHHHHHHcCCCHHHHHH-hccCC
Q 024447          219 KIKELVSI-GFEKELVAEALRRNENDSQKALD-DLTNP  254 (267)
Q Consensus       219 ~v~~L~~M-GF~~~~A~~ALr~t~ndve~Ald-lL~~p  254 (267)
                      .|.+.++. |-++..|+.-|..+++|++.|++ ++.+|
T Consensus         8 ~i~~F~~iTg~~~~~A~~~L~~~~wdle~Ai~~ff~~~   45 (46)
T 1v92_A            8 ALREFVAVTGAEEDRARFFLESAGWDLQIALASFYEDG   45 (46)
T ss_dssp             HHHHHHHHTCCCHHHHHHHHHHTTSCSHHHHHHHHHTC
T ss_pred             HHHHHHHHhCcCHHHHHHHHHHcCCCHHHHHHHHHcCC
Confidence            35555543 78999999999999999999999 55555

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=91.53  E-value=3.6  Score=36.75  Aligned_cols=76  Identities=18%  Similarity=0.162  Sum_probs=53.8

Q ss_pred             hhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHh
Q 024447            7 LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAH   86 (267)
Q Consensus         7 l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~y   86 (267)
                      +.--|.....+|+|++|+..+-.|-+.+..-...  +.--++++.--.+.|+|+.+.+   .++|...+.++.+..++..
T Consensus        54 yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~--~~~~~~~~~~~nla~~y~~~g~---~~~A~~~~~ka~~i~~~~~  128 (472)
T 4g1t_A           54 CNLLAYLKHLKGQNEAALECLRKAEELIQQEHAD--QAEIRSLVTWGNYAWVYYHMGR---LSDVQIYVDKVKHVCEKFS  128 (472)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGG--GCTTTTHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCcc--ccchHHHHHHHHHHHHHHHcCC---hHHHHHHHHHHHHHhHhcc
Confidence            3345777788899999999999998776543221  1111334445578999998764   7889999999888877654


Q ss_pred             C
Q 024447           87 G   87 (267)
Q Consensus        87 G   87 (267)
                      |
T Consensus       129 ~  129 (472)
T 4g1t_A          129 S  129 (472)
T ss_dssp             C
T ss_pred             c
Confidence            3

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=91.52  E-value=4.6  Score=32.51  Aligned_cols=125  Identities=11%  Similarity=-0.077  Sum_probs=78.3

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA   85 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~   85 (267)
                      .+...|....+.++|++|+.++-.|-+...           +.+.....+++||+..++          ...|...|++.
T Consensus        73 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-----------~~~~~~~~la~~~~~~g~----------~~~A~~~~~~~  131 (252)
T 2ho1_A           73 AHAALAVVFQTEMEPKLADEEYRKALASDS-----------RNARVLNNYGGFLYEQKR----------YEEAYQRLLEA  131 (252)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-----------TCHHHHHHHHHHHHHTTC----------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-----------CcHHHHHHHHHHHHHHhH----------HHHHHHHHHHH
Confidence            456678999999999999999988866532           234556778999988765          34455555555


Q ss_pred             hC--CCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhCCCCHHHHHH
Q 024447           86 HG--KDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKR  163 (267)
Q Consensus        86 yG--~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MGF~~~~Ar~  163 (267)
                      ..  .++.            .   ...+..-+.+.+..|+.++|...+..+-...+.   +...   +         ...
T Consensus       132 ~~~~~~~~------------~---~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~---~---------~~l  181 (252)
T 2ho1_A          132 SQDTLYPE------------R---SRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRN---QPSV---A---------LEM  181 (252)
T ss_dssp             TTCTTCTT------------H---HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC---CHHH---H---------HHH
T ss_pred             HhCccCcc------------c---HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcc---cHHH---H---------HHH
Confidence            42  2221            1   112233477788899999999998866543211   1111   1         112


Q ss_pred             H-HHHhCCCHHHHHHHHHh
Q 024447          164 A-LRICSQDVGSAIDFLVE  181 (267)
Q Consensus       164 A-Lr~~~gdve~A~~wL~~  181 (267)
                      | +....|+.+.|+.++..
T Consensus       182 a~~~~~~g~~~~A~~~~~~  200 (252)
T 2ho1_A          182 ADLLYKEREYVPARQYYDL  200 (252)
T ss_dssp             HHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHH
Confidence            2 12336788888887744

>1tte_A Ubiquitin-conjugating enzyme E2-24 kDa; UBC1, ubiquitin-dependent degradation, ligase; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.1 d.20.1.1

Probab=91.46  E-value=0.12  Score=45.10  Aligned_cols=31  Identities=16%  Similarity=0.225  Sum_probs=27.7

Q ss_pred             CCChhhHhhHHhCCCCHHHHHHHHHHhCCCH
Q 024447          142 QVPDESLSLVMSMGFKEQDAKRALRICSQDV  172 (267)
Q Consensus       142 ~vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdv  172 (267)
                      -.+.++|..+++|||++..|+.||..+|+|-
T Consensus       167 g~~~~~v~~~~~mg~~~~~~~~al~~~~~~~  197 (215)
T 1tte_A          167 GIDHDLIDEFESQGFEKDKIVEVLRRLGVKS  197 (215)
T ss_dssp             CCSHHHHHHHHHHTCCHHHHHHHHHHSCCSS
T ss_pred             cccHHHHHHHHHcCCCHHHHHHHHHHcCCCc
Confidence            3578899999999999999999999998763

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=91.45  E-value=2.4  Score=36.18  Aligned_cols=111  Identities=11%  Similarity=0.002  Sum_probs=75.5

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      +..++..|....+.++|++|+.++..|=+.+...+..-    ...+.....+.|||+.+++   .++|...+++|-+...
T Consensus       155 ~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~----~~~~~~~~nlg~~y~~~~~---y~~Al~~~~kal~~~~  227 (293)
T 2qfc_A          155 LYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNE----EFDVKVRYNHAKALYLDSR---YEESLYQVNKAIEISC  227 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCH----HHHHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccc----cchHHHHHhHHHHHHHHhh---HHHHHHHHHHHHHHHH
Confidence            44677889999999999999999999987665443210    0012456688999998765   5677777777766552


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhH-hhhhHhhHhh
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKA-RNALTSAQAK  137 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A-~~~l~~a~~~  137 (267)
                      . .            +...   ....++...|.+.+..|+.++| ..++.+|-.-
T Consensus       228 ~-~------------~~~~---~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~  266 (293)
T 2qfc_A          228 R-I------------NSMA---LIGQLYYQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             H-T------------TBCS---SHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             h-c------------CcHH---HHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHH
Confidence            2 1            1111   1233455678899999999999 7778766543

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=91.44  E-value=1.6  Score=38.74  Aligned_cols=95  Identities=14%  Similarity=0.051  Sum_probs=63.9

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA   85 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~   85 (267)
                      .+..+|..+++.++|++|+.++-.+-+...           +.+....-++.||..+++.   ++|..-+.++-+..   
T Consensus       145 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-----------~~~~~~~~l~~~~~~~g~~---~~A~~~~~~~~~~~---  207 (450)
T 2y4t_A          145 RLRSQALNAFGSGDYTAAIAFLDKILEVCV-----------WDAELRELRAECFIKEGEP---RKAISDLKAASKLK---  207 (450)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-----------TCHHHHHHHHHHHHHTTCG---GGGHHHHHHHHHHH---
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-----------CChHHHHHHHHHHHHCCCH---HHHHHHHHHHHHhC---
Confidence            467789999999999999999988765432           2445567789999998875   34444444333221   


Q ss_pred             hCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           86 HGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        86 yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                                   ...+      ..+..-+.+.+..|+.++|...+..+-.
T Consensus       208 -------------~~~~------~~~~~l~~~~~~~g~~~~A~~~~~~~~~  239 (450)
T 2y4t_A          208 -------------NDNT------EAFYKISTLYYQLGDHELSLSEVRECLK  239 (450)
T ss_dssp             -------------CSCH------HHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             -------------CCCH------HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                         1111      1223347778888999999998886643

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=91.33  E-value=5.1  Score=32.63  Aligned_cols=52  Identities=25%  Similarity=0.143  Sum_probs=31.7

Q ss_pred             HHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhCCCCHHHHHHH-HHHhCCCHHHHHHHHH
Q 024447          113 LEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRA-LRICSQDVGSAIDFLV  180 (267)
Q Consensus       113 Lqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MGF~~~~Ar~A-Lr~~~gdve~A~~wL~  180 (267)
                      .-|.+.+..|+.++|...+.++-+..    -+++...            ..| +....|+.+.|+.++.
T Consensus       123 ~lg~~~~~~g~~~~A~~~~~~al~~~----~~~~~~~------------~la~~~~~~g~~~~A~~~~~  175 (217)
T 2pl2_A          123 QRGLVYALLGERDKAEASLKQALALE----DTPEIRS------------ALAELYLSMGRLDEALAQYA  175 (217)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC----CCHHHHH------------HHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHhcc----cchHHHH------------HHHHHHHHcCCHHHHHHHHH
Confidence            34888888999999988887664431    1222221            222 1233578888888763

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=91.09  E-value=2.8  Score=34.25  Aligned_cols=59  Identities=14%  Similarity=0.015  Sum_probs=40.2

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKA   78 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~a   78 (267)
                      .++..|..+++.++|++|+..+-.|=+.    +|       +.+-...-+.+||+.+++   .++|..-+.++
T Consensus         7 ~~~~lg~~~~~~g~~~~A~~~~~~al~~----~p-------~~~~a~~~lg~~~~~~g~---~~~A~~~~~~a   65 (217)
T 2pl2_A            7 NPLRLGVQLYALGRYDAALTLFERALKE----NP-------QDPEALYWLARTQLKLGL---VNPALENGKTL   65 (217)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTT----SS-------SCHHHHHHHHHHHHHTTC---HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh----CC-------CCHHHHHHHHHHHHHcCC---HHHHHHHHHHH
Confidence            5678999999999999999998766432    22       334445667788888765   34444444433

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=91.02  E-value=2.3  Score=34.25  Aligned_cols=101  Identities=16%  Similarity=0.087  Sum_probs=65.6

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA   85 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~   85 (267)
                      .++..|...++.++|++|+..+-.|=+..           .+.+-...-+.+||+.+++   ..+|..-+.++-+..   
T Consensus        44 ~~~~~~~~~~~~~~~~~A~~~~~~al~~~-----------p~~~~~~~~l~~~~~~~~~---~~~A~~~~~~al~~~---  106 (228)
T 4i17_A           44 TAYNCGVCADNIKKYKEAADYFDIAIKKN-----------YNLANAYIGKSAAYRDMKN---NQEYIATLTEGIKAV---  106 (228)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTT-----------CSHHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHS---
T ss_pred             HHHHHHHHHHHhhcHHHHHHHHHHHHHhC-----------cchHHHHHHHHHHHHHccc---HHHHHHHHHHHHHHC---
Confidence            34558999999999999999988775432           2345566778999998875   344444444443221   


Q ss_pred             hCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhH
Q 024447           86 HGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQ  135 (267)
Q Consensus        86 yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~  135 (267)
                       ..++ .+          .......+...|.+.+..|+.++|...+.++-
T Consensus       107 -p~~~-~~----------~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al  144 (228)
T 4i17_A          107 -PGNA-TI----------EKLYAIYYLKEGQKFQQAGNIEKAEENYKHAT  144 (228)
T ss_dssp             -TTCH-HH----------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             -CCcH-HH----------HHHHHHHHHHHhHHHHHhccHHHHHHHHHHHH
Confidence             1111 11          11122345556888999999999999888654

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=90.85  E-value=1.8  Score=37.27  Aligned_cols=98  Identities=16%  Similarity=0.167  Sum_probs=68.9

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      +-.+...|..+++.++|++|+.++-.|=+...           +.+.+...+.-||+.+++          ...|...|+
T Consensus         4 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-----------~~~~~~~~la~~~~~~~~----------~~~A~~~~~   62 (281)
T 2c2l_A            4 AQELKEQGNRLFVGRKYPEAAACYGRAITRNP-----------LVAVYYTNRALCYLKMQQ----------PEQALADCR   62 (281)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-----------CCHHHHHHHHHHHHHTTC----------HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-----------ccHHHHHHHHHHHHHhcC----------HHHHHHHHH
Confidence            45678999999999999999999987755422           245566778889998775          344555555


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                      +..-.++.          .-.++     ..-|.+.+..|+.++|...+..+-..
T Consensus        63 ~al~~~p~----------~~~~~-----~~lg~~~~~~g~~~~A~~~~~~al~l  101 (281)
T 2c2l_A           63 RALELDGQ----------SVKAH-----FFLGQCQLEMESYDEAIANLQRAYSL  101 (281)
T ss_dssp             HHTTSCTT----------CHHHH-----HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCCC----------CHHHH-----HHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            55533331          11233     33488899999999999988876544

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=90.52  E-value=2.2  Score=35.56  Aligned_cols=104  Identities=17%  Similarity=0.068  Sum_probs=68.5

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA   85 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~   85 (267)
                      .++..|...++.++|++|+.++-.|-+.+...+...  ..++++....-+.+||..+++   .++|...+.++-+.    
T Consensus       195 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~la~~~~~~g~---~~~A~~~~~~a~~~----  265 (330)
T 3hym_B          195 VMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEV--TVDKWEPLLNNLGHVCRKLKK---YAEALDYHRQALVL----  265 (330)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSC--TTTTCCHHHHHHHHHHHHTTC---HHHHHHHHHHHHHH----
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccc--cccHHHHHHHHHHHHHHHhcC---HHHHHHHHHHHHhh----
Confidence            456778888899999999998888877665443321  224556677788999998775   45555555444432    


Q ss_pred             hCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           86 HGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        86 yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                         ++         ..++      .+..-|.+.+..|+.++|...+..+-+
T Consensus       266 ---~~---------~~~~------~~~~la~~~~~~g~~~~A~~~~~~al~  298 (330)
T 3hym_B          266 ---IP---------QNAS------TYSAIGYIHSLMGNFENAVDYFHTALG  298 (330)
T ss_dssp             ---ST---------TCSH------HHHHHHHHHHHHTCHHHHHHHHHTTTT
T ss_pred             ---Cc---------cchH------HHHHHHHHHHHhccHHHHHHHHHHHHc
Confidence               11         1111      122347888899999999998885543

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=90.41  E-value=1.2  Score=41.86  Aligned_cols=86  Identities=22%  Similarity=0.107  Sum_probs=70.1

Q ss_pred             hhhhhhHhHHHHHHhhchHHHHHHHHhhhh----hhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHH
Q 024447            3 MGLMLHANAKSLIKRHMYKDALEVLTMGEE----AFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKA   78 (267)
Q Consensus         3 ~~~~l~ek~r~~~~~~~y~~al~~ll~ad~----~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~a   78 (267)
                      ++-++.--|.+...+|+|++|+.+...|=+    .+..=.|.+..+..|.|.+..+          ....++|..-+.+|
T Consensus       328 ~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nLa~~~~~----------~g~~~eA~~~~~~A  397 (429)
T 3qwp_A          328 QLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKVGKLQLH----------QGMFPQAMKNLRLA  397 (429)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHH----------TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHHHHHHHHh----------cCCHHHHHHHHHHH
Confidence            345677778899999999999999887754    4556667888888888776554          45689999999999


Q ss_pred             HHHHHHHhCCCHHHHHHHHc
Q 024447           79 REGIERAHGKDSSRVRLLQA   98 (267)
Q Consensus        79 e~~f~r~yG~~~~rl~~lkg   98 (267)
                      -+.+++.||.++-.+..+..
T Consensus       398 l~i~~~~lG~~Hp~~~~~~~  417 (429)
T 3qwp_A          398 FDIMRVTHGREHSLIEDLIL  417 (429)
T ss_dssp             HHHHHHHTCTTSHHHHHHHH
T ss_pred             HHHHHHhcCCCChHHHHHHH
Confidence            99999999999988877763

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=90.09  E-value=3.4  Score=38.90  Aligned_cols=97  Identities=16%  Similarity=0.087  Sum_probs=66.1

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER   84 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r   84 (267)
                      -.++..|..+++.++|++|+..+-.|=+...           +.+-....+.+||+.+++   .++|...+.+|-+.   
T Consensus        24 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-----------~~~~~~~~lg~~~~~~g~---~~~A~~~~~~al~~---   86 (568)
T 2vsy_A           24 VAWLMLADAELGMGDTTAGEMAVQRGLALHP-----------GHPEAVARLGRVRWTQQR---HAEAAVLLQQASDA---   86 (568)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHTTST-----------TCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHH---
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-----------CCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHhc---
Confidence            3567889999999999999999988765422           234456778899998865   45555555544432   


Q ss_pred             HhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447           85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus        85 ~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                          ++.          ...     .+..-|.+.+..|+.++|...+.++-+.
T Consensus        87 ----~p~----------~~~-----~~~~la~~~~~~g~~~~A~~~~~~al~~  120 (568)
T 2vsy_A           87 ----APE----------HPG-----IALWLGHALEDAGQAEAAAAAYTRAHQL  120 (568)
T ss_dssp             ----CTT----------CHH-----HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ----CCC----------CHH-----HHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence                111          111     2233477888999999999998876554

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=90.04  E-value=2.2  Score=37.29  Aligned_cols=49  Identities=12%  Similarity=0.048  Sum_probs=27.2

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCC
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDI   65 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~   65 (267)
                      .++..|....+.++|++|+.++-.|=+.    +|       +.+-...-+.++|+..++.
T Consensus        69 ~~~~lg~~~~~~g~~~~A~~~~~~al~~----~p-------~~~~~~~~l~~~~~~~g~~  117 (388)
T 1w3b_A           69 AYSNLGNVYKERGQLQEAIEHYRHALRL----KP-------DFIDGYINLAAALVAAGDM  117 (388)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH----CT-------TCHHHHHHHHHHHHHHSCS
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHc----Cc-------chHHHHHHHHHHHHHcCCH
Confidence            3556666777777777777766655332    12       1122233456666666654

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=90.04  E-value=2.8  Score=36.24  Aligned_cols=108  Identities=16%  Similarity=0.012  Sum_probs=67.0

Q ss_pred             hhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHh
Q 024447            7 LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAH   86 (267)
Q Consensus         7 l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~y   86 (267)
                      +..-|..+...++|++|+..+..|=+.+...+.     ....+..-..+..||..+++   .++|...+.+|-+.+.+. 
T Consensus        39 ~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~-----~~~~a~~~~~lg~~~~~~g~---~~~A~~~~~~Al~l~~~~-  109 (307)
T 2ifu_A           39 YAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRS-----LFHAAKAFEQAGMMLKDLQR---MPEAVQYIEKASVMYVEN-  109 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC-----HHHHHHHHHHHHHHHHHTTC---GGGGHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCC-----HHHHHHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHHHHc-
Confidence            334467777888888888888888776654432     22345556677888887765   466777777777766431 


Q ss_pred             CCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhc
Q 024447           87 GKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFF  139 (267)
Q Consensus        87 G~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~  139 (267)
                      | ++.          .....+..    -|.+... |+.++|..++.++-+..+
T Consensus       110 g-~~~----------~~a~~~~~----lg~~~~~-g~~~~A~~~~~~Al~~~~  146 (307)
T 2ifu_A          110 G-TPD----------TAAMALDR----AGKLMEP-LDLSKAVHLYQQAAAVFE  146 (307)
T ss_dssp             T-CHH----------HHHHHHHH----HHHHHTT-TCHHHHHHHHHHHHHHHH
T ss_pred             C-CHH----------HHHHHHHH----HHHHHHc-CCHHHHHHHHHHHHHHHH
Confidence            1 111          11111111    2555555 999999999887755443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=89.71  E-value=0.71  Score=41.28  Aligned_cols=108  Identities=20%  Similarity=0.162  Sum_probs=66.1

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCC-----hhhhhhccc-hhhhhhhHHHHHHHhCCCCCHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCD-----PKVLEFVDN-GPLLQIDMVWCYFMLRDISWLSEAGIRLRK   77 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~-----~~~l~~vDn-~a~l~ldivwcy~~l~~~~~l~dA~~rL~~   77 (267)
                      +-.++.+|..++++++|++|+..+..|=+......     .+.-+...- ..-+.+.+..||+.+++.   .+|...+.+
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~---~~A~~~~~~  255 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRY---DEAIGHCNI  255 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHHSCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCC---HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCH---HHHHHHHHH
Confidence            45678899999999999999999887654332110     000000000 001456778899888764   455444444


Q ss_pred             HHHHHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           78 AREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        78 ae~~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                      |-+.                 ......+++-+     |.+.+..|+.++|...+..+-.
T Consensus       256 al~~-----------------~p~~~~a~~~l-----g~a~~~~g~~~~A~~~l~~al~  292 (338)
T 2if4_A          256 VLTE-----------------EEKNPKALFRR-----GKAKAELGQMDSARDDFRKAQK  292 (338)
T ss_dssp             HHHH-----------------CTTCHHHHHHH-----HHHHHTTTCHHHHHHHHHHTTC
T ss_pred             HHHh-----------------CCCCHHHHHHH-----HHHHHHcCCHHHHHHHHHHHHH
Confidence            4321                 11223344444     8888999999999998886543

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=89.63  E-value=1.3  Score=36.87  Aligned_cols=121  Identities=11%  Similarity=0.035  Sum_probs=71.9

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhC-----CCCCHHHHHHHHHHHH
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLR-----DISWLSEAGIRLRKAR   79 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~-----~~~~l~dA~~rL~~ae   79 (267)
                      -.++..|...++.++|++|+..+-.+=+.+..-        .+++-...-+..||+.+.     +....++|..-+.++-
T Consensus        53 ~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~--------~~~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l  124 (261)
T 3qky_A           53 DAQFYLARAYYQNKEYLLAASEYERFIQIYQID--------PRVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFI  124 (261)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC--------TTHHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCC--------chhHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHH
Confidence            456788999999999999999998776655322        133444566788898843     3455566666555554


Q ss_pred             HHHHHHhCC--CHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhcc
Q 024447           80 EGIERAHGK--DSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQ  140 (267)
Q Consensus        80 ~~f~r~yG~--~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~  140 (267)
                      +.+-.+--.  -..++..+.+..  ..     -+..-|.+.+..|+.++|...+..+-...+.
T Consensus       125 ~~~p~~~~~~~a~~~~~~~~~~~--~~-----~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~  180 (261)
T 3qky_A          125 DRYPNHELVDDATQKIRELRAKL--AR-----KQYEAARLYERRELYEAAAVTYEAVFDAYPD  180 (261)
T ss_dssp             HHCTTCTTHHHHHHHHHHHHHHH--HH-----HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHCcCchhHHHHHHHHHHHHHHH--HH-----HHHHHHHHHHHccCHHHHHHHHHHHHHHCCC
Confidence            432111000  001111111110  00     1234488899999999999999877555443

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=89.45  E-value=1.6  Score=41.38  Aligned_cols=86  Identities=17%  Similarity=0.099  Sum_probs=70.6

Q ss_pred             hhhhhhHhHHHHHHhhchHHHHHHHHhh----hhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHH
Q 024447            3 MGLMLHANAKSLIKRHMYKDALEVLTMG----EEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKA   78 (267)
Q Consensus         3 ~~~~l~ek~r~~~~~~~y~~al~~ll~a----d~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~a   78 (267)
                      ++-++.--|.....+|+|++|+.+...|    .+.+..=.|.+..+..|.|.+..       .   ....++|..-+.+|
T Consensus       339 ~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~-------~---qg~~~eA~~~~~~A  408 (433)
T 3qww_A          339 MLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYM-------G---LENKAAGEKALKKA  408 (433)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHH-------H---TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHH-------h---ccCHHHHHHHHHHH
Confidence            3456677788899999999999998776    45667778889888888887743       3   34679999999999


Q ss_pred             HHHHHHHhCCCHHHHHHHHc
Q 024447           79 REGIERAHGKDSSRVRLLQA   98 (267)
Q Consensus        79 e~~f~r~yG~~~~rl~~lkg   98 (267)
                      -+.+++.||.++-.+..++.
T Consensus       409 l~i~~~~lG~~Hp~~~~l~~  428 (433)
T 3qww_A          409 IAIMEVAHGKDHPYISEIKQ  428 (433)
T ss_dssp             HHHHHHHTCTTCHHHHHHHH
T ss_pred             HHHHHHHcCCCChHHHHHHH
Confidence            99999999999988877664

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=89.42  E-value=3.2  Score=35.36  Aligned_cols=110  Identities=11%  Similarity=0.001  Sum_probs=78.1

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER   84 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r   84 (267)
                      ..+.--|....+.++|++|+.++-.|=+.+..-..    .-.+++.+...|.|||+.+++   .++|...+.+|-+....
T Consensus       156 ~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~----~~~~~~~~~~nlg~~y~~~~~---y~~A~~~~~~al~~~~~  228 (293)
T 3u3w_A          156 YIENAIANIYAENGYLKKGIDLFEQILKQLEALHD----NEEFDVKVRYNHAKALYLDSR---YEESLYQVNKAIEISCR  228 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSC----CHHHHHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhccc----chhHHHHHHHHHHHHHHHHhH---HHHHHHHHHHHHHHHHH
Confidence            35777899999999999999999999877654311    223556677889999999875   57787777777665543


Q ss_pred             HhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCc-hhHhhhhHhhHhh
Q 024447           85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQF-DKARNALTSAQAK  137 (267)
Q Consensus        85 ~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~-d~A~~~l~~a~~~  137 (267)
                      ..            ...    ....++..-|.+.+..|+. ++|...+.+|-.-
T Consensus       229 ~~------------~~~----~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al~i  266 (293)
T 3u3w_A          229 IN------------SMA----LIGQLYYQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             TT------------BCT----THHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             cC------------cHH----HHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHH
Confidence            21            111    1133455568899999964 9999988877543

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=89.37  E-value=3.8  Score=31.63  Aligned_cols=28  Identities=21%  Similarity=0.097  Sum_probs=21.4

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhh
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEA   33 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~   33 (267)
                      .++..|...++.++|++|+..+..+-+.
T Consensus        41 ~~~~la~~~~~~~~~~~a~~~~~~~~~~   68 (184)
T 3vtx_A           41 TLLKLGKTYMDIGLPNDAIESLKKFVVL   68 (184)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            4567788888888888888888766543

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=89.36  E-value=8.2  Score=31.86  Aligned_cols=57  Identities=14%  Similarity=0.063  Sum_probs=39.4

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHH----hCCCCCHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFM----LRDISWLSEAGIRLRKA   78 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~----l~~~~~l~dA~~rL~~a   78 (267)
                      .++..|...++.++|++|+.++..|=+             -+.+.....+..+|+.    .++   .+.|..-+.+|
T Consensus         8 a~~~lg~~~~~~~~~~~A~~~~~~a~~-------------~~~~~a~~~lg~~~~~g~~~~~~---~~~A~~~~~~a   68 (273)
T 1ouv_A            8 ELVGLGAKSYKEKDFTQAKKYFEKACD-------------LKENSGCFNLGVLYYQGQGVEKN---LKKAASFYAKA   68 (273)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH-------------TTCHHHHHHHHHHHHHTSSSCCC---HHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHH-------------CCCHHHHHHHHHHHHcCCCcCCC---HHHHHHHHHHH
Confidence            567889999999999999999988865             1223345667888887    443   44454444444

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=89.28  E-value=9.5  Score=32.51  Aligned_cols=147  Identities=12%  Similarity=0.011  Sum_probs=87.9

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      +..++..|....+.++|++|+.++-.|=+.+...+.     ....+.....|.++|...  +...+.|...+.+|-+.+.
T Consensus        77 a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~-----~~~~a~~~~~lg~~~~~~--lg~~~~A~~~~~~Al~~~~  149 (292)
T 1qqe_A           77 GNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQ-----FRRGANFKFELGEILEND--LHDYAKAIDCYELAGEWYA  149 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC-----HHHHHHHHHHHHHHHHHT--TCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCC-----HHHHHHHHHHHHHHHHHh--hcCHHHHHHHHHHHHHHHH
Confidence            557888999999999999999999999887654322     112244455677788762  2446777777777776655


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCCh-hhHhhHHhCCCCHHHHH
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPD-ESLSLVMSMGFKEQDAK  162 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~-~~l~~L~~MGF~~~~Ar  162 (267)
                      ..- . ..          .....    +.--|.+.+..|+.++|...+..+-...+...... ..-..+.         .
T Consensus       150 ~~~-~-~~----------~~~~~----~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~---------~  204 (292)
T 1qqe_A          150 QDQ-S-VA----------LSNKC----FIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFL---------K  204 (292)
T ss_dssp             HTT-C-HH----------HHHHH----HHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHH---------H
T ss_pred             hCC-C-hH----------HHHHH----HHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHH---------H
Confidence            321 1 00          00111    12227778899999999999887655332211000 0000111         1


Q ss_pred             HH-HHHhCCCHHHHHHHHHhh
Q 024447          163 RA-LRICSQDVGSAIDFLVEE  182 (267)
Q Consensus       163 ~A-Lr~~~gdve~A~~wL~~~  182 (267)
                      .+ +....|+.+.|+.++..-
T Consensus       205 lg~~~~~~g~~~~A~~~~~~a  225 (292)
T 1qqe_A          205 KGLCQLAATDAVAAARTLQEG  225 (292)
T ss_dssp             HHHHHHHTTCHHHHHHHHHGG
T ss_pred             HHHHHHHcCCHHHHHHHHHHH
Confidence            22 233467889998877443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=89.26  E-value=7.1  Score=34.37  Aligned_cols=130  Identities=12%  Similarity=0.021  Sum_probs=72.5

Q ss_pred             hhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHh
Q 024447            7 LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAH   86 (267)
Q Consensus         7 l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~y   86 (267)
                      +..-|+...+.|+|++|+.++..+=+.++..+..-..     ++++--|..+|   ......+.|..-..+|-.......
T Consensus        58 l~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-----~~~~~~l~~~~---~~~~~~~~a~~~~~~~~~~~~~~~  129 (434)
T 4b4t_Q           58 ILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTV-----KVLKTLIEKFE---QVPDSLDDQIFVCEKSIEFAKREK  129 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHH-----HHHHHHHHHHC---SCCSCHHHHHHHHHHHHHHHHHSS
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHH-----HHHHHHHHHHH---hCCCCHHHHHHHHHHHHHHHHHhC
Confidence            5677899999999999999999998888877643111     01111111111   112223333333333322222211


Q ss_pred             CCCH--------------------------HHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhcc
Q 024447           87 GKDS--------------------------SRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQ  140 (267)
Q Consensus        87 G~~~--------------------------~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~  140 (267)
                       ...                          +++..+.. ...+....+..+++++-+.+..|+.+.|...+.++......
T Consensus       130 -~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~  207 (434)
T 4b4t_Q          130 -RVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFK-KLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANS  207 (434)
T ss_dssp             -CCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHT-TSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             -ccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHH-hcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhc
Confidence             000                          00111111 11123344668889999999999999999999988776666


Q ss_pred             CCCChh
Q 024447          141 LQVPDE  146 (267)
Q Consensus       141 l~vd~~  146 (267)
                      +..++.
T Consensus       208 ~~~~~~  213 (434)
T 4b4t_Q          208 IYCPTQ  213 (434)
T ss_dssp             SCCCHH
T ss_pred             CCCchH
Confidence            554443

>1ixs_A Holliday junction DNA helicase RUVA; heterodimeric protein complex, AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ANP; 3.20A {Thermus thermophilus} SCOP: a.5.1.1

Probab=88.93  E-value=0.8  Score=32.28  Aligned_cols=24  Identities=25%  Similarity=0.440  Sum_probs=21.6

Q ss_pred             hhhHhhHHhCCCCHHHHHHHHHHh
Q 024447          145 DESLSLVMSMGFKEQDAKRALRIC  168 (267)
Q Consensus       145 ~~~l~~L~~MGF~~~~Ar~ALr~~  168 (267)
                      ++.++.|+.+||++.+|.+|+...
T Consensus        18 ~ea~~AL~aLGY~~~ea~kav~~v   41 (62)
T 1ixs_A           18 EEAVMALAALGFKEAQARAVVLDL   41 (62)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHH
Confidence            478999999999999999999764

>2dal_A Protein KIAA0794; FAS associted factor 1, UBA-like domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=88.90  E-value=0.52  Score=33.17  Aligned_cols=39  Identities=21%  Similarity=0.228  Sum_probs=32.0

Q ss_pred             HHHHHHHhC-CCCHHHHHHHHHHcCCCHHHHHH-hccCCCc
Q 024447          218 EKIKELVSI-GFEKELVAEALRRNENDSQKALD-DLTNPES  256 (267)
Q Consensus       218 e~v~~L~~M-GF~~~~A~~ALr~t~ndve~Ald-lL~~pd~  256 (267)
                      +.|.+.+++ |-++..|+.-|..+++|++.|++ ++.+|+.
T Consensus        17 e~i~qF~~iTg~~~~~A~~~Le~~~WnLe~Av~~ff~~~~~   57 (62)
T 2dal_A           17 GLIQQFTTITGASESVGKHMLEACNNNLEMAVTMFLDGGGS   57 (62)
T ss_dssp             HHHHHHHHHTCCCHHHHHHHHHTTTSCHHHHHHHHHHSCCC
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHcCCCC
Confidence            456776664 88999999999999999999999 5566643

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=88.80  E-value=7.6  Score=32.92  Aligned_cols=103  Identities=12%  Similarity=0.071  Sum_probs=62.5

Q ss_pred             hHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccch--hhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhC
Q 024447           10 NAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNG--PLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHG   87 (267)
Q Consensus        10 k~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~--a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~yG   87 (267)
                      .|......++|++|+..+..|=+.....       .|.+  +.....|.++|+.+++   .+.|...+.+|-+.++...+
T Consensus       121 ~~~~~~~~~~~~~A~~~~~~al~~~~~~-------~~~~~~~~~~~~lg~~y~~~~~---~~~A~~~~~kal~~~~~~~~  190 (293)
T 2qfc_A          121 VAAYVLKKVDYEYCILELKKLLNQQLTG-------IDVYQNLYIENAIANIYAENGY---LKKGIDLFEQILKQLEALHD  190 (293)
T ss_dssp             HHHHHHTSSCHHHHHHHHHHHHTTCCCS-------SCTTHHHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHhcCCCHHHHHHHHHHHHHHHhcC-------CchHHHHHHHHHHHHHHHHcCC---HHHHHHHHHHHHHHHHhcCc
Confidence            4444455555666655555444332221       1222  4455678899988654   57788888888777665432


Q ss_pred             CCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447           88 KDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus        88 ~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                       +.. +             ....+.--|++.+..|+.++|...+.++-..
T Consensus       191 -~~~-~-------------~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~  225 (293)
T 2qfc_A          191 -NEE-F-------------DVKVRYNHAKALYLDSRYEESLYQVNKAIEI  225 (293)
T ss_dssp             -CHH-H-------------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             -ccc-c-------------hHHHHHhHHHHHHHHhhHHHHHHHHHHHHHH
Confidence             211 1             1133344588999999999999999876543

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=88.53  E-value=12  Score=34.36  Aligned_cols=55  Identities=20%  Similarity=0.099  Sum_probs=33.8

Q ss_pred             HHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHh
Q 024447          113 LEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE  181 (267)
Q Consensus       113 Lqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~  181 (267)
                      .-+.+.+..|+.++|...+.++-+..+.   ++.....|.           -+....|+.+.|..++..
T Consensus       521 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~---~~~~~~~l~-----------~~~~~~g~~~~A~~~~~~  575 (597)
T 2xpi_A          521 NLGHAYRKLKMYDAAIDALNQGLLLSTN---DANVHTAIA-----------LVYLHKKIPGLAITHLHE  575 (597)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSSC---CHHHHHHHH-----------HHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHhCCC---ChHHHHHHH-----------HHHHHhCCHHHHHHHHHH
Confidence            3467777889999999998876543211   222222221           123447889999987743

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=88.47  E-value=4.3  Score=37.81  Aligned_cols=16  Identities=19%  Similarity=0.063  Sum_probs=12.0

Q ss_pred             CCchhHhhhhHhhHhh
Q 024447          122 GQFDKARNALTSAQAK  137 (267)
Q Consensus       122 g~~d~A~~~l~~a~~~  137 (267)
                      |+.++|...+.++-..
T Consensus       235 g~~~~A~~~~~~al~~  250 (474)
T 4abn_A          235 KISQQALSAYAQAEKV  250 (474)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHh
Confidence            7788888888876554

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=88.46  E-value=1.5  Score=39.86  Aligned_cols=93  Identities=19%  Similarity=0.237  Sum_probs=62.2

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      +..+..+|..+++.++|++|+.++-.|=+...           +.+.....+.+||+.+++   .++|       .+.|+
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-----------~~~~~~~~la~~~~~~g~---~~~A-------~~~~~   83 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELDP-----------NEPVFYSNISACYISTGD---LEKV-------IEFTT   83 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHCT-----------TCHHHHHHHHHHHHHHTC---HHHH-------HHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhCC-----------CCcHHHHHHHHHHHHcCC---HHHH-------HHHHH
Confidence            45688999999999999999999987765432           335677888999999875   3444       44444


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhH
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALT  132 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~  132 (267)
                      +....++.          .-.+     +...|.+.+..|+.++|...+.
T Consensus        84 ~al~~~p~----------~~~~-----~~~la~~~~~~g~~~~A~~~~~  117 (537)
T 3fp2_A           84 KALEIKPD----------HSKA-----LLRRASANESLGNFTDAMFDLS  117 (537)
T ss_dssp             HHHHHCTT----------CHHH-----HHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHhcCCc----------hHHH-----HHHHHHHHHHcCCHHHHHHHHH
Confidence            43311111          1112     2334777888899999988764

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=88.42  E-value=5.4  Score=40.10  Aligned_cols=95  Identities=15%  Similarity=0.028  Sum_probs=58.6

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA   85 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~   85 (267)
                      .++..|..+.++|+|++|+.++-.|=+.    +|       +++.....+.-+|..+++   .++|...+.+|-+     
T Consensus        11 al~nLG~~~~~~G~~~eAi~~~~kAl~l----~P-------~~~~a~~nLg~~l~~~g~---~~eA~~~~~~Al~-----   71 (723)
T 4gyw_A           11 SLNNLANIKREQGNIEEAVRLYRKALEV----FP-------EFAAAHSNLASVLQQQGK---LQEALMHYKEAIR-----   71 (723)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH----CS-------CCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHH-----
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh----CC-------CCHHHHHHHHHHHHHcCC---HHHHHHHHHHHHH-----
Confidence            5778899999999999999998877433    22       344444555666776653   4455444444322     


Q ss_pred             hCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           86 HGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        86 yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                        .++.         . -.++     .--|.+....|+.++|...+.++-+
T Consensus        72 --l~P~---------~-~~a~-----~nLg~~l~~~g~~~~A~~~~~kAl~  105 (723)
T 4gyw_A           72 --ISPT---------F-ADAY-----SNMGNTLKEMQDVQGALQCYTRAIQ  105 (723)
T ss_dssp             --HCTT---------C-HHHH-----HHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             --hCCC---------C-HHHH-----HHHHHHHHHcCCHHHHHHHHHHHHH
Confidence              1111         1 1122     2237777788888888887776543

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=88.28  E-value=3.2  Score=37.35  Aligned_cols=42  Identities=12%  Similarity=0.020  Sum_probs=29.8

Q ss_pred             HHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhCCCCH
Q 024447          113 LEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKE  158 (267)
Q Consensus       113 Lqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MGF~~  158 (267)
                      -+|++..+.|+.++|...+.++.+..+    +++.-..|.++.|..
T Consensus       213 ~~glaL~~lGr~deA~~~l~~a~a~~P----~~~~~~aL~~~~~~~  254 (282)
T 4f3v_A          213 YLAMARRSQGNESAAVALLEWLQTTHP----EPKVAAALKDPSYRL  254 (282)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHSC----CHHHHHHHHCTTCCC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCC----cHHHHHHHhCCCCCC
Confidence            358999999999999999987766433    244444666666643

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=88.25  E-value=7.1  Score=30.00  Aligned_cols=97  Identities=12%  Similarity=0.086  Sum_probs=51.7

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHH-HHHhCCCCCHHHHHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWC-YFMLRDISWLSEAGIRLRKAREGIER   84 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwc-y~~l~~~~~l~dA~~rL~~ae~~f~r   84 (267)
                      .+...|...+..++|++|+..+-.|=+...           +.+.....+..| |+..++.. .++|...+.++-+.   
T Consensus        46 ~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-----------~~~~~~~~la~~l~~~~~~~~-~~~A~~~~~~al~~---  110 (177)
T 2e2e_A           46 QWALLGEYYLWQNDYSNSLLAYRQALQLRG-----------ENAELYAALATVLYYQASQHM-TAQTRAMIDKALAL---  110 (177)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHC-----------SCHHHHHHHHHHHHHHTTTCC-CHHHHHHHHHHHHH---
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-----------CCHHHHHHHHHHHHHhcCCcc-hHHHHHHHHHHHHh---
Confidence            455667777777888888777766644332           123445566666 66665531 13333333332221   


Q ss_pred             HhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        85 ~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                          ++         .. ..+     +..-|.+.+..|+.++|...+..+-.
T Consensus       111 ----~p---------~~-~~~-----~~~la~~~~~~g~~~~A~~~~~~al~  143 (177)
T 2e2e_A          111 ----DS---------NE-ITA-----LMLLASDAFMQANYAQAIELWQKVMD  143 (177)
T ss_dssp             ----CT---------TC-HHH-----HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ----CC---------Cc-HHH-----HHHHHHHHHHcccHHHHHHHHHHHHh
Confidence                11         11 111     22236667777777777777665543

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=88.09  E-value=5.1  Score=27.94  Aligned_cols=95  Identities=20%  Similarity=0.117  Sum_probs=59.4

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA   85 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~   85 (267)
                      .++..|....+.++|++|+.++-.+-+...           +.+.....+..||+..++   .++|...+.++-+.    
T Consensus        37 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-----------~~~~~~~~l~~~~~~~~~---~~~A~~~~~~~~~~----   98 (136)
T 2fo7_A           37 AWYNLGNAYYKQGDYDEAIEYYQKALELDP-----------RSAEAWYNLGNAYYKQGD---YDEAIEYYQKALEL----   98 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-----------TCHHHHHHHHHHHHTTTC---HHHHHHHHHHHHHH----
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHCC-----------CchHHHHHHHHHHHHhcC---HHHHHHHHHHHHHh----
Confidence            345678888999999999999887765432           123344567888877654   45555555444321    


Q ss_pred             hCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           86 HGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        86 yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                      . .+           . ..     ....-+.+.+..|+.++|...+..+-.
T Consensus        99 ~-~~-----------~-~~-----~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           99 D-PR-----------S-AE-----AWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             C-TT-----------C-HH-----HHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             C-CC-----------C-hH-----HHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            1 11           1 11     122236677789999999988876543

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=87.99  E-value=7.2  Score=31.65  Aligned_cols=27  Identities=15%  Similarity=0.089  Sum_probs=15.9

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhh
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEE   32 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~   32 (267)
                      .+...|...++.++|++|+..+-.|-+
T Consensus        76 ~~~~lg~~~~~~~~~~~A~~~~~~a~~  102 (272)
T 3u4t_A           76 DFEYYGKILMKKGQDSLAIQQYQAAVD  102 (272)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHh
Confidence            345556666666666666666655544

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=87.96  E-value=6.7  Score=34.10  Aligned_cols=50  Identities=10%  Similarity=-0.131  Sum_probs=33.0

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCC
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDI   65 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~   65 (267)
                      ..+...|....+.++|++|+.++-.|=+.    +|.       ++-....+.++|...++.
T Consensus       170 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~----~p~-------~~~~~~~lg~~~~~~~~~  219 (388)
T 1w3b_A          170 VAWSNLGCVFNAQGEIWLAIHHFEKAVTL----DPN-------FLDAYINLGNVLKEARIF  219 (388)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHH----CTT-------CHHHHHHHHHHHHTTTCT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhc----CCC-------cHHHHHHHHHHHHHcCCH
Confidence            45667888899999999999988777543    222       222334556677666554

>2dzl_A Protein FAM100B; UBA-like domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=87.82  E-value=0.83  Score=32.64  Aligned_cols=39  Identities=15%  Similarity=0.158  Sum_probs=31.3

Q ss_pred             HHHHHHHhC-CCCHHHHHHHHHHcCCCHHHHHH-hccCCCc
Q 024447          218 EKIKELVSI-GFEKELVAEALRRNENDSQKALD-DLTNPES  256 (267)
Q Consensus       218 e~v~~L~~M-GF~~~~A~~ALr~t~ndve~Ald-lL~~pd~  256 (267)
                      +.|.+.++. |-++..|+.-|..+++|++.|++ ++.+|..
T Consensus        19 ~~i~qF~~iTg~~~~~A~~~Le~~~WdLe~Al~~ff~~~~~   59 (66)
T 2dzl_A           19 VMINQFVLAAGCAADQAKQLLQAAHWQFETALSTFFQETNI   59 (66)
T ss_dssp             HHHHHHHHHHCCCHHHHHHHHHTTTTCHHHHHHHHHTCSCC
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHHcCCCC
Confidence            446666655 88999999999999999999999 5556543

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=87.71  E-value=2.4  Score=38.44  Aligned_cols=26  Identities=8%  Similarity=0.055  Sum_probs=14.6

Q ss_pred             hhHhHHHHHHhhchHHHHHHHHhhhh
Q 024447            7 LHANAKSLIKRHMYKDALEVLTMGEE   32 (267)
Q Consensus         7 l~ek~r~~~~~~~y~~al~~ll~ad~   32 (267)
                      ++..|..+++.++|++|+.++-.+=+
T Consensus       279 ~~~l~~~~~~~~~~~~A~~~~~~~~~  304 (537)
T 3fp2_A          279 YIFLALTLADKENSQEFFKFFQKAVD  304 (537)
T ss_dssp             HHHHHHHTCCSSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHhc
Confidence            34455555666666666666555543

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=87.58  E-value=1.6  Score=40.73  Aligned_cols=97  Identities=11%  Similarity=-0.058  Sum_probs=66.7

Q ss_pred             hhhhhHhHHHHHHhhch-HHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMY-KDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGI   82 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y-~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f   82 (267)
                      +..++.+|+.++..++| ++|+.++-.|=+..           .+.+-...-+.+||+.+++          ...|.+.|
T Consensus       102 a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-----------p~~~~a~~~lg~~~~~~g~----------~~~A~~~~  160 (474)
T 4abn_A          102 AQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-----------PELVEAWNQLGEVYWKKGD----------VTSAHTCF  160 (474)
T ss_dssp             HHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-----------TTCHHHHHHHHHHHHHHTC----------HHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-----------CCCHHHHHHHHHHHHHcCC----------HHHHHHHH
Confidence            34678899999999999 99999998775542           2334455678889988765          45677777


Q ss_pred             HHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhcc---------CCchhHhhhhHhhHhh
Q 024447           83 ERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHS---------GQFDKARNALTSAQAK  137 (267)
Q Consensus        83 ~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~---------g~~d~A~~~l~~a~~~  137 (267)
                      +++.-.++.          . .     .+..-|.+.+..         |+.++|...+.++-+.
T Consensus       161 ~~al~~~p~----------~-~-----~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~  208 (474)
T 4abn_A          161 SGALTHCKN----------K-V-----SLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQM  208 (474)
T ss_dssp             HHHHTTCCC----------H-H-----HHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhCCC----------H-H-----HHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHh
Confidence            776644321          1 1     122236667777         8888888888766543

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=87.07  E-value=5.7  Score=32.91  Aligned_cols=95  Identities=14%  Similarity=-0.053  Sum_probs=62.7

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA   85 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~   85 (267)
                      .+..+|..+++.++|++|+.++-.+-+....           .+....-+.+||+.+++   .++|..-+.++-+.    
T Consensus        23 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~~~---~~~A~~~~~~a~~~----   84 (327)
T 3cv0_A           23 NPMEEGLSMLKLANLAEAALAFEAVCQAAPE-----------REEAWRSLGLTQAENEK---DGLAIIALNHARML----   84 (327)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-----------CHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHH----
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-----------CHHHHHHHHHHHHHcCC---HHHHHHHHHHHHhc----
Confidence            4678999999999999999999887664321           23334457888888765   34555555544332    


Q ss_pred             hCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           86 HGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        86 yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                         ++         ..      ...+..-+.+.+..|+.++|...+.++-.
T Consensus        85 ---~~---------~~------~~~~~~la~~~~~~~~~~~A~~~~~~~~~  117 (327)
T 3cv0_A           85 ---DP---------KD------IAVHAALAVSHTNEHNANAALASLRAWLL  117 (327)
T ss_dssp             ---CT---------TC------HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ---Cc---------CC------HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence               11         11      11223347777889999999998876644

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=87.05  E-value=2.7  Score=40.41  Aligned_cols=85  Identities=13%  Similarity=0.031  Sum_probs=70.6

Q ss_pred             hhhhhhHhHHHHHHhhchHHHHHHHHhhh----hhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHH
Q 024447            3 MGLMLHANAKSLIKRHMYKDALEVLTMGE----EAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKA   78 (267)
Q Consensus         3 ~~~~l~ek~r~~~~~~~y~~al~~ll~ad----~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~a   78 (267)
                      ++-+++.-|.....+|+|++|+.+...|=    +.|..=.|.+..+.-|.|.+..       .   ....++|..-+.+|
T Consensus       350 ~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~-------~---~G~~~eA~~~~~~A  419 (490)
T 3n71_A          350 VLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAGLTNW-------H---AGHIEVGHGMICKA  419 (490)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHH-------H---TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHH-------H---CCCHHHHHHHHHHH
Confidence            45667778889999999999999887664    4566777888888888887643       3   45689999999999


Q ss_pred             HHHHHHHhCCCHHHHHHHH
Q 024447           79 REGIERAHGKDSSRVRLLQ   97 (267)
Q Consensus        79 e~~f~r~yG~~~~rl~~lk   97 (267)
                      -..+++.+|.++--+..++
T Consensus       420 l~i~~~~lG~~Hp~~~~~~  438 (490)
T 3n71_A          420 YAILLVTHGPSHPITKDLE  438 (490)
T ss_dssp             HHHHHHHTCTTSHHHHHHH
T ss_pred             HHHHHHHhCCCChHHHHHH
Confidence            9999999999998887766

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=86.85  E-value=6.4  Score=30.23  Aligned_cols=20  Identities=20%  Similarity=0.147  Sum_probs=11.4

Q ss_pred             HhhhhccCCchhHhhhhHhh
Q 024447          115 GVAAYHSGQFDKARNALTSA  134 (267)
Q Consensus       115 g~v~~h~g~~d~A~~~l~~a  134 (267)
                      |.+.+..|+.++|...+.++
T Consensus        72 g~~~~~~~~~~~A~~~~~~a   91 (150)
T 4ga2_A           72 GLLYELEENTDKAVECYRRS   91 (150)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHcCchHHHHHHHHHH
Confidence            55555556666666555544

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=85.90  E-value=7.6  Score=32.12  Aligned_cols=95  Identities=16%  Similarity=-0.054  Sum_probs=46.8

Q ss_pred             hhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHh
Q 024447            7 LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAH   86 (267)
Q Consensus         7 l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~y   86 (267)
                      +...|....+.++|++|+.++-.+-+...           +.+.....+.+||+..++   .++|...+.++-+..    
T Consensus       175 ~~~la~~~~~~~~~~~A~~~~~~~~~~~~-----------~~~~~~~~l~~~~~~~~~---~~~A~~~~~~a~~~~----  236 (327)
T 3cv0_A          175 HASLGVLYNLSNNYDSAAANLRRAVELRP-----------DDAQLWNKLGATLANGNR---PQEALDAYNRALDIN----  236 (327)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCT-----------TCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhCC-----------CcHHHHHHHHHHHHHcCC---HHHHHHHHHHHHHcC----
Confidence            44456666666666666666665544321           122334456666666443   334443333332210    


Q ss_pred             CCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447           87 GKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus        87 G~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                       .+           ..      ..+..-+.+.+..|+.++|...+..+-..
T Consensus       237 -~~-----------~~------~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  269 (327)
T 3cv0_A          237 -PG-----------YV------RVMYNMAVSYSNMSQYDLAAKQLVRAIYM  269 (327)
T ss_dssp             -TT-----------CH------HHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             -CC-----------CH------HHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence             00           00      11222366666777777777777655443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=85.72  E-value=4.8  Score=28.66  Aligned_cols=63  Identities=16%  Similarity=-0.067  Sum_probs=46.4

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREG   81 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~   81 (267)
                      ..++..|..+++.++|++|+..+-.|=+...           +++....-+.+||..+++   .++|..-+.+|-+.
T Consensus         8 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-----------~~~~a~~~lg~~~~~~g~---~~~A~~~~~~al~l   70 (100)
T 3ma5_A            8 FTRYALAQEHLKHDNASRALALFEELVETDP-----------DYVGTYYHLGKLYERLDR---TDDAIDTYAQGIEV   70 (100)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-----------TCTHHHHHHHHHHHHTTC---HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-----------CcHHHHHHHHHHHHHcCC---HHHHHHHHHHHHhh
Confidence            4567889999999999999999987755432           334455668899998875   56676666666554

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=85.49  E-value=3  Score=31.06  Aligned_cols=102  Identities=12%  Similarity=-0.023  Sum_probs=61.7

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA   85 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~   85 (267)
                      .++..|...++.++|++|+..+-.|=+...           +.+.....+.+||+.+++   .++|...+.++-+.    
T Consensus        49 ~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~-----------~~~~~~~~~a~~~~~~~~---~~~A~~~~~~a~~~----  110 (166)
T 1a17_A           49 YYGNRSLAYLRTECYGYALGDATRAIELDK-----------KYIKGYYRRAASNMALGK---FRAALRDYETVVKV----  110 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-----------TCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHH----
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-----------ccHHHHHHHHHHHHHhcc---HHHHHHHHHHHHHh----
Confidence            456789999999999999999988776532           224455678889988765   45555544444322    


Q ss_pred             hCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccC
Q 024447           86 HGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQL  141 (267)
Q Consensus        86 yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l  141 (267)
                      . .+.           ++..    ..+-.+......|+.++|...++........+
T Consensus       111 ~-p~~-----------~~~~----~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~  150 (166)
T 1a17_A          111 K-PHD-----------KDAK----MKYQECNKIVKQKAFERAIAGDEHKRSVVDSL  150 (166)
T ss_dssp             S-TTC-----------HHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             C-CCC-----------HHHH----HHHHHHHHHHHHHHHHHHHHcccchHHHhccc
Confidence            1 111           1111    11112223345677888888877665554443

>1p3q_Q VPS9P, vacuolar protein sorting-associated protein VPS9; trafficking, post translational modification, mono- ubiquitination; 1.70A {Saccharomyces cerevisiae} SCOP: a.5.2.4 PDB: 1mn3_A

Probab=85.40  E-value=0.37  Score=33.49  Aligned_cols=35  Identities=11%  Similarity=0.259  Sum_probs=28.3

Q ss_pred             HHHHHHHhC--CCCHHHHHHHHHHcCCCHHHHHH-hcc
Q 024447          218 EKIKELVSI--GFEKELVAEALRRNENDSQKALD-DLT  252 (267)
Q Consensus       218 e~v~~L~~M--GF~~~~A~~ALr~t~ndve~Ald-lL~  252 (267)
                      +.+++|.+|  .++++..+..|+.++|+++.|+| +|+
T Consensus        14 ~~~~~L~~MFP~lD~evI~~Vl~a~~G~~~~~IdaLLq   51 (54)
T 1p3q_Q           14 DTLNTLQNMFPDMDPSLIEDVCIAAASRIGPCVDALLS   51 (54)
T ss_dssp             HHHHHHHHHSTTSCHHHHHHHHHHSCC--CGGGC----
T ss_pred             HHHHHHHHHcccCCHHHHHHHHHHcCCCHHHHHHHHHh
Confidence            669999999  89999999999999999999999 554

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=85.06  E-value=12  Score=29.03  Aligned_cols=97  Identities=15%  Similarity=0.092  Sum_probs=54.9

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHh-CCCCCHHHHHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFML-RDISWLSEAGIRLRKAREGIER   84 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l-~~~~~l~dA~~rL~~ae~~f~r   84 (267)
                      .+...|...++.++|++|+.++-.|=+...           +.+.....+++||+.+ ++   .++|..-+.++-+    
T Consensus        44 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-----------~~~~~~~~l~~~~~~~~~~---~~~A~~~~~~~~~----  105 (225)
T 2vq2_A           44 AWLVRAEIYQYLKVNDKAQESFRQALSIKP-----------DSAEINNNYGWFLCGRLNR---PAESMAYFDKALA----  105 (225)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-----------TCHHHHHHHHHHHHTTTCC---HHHHHHHHHHHHT----
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHhCC-----------CChHHHHHHHHHHHHhcCc---HHHHHHHHHHHHc----
Confidence            456678888888999999988877654322           2234456678888776 54   4444444444332    


Q ss_pred             HhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        85 ~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                       .+.++            ..   ...+..-|.+.+..|+.++|...+..+-.
T Consensus       106 -~~~~~------------~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  141 (225)
T 2vq2_A          106 -DPTYP------------TP---YIANLNKGICSAKQGQFGLAEAYLKRSLA  141 (225)
T ss_dssp             -STTCS------------CH---HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             -CcCCc------------ch---HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence             11111            10   11122235556666777777766665433

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=84.74  E-value=4  Score=31.47  Aligned_cols=17  Identities=6%  Similarity=0.179  Sum_probs=8.6

Q ss_pred             hhhhhhhHHHHHHHhCC
Q 024447           48 GPLLQIDMVWCYFMLRD   64 (267)
Q Consensus        48 ~a~l~ldivwcy~~l~~   64 (267)
                      .++..+-+.-||+.+++
T Consensus        30 ~~~~~~~la~~y~~~~~   46 (150)
T 4ga2_A           30 KSIKGFYFAKLYYEAKE   46 (150)
T ss_dssp             HHTTHHHHHHHHHHTTC
T ss_pred             cHHHHHHHHHHHHHcCC
Confidence            34444455555555543

>4fp9_B Mterf domain-containing protein 2; modification enzyme, transferase; HET: SAM; 2.90A {Homo sapiens}

Probab=84.37  E-value=2.4  Score=39.19  Aligned_cols=26  Identities=19%  Similarity=0.410  Sum_probs=22.1

Q ss_pred             hhhHhhHHhCCCCHHHHHHHHHHhCC
Q 024447          145 DESLSLVMSMGFKEQDAKRALRICSQ  170 (267)
Q Consensus       145 ~~~l~~L~~MGF~~~~Ar~ALr~~~g  170 (267)
                      +..|..|.+|||+..+..+++...-+
T Consensus        47 e~~l~~L~d~Gfs~~~i~~il~~~P~   72 (335)
T 4fp9_B           47 ERVMSSLLDMGFSNAHINELLSVRRG   72 (335)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHCSS
T ss_pred             HHHHHHHHHCCCCHHHHHHHHHhCcc
Confidence            35788899999999999999988755

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=83.73  E-value=17  Score=29.85  Aligned_cols=119  Identities=16%  Similarity=0.072  Sum_probs=75.3

Q ss_pred             hhhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhcc---chhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHH
Q 024447            3 MGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVD---NGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAR   79 (267)
Q Consensus         3 ~~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vD---n~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae   79 (267)
                      ++-.+..+|-.+++.++|++|+...-.|=+.=..+.+.  +..|   +.+..-....-|   +..+....+|-.-..+|-
T Consensus        10 ~a~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~--~a~~~~~~~a~a~~n~g~a---l~~Lgr~~eAl~~~~kAL   84 (159)
T 2hr2_A           10 GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPE--EAFDHAGFDAFCHAGLAEA---LAGLRSFDEALHSADKAL   84 (159)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTT--SCCCHHHHHHHHHHHHHHH---HHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcch--hhhhhccchHHHHHHHHHH---HHHCCCHHHHHHHHHHHH
Confidence            45567899999999999999999987776554443321  1111   112223333333   444556788888877777


Q ss_pred             HHHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447           80 EGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus        80 ~~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                      +.|.+.-=.++..-.+.-      .+++-|     |+.....|+.++|...+.++-+.
T Consensus        85 ~l~n~~~e~~pd~~~A~~------~~~~~r-----G~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A           85 HYFNRRGELNQDEGKLWI------SAVYSR-----ALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             HHHHHHCCTTSTHHHHHH------HHHHHH-----HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HhhhccccCCCchHHHHH------HHHHhH-----HHHHHHCCCHHHHHHHHHHHHhc
Confidence            766665544443221110      112555     99999999999999999877544

>1v92_A NSFL1 cofactor P47; 3-helix bundle, recombination; NMR {Rattus norvegicus} SCOP: a.5.2.3

Probab=83.08  E-value=1.5  Score=28.32  Aligned_cols=37  Identities=22%  Similarity=0.273  Sum_probs=29.6

Q ss_pred             hhHhhHHh-CCCCHHHHHHHHHHhCCCHHHHHHHHHhh
Q 024447          146 ESLSLVMS-MGFKEQDAKRALRICSQDVGSAIDFLVEE  182 (267)
Q Consensus       146 ~~l~~L~~-MGF~~~~Ar~ALr~~~gdve~A~~wL~~~  182 (267)
                      +.|.+.++ -|-++..|+.-|..+++|++.|++-.++.
T Consensus         7 ~~i~~F~~iTg~~~~~A~~~L~~~~wdle~Ai~~ff~~   44 (46)
T 1v92_A            7 DALREFVAVTGAEEDRARFFLESAGWDLQIALASFYED   44 (46)
T ss_dssp             HHHHHHHHHTCCCHHHHHHHHHHTTSCSHHHHHHHHHT
T ss_pred             HHHHHHHHHhCcCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence            34555444 37899999999999999999999977664

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=82.41  E-value=15  Score=32.57  Aligned_cols=38  Identities=13%  Similarity=-0.046  Sum_probs=26.6

Q ss_pred             hhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHh
Q 024447           49 PLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAH   86 (267)
Q Consensus        49 a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~y   86 (267)
                      +-..+...+|++........+.|..-+.++-+.+....
T Consensus       186 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~  223 (514)
T 2gw1_A          186 ADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQL  223 (514)
T ss_dssp             HHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhh
Confidence            44446667777776677888888888888877654433

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=82.27  E-value=7.8  Score=26.66  Aligned_cols=60  Identities=22%  Similarity=0.078  Sum_probs=41.4

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhh-hhhhHHHHHHHhCCCCCHHHHHHHHHHH
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPL-LQIDMVWCYFMLRDISWLSEAGIRLRKA   78 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~-l~ldivwcy~~l~~~~~l~dA~~rL~~a   78 (267)
                      |...++|..+++.++|++|+..+-.|=+....           .+. ....+..||+.+++   .++|..-+.++
T Consensus         1 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-----------~~~~~~~~lg~~~~~~~~---~~~A~~~~~~a   61 (99)
T 2kc7_A            1 MDQLKTIKELINQGDIENALQALEEFLQTEPV-----------GKDEAYYLMGNAYRKLGD---WQKALNNYQSA   61 (99)
T ss_dssp             CCTHHHHHHHHHHTCHHHHHHHHHHHHHHCSS-----------THHHHHHHHHHHHHHHTC---HHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-----------cHHHHHHHHHHHHHHcCC---HHHHHHHHHHH
Confidence            34678999999999999999999877654322           233 55667888888765   34444444333

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=81.74  E-value=2.5  Score=36.10  Aligned_cols=82  Identities=11%  Similarity=-0.096  Sum_probs=54.6

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA   85 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~   85 (267)
                      .+...|...++.++|++|+.++-.|=+.........-+.-...+..-.-+.+||..+++.   ++|..-..++-+.|.+.
T Consensus       287 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~---~~A~~~~~~~l~~~~~~  363 (368)
T 1fch_A          287 SRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQS---DAYGAADARDLSTLLTM  363 (368)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCG---GGHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCCh---HhHHHhHHHHHHHHHHh
Confidence            456678888888888888888877766554432221111222355566778899988765   56777777888999999


Q ss_pred             hCCCH
Q 024447           86 HGKDS   90 (267)
Q Consensus        86 yG~~~   90 (267)
                      +|.++
T Consensus       364 ~~~~~  368 (368)
T 1fch_A          364 FGLPQ  368 (368)
T ss_dssp             TTCCC
T ss_pred             cCCCC
Confidence            98763

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=80.94  E-value=7.7  Score=26.58  Aligned_cols=48  Identities=10%  Similarity=-0.061  Sum_probs=36.1

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCC
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRD   64 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~   64 (267)
                      .+...|...++.++|++|+..+-.+-+...           +.+-....+.+||..+++
T Consensus        40 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-----------~~~~~~~~~a~~~~~~~~   87 (118)
T 1elw_A           40 LYSNRSAAYAKKGDYQKAYEDGCKTVDLKP-----------DWGKGYSRKAAALEFLNR   87 (118)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-----------TCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHhCc-----------ccHHHHHHHHHHHHHHhh
Confidence            456789999999999999999988766532           123445678888988765

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=80.81  E-value=7.4  Score=27.80  Aligned_cols=65  Identities=11%  Similarity=-0.045  Sum_probs=46.2

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKARE   80 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~   80 (267)
                      -.++..|...++.++|++|+..+-.+=+.+....        ..+-...-+.+||+.+++   .++|...+.++-+
T Consensus        40 ~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~--------~~~~~~~~la~~~~~~g~---~~~A~~~~~~~~~  104 (129)
T 2xev_A           40 NALYWLGESYYATRNFQLAEAQFRDLVSRYPTHD--------KAAGGLLKLGLSQYGEGK---NTEAQQTLQQVAT  104 (129)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTST--------THHHHHHHHHHHHHHTTC---HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCc--------ccHHHHHHHHHHHHHcCC---HHHHHHHHHHHHH
Confidence            3567789999999999999999988766553221        124456778999998765   5666666655544

>1ixs_A Holliday junction DNA helicase RUVA; heterodimeric protein complex, AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ANP; 3.20A {Thermus thermophilus} SCOP: a.5.1.1

Probab=80.59  E-value=1.6  Score=30.69  Aligned_cols=24  Identities=17%  Similarity=0.286  Sum_probs=21.6

Q ss_pred             HHHHHHHHhCCCCHHHHHHHHHHc
Q 024447          217 IEKIKELVSIGFEKELVAEALRRN  240 (267)
Q Consensus       217 ~e~v~~L~~MGF~~~~A~~ALr~t  240 (267)
                      .+.+..|+.+||++..|.+|++..
T Consensus        18 ~ea~~AL~aLGY~~~ea~kav~~v   41 (62)
T 1ixs_A           18 EEAVMALAALGFKEAQARAVVLDL   41 (62)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHH
Confidence            478999999999999999999864

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=80.37  E-value=7.6  Score=31.40  Aligned_cols=61  Identities=10%  Similarity=-0.084  Sum_probs=44.3

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKARE   80 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~   80 (267)
                      .+...|...++.++|++|+.++-.|=+...           +.+.....+.+||+.+++   .++|..-+.++-+
T Consensus        79 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~-----------~~~~~~~~la~~~~~~g~---~~~A~~~~~~a~~  139 (275)
T 1xnf_A           79 VFNYLGIYLTQAGNFDAAYEAFDSVLELDP-----------TYNYAHLNRGIALYYGGR---DKLAQDDLLAFYQ  139 (275)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-----------TCTHHHHHHHHHHHHTTC---HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhcCc-----------cccHHHHHHHHHHHHhcc---HHHHHHHHHHHHH
Confidence            456778899999999999999988866533           234556778899998765   4566666665543

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=80.19  E-value=5  Score=40.36  Aligned_cols=97  Identities=15%  Similarity=0.001  Sum_probs=63.2

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER   84 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r   84 (267)
                      -.++..|..+.+.|+|++|+..+-.|=+.    +|       +++-....+..||..+++   .       ..|.+.|++
T Consensus        44 ~a~~nLg~~l~~~g~~~eA~~~~~~Al~l----~P-------~~~~a~~nLg~~l~~~g~---~-------~~A~~~~~k  102 (723)
T 4gyw_A           44 AAHSNLASVLQQQGKLQEALMHYKEAIRI----SP-------TFADAYSNMGNTLKEMQD---V-------QGALQCYTR  102 (723)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CT-------TCHHHHHHHHHHHHHTTC---H-------HHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh----CC-------CCHHHHHHHHHHHHHcCC---H-------HHHHHHHHH
Confidence            35667899999999999999998776432    22       344455566778887764   3       445555554


Q ss_pred             HhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447           85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus        85 ~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                      +--.++.         .. .+.     .--|.+.+..|+.++|...+.++-+.
T Consensus       103 Al~l~P~---------~~-~a~-----~~Lg~~~~~~g~~~eAi~~~~~Al~l  140 (723)
T 4gyw_A          103 AIQINPA---------FA-DAH-----SNLASIHKDSGNIPEAIASYRTALKL  140 (723)
T ss_dssp             HHHHCTT---------CH-HHH-----HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhCCC---------CH-HHH-----HHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4322221         11 122     23388888999999999998876543

---

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	267
d1wjia_	63	a.5.2.1 (A:) Tudor domain containing protein 3, TD	5e-06
d1wjia_	63	a.5.2.1 (A:) Tudor domain containing protein 3, TD	1e-05
d1wiva_	73	a.5.2.1 (A:) Ubiquitin isopeptidase T {Thale cress	1e-05
d1wiva_	73	a.5.2.1 (A:) Ubiquitin isopeptidase T {Thale cress	5e-05
d1wgna_	63	a.5.2.1 (A:) Ubiquitin-associated protein 1, UBAP1	3e-05
d1wgna_	63	a.5.2.1 (A:) Ubiquitin-associated protein 1, UBAP1	5e-04
d1oqya1	41	a.5.2.1 (A:160-200) DNA repair protein Hhr23a {Hum	8e-05
d1oqya1	41	a.5.2.1 (A:160-200) DNA repair protein Hhr23a {Hum	0.001
d1vg5a_	73	a.5.2.1 (A:) Rhomboid family protein At3g58460 {Th	1e-04
d2g3qa1	43	a.5.2.1 (A:1339-1381) Endocytic protein Ede1, YBL0	0.002
d1whca_	64	a.5.2.1 (A:) UBA/UBX 33.3 kDa protein {Mouse (Mus	0.002
d2cpwa1	51	a.5.2.1 (A:8-58) Cbl-interacting protein p70, STS1	0.002
d1veka_	84	a.5.2.1 (A:) Ubiquitin isopeptidase T {Thale cress	0.003

>d1wjia_ a.5.2.1 (A:) Tudor domain containing protein 3, TDRD3 {Human (Homo sapiens) [TaxId: 9606]} Length = 63

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Tudor domain containing protein 3, TDRD3
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.9 bits (96), Expect = 5e-06
 Identities = 9/40 (22%), Positives = 24/40 (60%)

Query: 142 QVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE 181
            V +++L  +  MGF ++ +++AL     ++ +A++ L+ 
Sbjct: 7   GVDEKALKHITEMGFSKEASRQALMDNGNNLEAALNVLLT 46

>d1wjia_ a.5.2.1 (A:) Tudor domain containing protein 3, TDRD3 {Human (Homo sapiens) [TaxId: 9606]} Length = 63

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Tudor domain containing protein 3, TDRD3
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.8 bits (93), Expect = 1e-05
 Identities = 14/40 (35%), Positives = 22/40 (55%)

Query: 214 AVDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDLTN 253
            VD + +K +  +GF KE   +AL  N N+ + AL+ L  
Sbjct: 7   GVDEKALKHITEMGFSKEASRQALMDNGNNLEAALNVLLT 46

>d1wiva_ a.5.2.1 (A:) Ubiquitin isopeptidase T {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 73

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin isopeptidase T
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 40.2 bits (94), Expect = 1e-05
 Identities = 11/40 (27%), Positives = 21/40 (52%)

Query: 142 QVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE 181
            +   S+  ++S GF E  A++AL+    D+  A D++  
Sbjct: 27  DIDQSSVDTLLSFGFAEDVARKALKASGGDIEKATDWVFN 66

>d1wiva_ a.5.2.1 (A:) Ubiquitin isopeptidase T {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 73

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin isopeptidase T
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 38.3 bits (89), Expect = 5e-05
 Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 208 LTPLKKAVDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDL-TNPESNSA 259
           ++     +D   +  L+S GF +++  +AL+ +  D +KA D +  N   +S 
Sbjct: 21  ISHQTSDIDQSSVDTLLSFGFAEDVARKALKASGGDIEKATDWVFNNSGPSSG 73

>d1wgna_ a.5.2.1 (A:) Ubiquitin-associated protein 1, UBAP1 {Human (Homo sapiens) [TaxId: 9606]} Length = 63

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin-associated protein 1, UBAP1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.0 bits (91), Expect = 3e-05
 Identities = 7/37 (18%), Positives = 20/37 (54%)

Query: 145 DESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE 181
            + +  V++MG+  +   RA++   +++   +D+L  
Sbjct: 20  RQCVETVVNMGYSYECVLRAMKKKGENIEQILDYLFA 56

>d1wgna_ a.5.2.1 (A:) Ubiquitin-associated protein 1, UBAP1 {Human (Homo sapiens) [TaxId: 9606]} Length = 63

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin-associated protein 1, UBAP1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.1 bits (81), Expect = 5e-04
 Identities = 8/38 (21%), Positives = 22/38 (57%)

Query: 214 AVDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDL 251
             + + ++ +V++G+  E V  A+++   + ++ LD L
Sbjct: 17  PSERQCVETVVNMGYSYECVLRAMKKKGENIEQILDYL 54

>d1oqya1 a.5.2.1 (A:160-200) DNA repair protein Hhr23a {Human (Homo sapiens) [TaxId: 9606]} Length = 41

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: DNA repair protein Hhr23a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.9 bits (86), Expect = 8e-05
 Identities = 10/35 (28%), Positives = 20/35 (57%)

Query: 145 DESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFL 179
           +  L+ +MSMG++ +    ALR    +   A+++L
Sbjct: 5   ETMLTEIMSMGYERERVVAALRASYNNPHRAVEYL 39

>d1oqya1 a.5.2.1 (A:160-200) DNA repair protein Hhr23a {Human (Homo sapiens) [TaxId: 9606]} Length = 41

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: DNA repair protein Hhr23a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.8 bits (78), Expect = 0.001
 Identities = 12/34 (35%), Positives = 23/34 (67%)

Query: 218 EKIKELVSIGFEKELVAEALRRNENDSQKALDDL 251
             + E++S+G+E+E V  ALR + N+  +A++ L
Sbjct: 6   TMLTEIMSMGYERERVVAALRASYNNPHRAVEYL 39

>d1vg5a_ a.5.2.1 (A:) Rhomboid family protein At3g58460 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 73

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Rhomboid family protein At3g58460
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 37.6 bits (87), Expect = 1e-04
 Identities = 9/40 (22%), Positives = 20/40 (50%)

Query: 143 VPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEE 182
             +E +  +++MGF     + AL     D+  A++ L+ +
Sbjct: 28  ASEEQIQKLVAMGFDRTQVEVALAAADDDLTVAVEILMSQ 67

>d2g3qa1 a.5.2.1 (A:1339-1381) Endocytic protein Ede1, YBL047C {Saccharomyces cerevisiae [TaxId: 4932]} Length = 43

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Endocytic protein Ede1, YBL047C
species: Saccharomyces cerevisiae [TaxId: 4932]

 Score = 33.3 bits (76), Expect = 0.002
 Identities = 12/37 (32%), Positives = 23/37 (62%)

Query: 145 DESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE 181
             ++  +  MGF E++A  AL  C+ D+ +A +FL++
Sbjct: 5   SLAVEELSGMGFTEEEAHNALEKCNWDLEAATNFLLD 41

>d1whca_ a.5.2.1 (A:) UBA/UBX 33.3 kDa protein {Mouse (Mus musculus) [TaxId: 10090]} Length = 64

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: UBA/UBX 33.3 kDa protein
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 34.0 bits (78), Expect = 0.002
 Identities = 12/40 (30%), Positives = 23/40 (57%), Gaps = 1/40 (2%)

Query: 143 VPDESLSLVMSMGFKEQDAKRALRICS-QDVGSAIDFLVE 181
               +L  ++ MGF    A++AL +   Q + +A+D+L+E
Sbjct: 8   AELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLME 47

>d2cpwa1 a.5.2.1 (A:8-58) Cbl-interacting protein p70, STS1 {Human (Homo sapiens) [TaxId: 9606]} Length = 51

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Cbl-interacting protein p70, STS1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.2 bits (76), Expect = 0.002
 Identities = 13/41 (31%), Positives = 22/41 (53%), Gaps = 2/41 (4%)

Query: 143 VPDES-LSLVMSMGFKEQDAKRALRICS-QDVGSAIDFLVE 181
           +   S L +++SMGF    A++AL     + V +A D+L  
Sbjct: 10  IKHGSALDVLLSMGFPRARAQKALASTGGRSVQTACDWLFS 50

>d1veka_ a.5.2.1 (A:) Ubiquitin isopeptidase T {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 84

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin isopeptidase T
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 34.1 bits (78), Expect = 0.003
 Identities = 10/50 (20%), Positives = 24/50 (48%), Gaps = 1/50 (2%)

Query: 133 SAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRI-CSQDVGSAIDFLVE 181
               +  Q    +E ++ ++SMGF +   ++A     +  V  A+++L+ 
Sbjct: 18  EEVMESAQPVANEEIVAQLVSMGFSQLHCQKAAINTSNAGVEEAMNWLLS 67

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	267
d1wiva_	73	Ubiquitin isopeptidase T {Thale cress (Arabidopsis	99.51
d2crna1	51	Suppressor of T-cell receptor signaling 2 (STS-2)	99.47
d1whca_	64	UBA/UBX 33.3 kDa protein {Mouse (Mus musculus) [Ta	99.45
d2cpwa1	51	Cbl-interacting protein p70, STS1 {Human (Homo sap	99.44
d1wjia_	63	Tudor domain containing protein 3, TDRD3 {Human (H	99.41
d1wiva_	73	Ubiquitin isopeptidase T {Thale cress (Arabidopsis	99.41
d1veka_	84	Ubiquitin isopeptidase T {Thale cress (Arabidopsis	99.34
d1wgna_	63	Ubiquitin-associated protein 1, UBAP1 {Human (Homo	99.29
d1oqya1	41	DNA repair protein Hhr23a {Human (Homo sapiens) [T	99.26
d1vg5a_	73	Rhomboid family protein At3g58460 {Thale cress (Ar	99.24
d1wjia_	63	Tudor domain containing protein 3, TDRD3 {Human (H	99.21
d1oqya1	41	DNA repair protein Hhr23a {Human (Homo sapiens) [T	99.12
d1whca_	64	UBA/UBX 33.3 kDa protein {Mouse (Mus musculus) [Ta	99.09
d2cpwa1	51	Cbl-interacting protein p70, STS1 {Human (Homo sap	99.07
d1vg5a_	73	Rhomboid family protein At3g58460 {Thale cress (Ar	99.06
d2crna1	51	Suppressor of T-cell receptor signaling 2 (STS-2)	99.04
d1wgna_	63	Ubiquitin-associated protein 1, UBAP1 {Human (Homo	99.01
d1vega_	83	NEDD8 ultimate buster-1 (Nub1) {Mouse (Mus musculu	98.98
d1veka_	84	Ubiquitin isopeptidase T {Thale cress (Arabidopsis	98.89
d2g3qa1	43	Endocytic protein Ede1, YBL047C {Saccharomyces cer	98.88
d2g3qa1	43	Endocytic protein Ede1, YBL047C {Saccharomyces cer	98.64
d2bwba1	44	DSK2 {Baker's yeast (Saccharomyces cerevisiae) [Ta	98.2
d2bwba1	44	DSK2 {Baker's yeast (Saccharomyces cerevisiae) [Ta	98.17
d2dnaa1	50	Ubiquilin-like protein Ubqlnl {Mouse (Mus musculus	98.15
d1veja1	61	4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]	98.13
d2dnaa1	50	Ubiquilin-like protein Ubqlnl {Mouse (Mus musculus	98.1
d1z96a1	38	UBA-domain protein mud1 {Schizosaccharomyces pombe	98.05
d1veja1	61	4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]	98.05
d2daha1	41	Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	98.02
d1vega_	83	NEDD8 ultimate buster-1 (Nub1) {Mouse (Mus musculu	97.94
d2daha1	41	Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	97.87
d1z96a1	38	UBA-domain protein mud1 {Schizosaccharomyces pombe	97.79
d1oqya2	44	DNA repair protein Hhr23a {Human (Homo sapiens) [T	97.59
d2cosa1	41	Serine/threonine protein kinase LATS2 {Mouse (Mus	97.3
d2cosa1	41	Serine/threonine protein kinase LATS2 {Mouse (Mus	97.28
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.22
d1efub3	54	Elongation factor Ts (EF-Ts), N-terminal domain {E	97.07
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	96.93
d1aipc1	52	Elongation factor Ts (EF-Ts), N-terminal domain {T	96.9
d1xb2b1	56	Elongation factor Ts (EF-Ts), N-terminal domain {C	96.84
d1wj7a1	91	Ubiquitin-associated protein 2-like Ubap2l {Mouse	96.8
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	96.69
d1efub3	54	Elongation factor Ts (EF-Ts), N-terminal domain {E	96.53
d1aipc1	52	Elongation factor Ts (EF-Ts), N-terminal domain {T	96.31
d3e46a1	42	Ubiquitin-conjugating enzyme E2-25 kDa, C-terminal	96.26
d1xb2b1	56	Elongation factor Ts (EF-Ts), N-terminal domain {C	96.24
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.0
d3e46a1	42	Ubiquitin-conjugating enzyme E2-25 kDa, C-terminal	95.79
d2dkla1	72	Trinucleotide repeat containing 6c protein, TNRC6C	95.77
d1oqya2	44	DNA repair protein Hhr23a {Human (Homo sapiens) [T	95.76
d2k0bx1	52	Sequestosome 1 (Sqstm1) {Human (Homo sapiens) [Tax	95.33
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	95.26
d1ttea1	55	Ubiquitin-protein ligase ubc1 {Baker's yeast (Sacc	95.17
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	94.77
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	94.59
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	94.59
d1wgla_	59	Toll-interacting protein {Human (Homo sapiens) [Ta	94.51
d1wj7a1	91	Ubiquitin-associated protein 2-like Ubap2l {Mouse	94.44
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	94.43
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	93.31
d2dkla1	72	Trinucleotide repeat containing 6c protein, TNRC6C	92.91
d2k0bx1	52	Sequestosome 1 (Sqstm1) {Human (Homo sapiens) [Tax	92.65
d2cp8a1	41	Migration-inducing protein 19 NBR1 {Human (Homo sa	92.15
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	92.07
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	92.04
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	91.7
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	91.6
d1wgla_	59	Toll-interacting protein {Human (Homo sapiens) [Ta	91.51
d1mn3a_	54	Vacuolar protein sorting-associated protein vps9 {	91.25
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	91.22
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	89.62
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	88.7
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	88.25
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	88.08
d1ttea1	55	Ubiquitin-protein ligase ubc1 {Baker's yeast (Sacc	87.77
d1v92a_	46	NSFL1 (p97 ATPase) cofactor p47, UBA-like domain {	87.06
d1mn3a_	54	Vacuolar protein sorting-associated protein vps9 {	86.41
d1v92a_	46	NSFL1 (p97 ATPase) cofactor p47, UBA-like domain {	86.3
d2cp8a1	41	Migration-inducing protein 19 NBR1 {Human (Homo sa	84.56
d1cuka1	48	DNA helicase RuvA subunit, C-terminal domain {Esch	83.91
d1cuka1	48	DNA helicase RuvA subunit, C-terminal domain {Esch	82.53

>d1wiva_ a.5.2.1 (A:) Ubiquitin isopeptidase T {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin isopeptidase T
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.51  E-value=8e-16  Score=113.05  Aligned_cols=67  Identities=21%  Similarity=0.316  Sum_probs=54.8

Q ss_pred             HHHHHHHhhhhhhhhhhhhhHHHHHHHHHHhhcCCCCCCCcCCHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHH-hcc
Q 024447          174 SAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRNENDSQKALD-DLT  252 (267)
Q Consensus       174 ~A~~wL~~~~~d~~~~~~~~~e~~~~~~~~~~~~~~~~~~~vd~e~v~~L~~MGF~~~~A~~ALr~t~ndve~Ald-lL~  252 (267)
                      .|++|||+|++|++...+                .+.....|+++.|.+|++|||++++|++||+.|+||+++|++ +|+
T Consensus         3 ~~~~~l~~h~dDpdid~P----------------~~~~~~~~d~~~i~~L~~MGF~~~~a~~AL~~~~~n~e~Av~~Lls   66 (73)
T d1wiva_           3 SGSSGLLSHMDDPDIDAP----------------ISHQTSDIDQSSVDTLLSFGFAEDVARKALKASGGDIEKATDWVFN   66 (73)
T ss_dssp             CCCCCCSSCCSCSCSSCC----------------SCCSSCSSCHHHHHHHHHHTCCHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             hHHHHHHhcCCCCCCCCC----------------ccccCCCCCHHHHHHHHhcCCCHHHHHHHHHHcCCCHHHHHHHHHc
Confidence            367899999999875421                122234589999999999999999999999999999999999 566


Q ss_pred             CCCc
Q 024447          253 NPES  256 (267)
Q Consensus       253 ~pd~  256 (267)
                      ||..
T Consensus        67 ~~~~   70 (73)
T d1wiva_          67 NSGP   70 (73)
T ss_dssp             SCCS
T ss_pred             CCCC
Confidence            7754

>d2crna1 a.5.2.1 (A:8-58) Suppressor of T-cell receptor signaling 2 (STS-2) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Suppressor of T-cell receptor signaling 2 (STS-2)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.47  E-value=9e-15  Score=100.37  Aligned_cols=45  Identities=20%  Similarity=0.282  Sum_probs=41.6

Q ss_pred             ChhhHhhHHhCCCCHHHHHHHHHHhCC-CHHHHHHHHHhhhhhhhh
Q 024447          144 PDESLSLVMSMGFKEQDAKRALRICSQ-DVGSAIDFLVEEKAKRVK  188 (267)
Q Consensus       144 d~~~l~~L~~MGF~~~~Ar~ALr~~~g-dve~A~~wL~~~~~d~~~  188 (267)
                      +|+.|++|++|||++..|++||+.|+| +++.|++||++|++|++.
T Consensus         2 ~p~~v~~L~~MGF~~~~a~~Al~~t~n~~ve~A~~Wl~~h~~d~d~   47 (51)
T d2crna1           2 SPSLLEPLLAMGFPVHTALKALAATGRKTAEEALAWLHDHCNDPSL   47 (51)
T ss_dssp             SCSSHHHHHHTSCCHHHHHHHHHHHTSCCHHHHHHHHHHHSSSTTS
T ss_pred             CHHHHHHHHHcCCCHHHHHHHHHHHCCCCHHHHHHHHHHcCCCcCc
Confidence            578899999999999999999999966 899999999999999764

>d1whca_ a.5.2.1 (A:) UBA/UBX 33.3 kDa protein {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: UBA/UBX 33.3 kDa protein
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.45  E-value=2.1e-14  Score=102.79  Aligned_cols=48  Identities=23%  Similarity=0.411  Sum_probs=44.2

Q ss_pred             CCChhhHhhHHhCCCCHHHHHHHHHHhCC-CHHHHHHHHHhhhhhhhhh
Q 024447          142 QVPDESLSLVMSMGFKEQDAKRALRICSQ-DVGSAIDFLVEEKAKRVKE  189 (267)
Q Consensus       142 ~vd~~~l~~L~~MGF~~~~Ar~ALr~~~g-dve~A~~wL~~~~~d~~~~  189 (267)
                      .+|++.|++|++|||++.+|++||++|+| ++++|++||++|+++++..
T Consensus         7 ~~d~~~l~~L~~MGF~~~~a~~AL~~t~n~~~e~A~~Wl~~h~~d~d~~   55 (64)
T d1whca_           7 GAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVD   55 (64)
T ss_dssp             CCCCCHHHHHHTTTCCHHHHHHHHHHHTSCCHHHHHHHHHHHTTCSCTT
T ss_pred             ccCHHHHHHHHHcCCCHHHHHHHHHHhCCCCHHHHHHHHHHCCCCCCCC
Confidence            47999999999999999999999999987 8999999999999987643

>d2cpwa1 a.5.2.1 (A:8-58) Cbl-interacting protein p70, STS1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Cbl-interacting protein p70, STS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.44  E-value=2.8e-14  Score=97.85  Aligned_cols=45  Identities=27%  Similarity=0.341  Sum_probs=41.6

Q ss_pred             hccCCCChhhHhhHHhCCCCHHHHHHHHHHhCC-CHHHHHHHHHhh
Q 024447          138 FFQLQVPDESLSLVMSMGFKEQDAKRALRICSQ-DVGSAIDFLVEE  182 (267)
Q Consensus       138 ~~~l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~g-dve~A~~wL~~~  182 (267)
                      .+...++++.|++|++|||++..|++||++|+| |+|.|++||++|
T Consensus         6 ~p~~~~~~~~l~~L~~MGF~~~~a~~AL~~t~n~~ve~A~~WLl~H   51 (51)
T d2cpwa1           6 RPGTIKHGSALDVLLSMGFPRARAQKALASTGGRSVQTACDWLFSH   51 (51)
T ss_dssp             SSCSSSCCCHHHHHHHHTCCHHHHHHHHHHTTTSCHHHHHHHHHSC
T ss_pred             CCCCCCCHHHHHHHHHcCCCHHHHHHHHHHHCCCCHHHHHHHHHcC
Confidence            355678999999999999999999999999988 899999999987

>d1wjia_ a.5.2.1 (A:) Tudor domain containing protein 3, TDRD3 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Tudor domain containing protein 3, TDRD3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.41  E-value=6.9e-14  Score=99.77  Aligned_cols=48  Identities=19%  Similarity=0.379  Sum_probs=44.6

Q ss_pred             CCCChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhhhhhhh
Q 024447          141 LQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAKRVK  188 (267)
Q Consensus       141 l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~~d~~~  188 (267)
                      -.+|++.|++|++|||++..|++||+.|+||+++|++||++|+++.+.
T Consensus         6 ~~~d~~~v~~L~~MGF~~~~a~~AL~~~~~~~e~A~~wL~~~~~~~~~   53 (63)
T d1wjia_           6 SGVDEKALKHITEMGFSKEASRQALMDNGNNLEAALNVLLTSNKQKPV   53 (63)
T ss_dssp             CSSCHHHHHHHHTTTCCHHHHHHHHHHTTSCHHHHHHHHHHHSSCCCC
T ss_pred             CccCHHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHHHCCCCCCc
Confidence            457999999999999999999999999999999999999999988653

>d1wiva_ a.5.2.1 (A:) Ubiquitin isopeptidase T {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin isopeptidase T
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.41  E-value=3.5e-14  Score=104.14  Aligned_cols=65  Identities=20%  Similarity=0.284  Sum_probs=53.6

Q ss_pred             HhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhhhh
Q 024447          115 GVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAK  185 (267)
Q Consensus       115 g~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~~d  185 (267)
                      .|++-|+.+++...+.-      .....++++.|.+|++|||++.+|++||+.|+||+++|++||++|+..
T Consensus         6 ~~l~~h~dDpdid~P~~------~~~~~~d~~~i~~L~~MGF~~~~a~~AL~~~~~n~e~Av~~Lls~~~~   70 (73)
T d1wiva_           6 SGLLSHMDDPDIDAPIS------HQTSDIDQSSVDTLLSFGFAEDVARKALKASGGDIEKATDWVFNNSGP   70 (73)
T ss_dssp             CCCSSCCSCSCSSCCSC------CSSCSSCHHHHHHHHHHTCCHHHHHHHHHHTTSCHHHHHHHHHHSCCS
T ss_pred             HHHHhcCCCCCCCCCcc------ccCCCCCHHHHHHHHhcCCCHHHHHHHHHHcCCCHHHHHHHHHcCCCC
Confidence            35677988887654431      223457999999999999999999999999999999999999999753

>d1veka_ a.5.2.1 (A:) Ubiquitin isopeptidase T {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin isopeptidase T
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.34  E-value=3.6e-13  Score=101.13  Aligned_cols=51  Identities=22%  Similarity=0.292  Sum_probs=46.0

Q ss_pred             ccCCCChhhHhhHHhCCCCHHHHHHHHHHhCC-CHHHHHHHHHhhhhhhhhh
Q 024447          139 FQLQVPDESLSLVMSMGFKEQDAKRALRICSQ-DVGSAIDFLVEEKAKRVKE  189 (267)
Q Consensus       139 ~~l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~g-dve~A~~wL~~~~~d~~~~  189 (267)
                      ....+|++.|.+|++|||++..|++||+.|+| |++.|++||++|++|++..
T Consensus        24 ~~p~~d~~~v~~L~~MGF~~~~a~~AL~~t~n~~~e~A~~Wl~~h~~d~d~d   75 (84)
T d1veka_          24 AQPVANEEIVAQLVSMGFSQLHCQKAAINTSNAGVEEAMNWLLSHMDDPDID   75 (84)
T ss_dssp             CCCCCCHHHHHHHHHHTCCHHHHHHHHHHTTTCCHHHHHHHHHHHTTCSTTT
T ss_pred             CCCCCCHHHHHHHHHcCCCHHHHHHHHHHHcCCCHHHHHHHHHHcCCCCCcc
Confidence            34567999999999999999999999999975 9999999999999998643

>d1wgna_ a.5.2.1 (A:) Ubiquitin-associated protein 1, UBAP1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin-associated protein 1, UBAP1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.29  E-value=6.7e-13  Score=94.63  Aligned_cols=41  Identities=17%  Similarity=0.387  Sum_probs=38.9

Q ss_pred             CChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447          143 VPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEK  183 (267)
Q Consensus       143 vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~  183 (267)
                      .|++.|.+|++|||++.+|++||+.|+||+++|++||++|.
T Consensus        18 ~de~~v~~L~~MGF~~~~a~~AL~~~~~n~e~A~~~Lls~~   58 (63)
T d1wgna_          18 SERQCVETVVNMGYSYECVLRAMKKKGENIEQILDYLFAHS   58 (63)
T ss_dssp             HHHHHHHHHHHHHCCHHHHHHHHHHHCSCHHHHHHHHHHHS
T ss_pred             hhHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHHhCC
Confidence            36789999999999999999999999999999999999985

>d1oqya1 a.5.2.1 (A:160-200) DNA repair protein Hhr23a {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: DNA repair protein Hhr23a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.26  E-value=5.4e-13  Score=87.43  Aligned_cols=38  Identities=26%  Similarity=0.476  Sum_probs=35.5

Q ss_pred             ChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHh
Q 024447          144 PDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE  181 (267)
Q Consensus       144 d~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~  181 (267)
                      .+++|++|++|||++.+|++||++|+||+++|++||++
T Consensus         4 ~e~~i~~L~~MGF~~~~a~~AL~~~~~N~e~A~~~LlS   41 (41)
T d1oqya1           4 YETMLTEIMSMGYERERVVAALRASYNNPHRAVEYLLT   41 (41)
T ss_dssp             HHHHHHHHHTTTCCSHHHHHHHHHSCSSTTHHHHTTTT
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHhC
Confidence            35789999999999999999999999999999999974

>d1vg5a_ a.5.2.1 (A:) Rhomboid family protein At3g58460 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Rhomboid family protein At3g58460
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.24  E-value=3.8e-12  Score=93.11  Aligned_cols=44  Identities=20%  Similarity=0.475  Sum_probs=41.1

Q ss_pred             cCCCChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447          140 QLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEK  183 (267)
Q Consensus       140 ~l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~  183 (267)
                      ...++++.|.+|++|||++.+|++||++|+||+|+|++||++|.
T Consensus        25 ~~~~~ee~i~~L~~MGF~~~~a~~AL~~~~~n~e~A~~~Ll~~~   68 (73)
T d1vg5a_          25 RVAASEEQIQKLVAMGFDRTQVEVALAAADDDLTVAVEILMSQS   68 (73)
T ss_dssp             CSCCCHHHHHHHHTTTCCHHHHHHHHHHHTSCHHHHHHHHHTCS
T ss_pred             CcCcCHHHHHHHHHhCCCHHHHHHHHHHhCCCHHHHHHHHHhCC
Confidence            34578999999999999999999999999999999999999985

>d1wjia_ a.5.2.1 (A:) Tudor domain containing protein 3, TDRD3 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Tudor domain containing protein 3, TDRD3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.21  E-value=5.9e-12  Score=89.53  Aligned_cols=46  Identities=33%  Similarity=0.474  Sum_probs=41.0

Q ss_pred             CCcCCHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHh-ccCCCcc
Q 024447          212 KKAVDIEKIKELVSIGFEKELVAEALRRNENDSQKALDD-LTNPESN  257 (267)
Q Consensus       212 ~~~vd~e~v~~L~~MGF~~~~A~~ALr~t~ndve~Aldl-L~~pd~~  257 (267)
                      ..+||++.|++|++|||++.+|++||+.|+||+++|++| |.|+++.
T Consensus         5 ~~~~d~~~v~~L~~MGF~~~~a~~AL~~~~~~~e~A~~wL~~~~~~~   51 (63)
T d1wjia_           5 SSGVDEKALKHITEMGFSKEASRQALMDNGNNLEAALNVLLTSNKQK   51 (63)
T ss_dssp             CCSSCHHHHHHHHTTTCCHHHHHHHHHHTTSCHHHHHHHHHHHSSCC
T ss_pred             CCccCHHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHHHCCCCC
Confidence            456899999999999999999999999999999999995 5576654

>d1oqya1 a.5.2.1 (A:160-200) DNA repair protein Hhr23a {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: DNA repair protein Hhr23a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.12  E-value=1.5e-11  Score=80.46  Aligned_cols=36  Identities=33%  Similarity=0.557  Sum_probs=33.4

Q ss_pred             HHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhcc
Q 024447          217 IEKIKELVSIGFEKELVAEALRRNENDSQKALDDLT  252 (267)
Q Consensus       217 ~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL~  252 (267)
                      .+.|++|++|||++++|++||+.++||+++|+++|.
T Consensus         5 e~~i~~L~~MGF~~~~a~~AL~~~~~N~e~A~~~Ll   40 (41)
T d1oqya1           5 ETMLTEIMSMGYERERVVAALRASYNNPHRAVEYLL   40 (41)
T ss_dssp             HHHHHHHHTTTCCSHHHHHHHHHSCSSTTHHHHTTT
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHh
Confidence            367999999999999999999999999999999764

>d1whca_ a.5.2.1 (A:) UBA/UBX 33.3 kDa protein {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: UBA/UBX 33.3 kDa protein
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.09  E-value=2.4e-11  Score=86.61  Aligned_cols=46  Identities=17%  Similarity=0.374  Sum_probs=40.3

Q ss_pred             CcCCHHHHHHHHhCCCCHHHHHHHHHHcCC-CHHHHHHh-ccCCCcch
Q 024447          213 KAVDIEKIKELVSIGFEKELVAEALRRNEN-DSQKALDD-LTNPESNS  258 (267)
Q Consensus       213 ~~vd~e~v~~L~~MGF~~~~A~~ALr~t~n-dve~Aldl-L~~pd~~~  258 (267)
                      ..||++.|++|++|||++..|++||+.|+| ++++|++| |.|+++.+
T Consensus         6 s~~d~~~l~~L~~MGF~~~~a~~AL~~t~n~~~e~A~~Wl~~h~~d~d   53 (64)
T d1whca_           6 SGAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPD   53 (64)
T ss_dssp             CCCCCCHHHHHHTTTCCHHHHHHHHHHHTSCCHHHHHHHHHHHTTCSC
T ss_pred             CccCHHHHHHHHHcCCCHHHHHHHHHHhCCCCHHHHHHHHHHCCCCCC
Confidence            458899999999999999999999999988 89999995 56776543

>d2cpwa1 a.5.2.1 (A:8-58) Cbl-interacting protein p70, STS1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Cbl-interacting protein p70, STS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.07  E-value=5.2e-11  Score=81.25  Aligned_cols=40  Identities=25%  Similarity=0.253  Sum_probs=36.3

Q ss_pred             CcCCHHHHHHHHhCCCCHHHHHHHHHHcCC-CHHHHHHhcc
Q 024447          213 KAVDIEKIKELVSIGFEKELVAEALRRNEN-DSQKALDDLT  252 (267)
Q Consensus       213 ~~vd~e~v~~L~~MGF~~~~A~~ALr~t~n-dve~AldlL~  252 (267)
                      ..+++..|++|++|||++..|++||+.|+| |++.|++||.
T Consensus         9 ~~~~~~~l~~L~~MGF~~~~a~~AL~~t~n~~ve~A~~WLl   49 (51)
T d2cpwa1           9 TIKHGSALDVLLSMGFPRARAQKALASTGGRSVQTACDWLF   49 (51)
T ss_dssp             SSSCCCHHHHHHHHTCCHHHHHHHHHHTTTSCHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHcCCCHHHHHHHHHHHCCCCHHHHHHHHH
Confidence            457888999999999999999999999998 9999999653

>d1vg5a_ a.5.2.1 (A:) Rhomboid family protein At3g58460 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Rhomboid family protein At3g58460
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.06  E-value=1.1e-10  Score=85.08  Aligned_cols=41  Identities=32%  Similarity=0.490  Sum_probs=37.5

Q ss_pred             CcCCHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhc-cC
Q 024447          213 KAVDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDL-TN  253 (267)
Q Consensus       213 ~~vd~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL-~~  253 (267)
                      ..++++.|.+|++|||++++|++||+.++||+++|++|| .|
T Consensus        26 ~~~~ee~i~~L~~MGF~~~~a~~AL~~~~~n~e~A~~~Ll~~   67 (73)
T d1vg5a_          26 VAASEEQIQKLVAMGFDRTQVEVALAAADDDLTVAVEILMSQ   67 (73)
T ss_dssp             SCCCHHHHHHHHTTTCCHHHHHHHHHHHTSCHHHHHHHHHTC
T ss_pred             cCcCHHHHHHHHHhCCCHHHHHHHHHHhCCCHHHHHHHHHhC
Confidence            347899999999999999999999999999999999955 44

>d2crna1 a.5.2.1 (A:8-58) Suppressor of T-cell receptor signaling 2 (STS-2) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Suppressor of T-cell receptor signaling 2 (STS-2)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.04  E-value=3.2e-11  Score=82.29  Aligned_cols=42  Identities=17%  Similarity=0.211  Sum_probs=36.4

Q ss_pred             CHHHHHHHHhCCCCHHHHHHHHHHcCC-CHHHHHHh-ccCCCcc
Q 024447          216 DIEKIKELVSIGFEKELVAEALRRNEN-DSQKALDD-LTNPESN  257 (267)
Q Consensus       216 d~e~v~~L~~MGF~~~~A~~ALr~t~n-dve~Aldl-L~~pd~~  257 (267)
                      +|+.|++|++|||++..|++||+.|+| |++.|++| |+|+++.
T Consensus         2 ~p~~v~~L~~MGF~~~~a~~Al~~t~n~~ve~A~~Wl~~h~~d~   45 (51)
T d2crna1           2 SPSLLEPLLAMGFPVHTALKALAATGRKTAEEALAWLHDHCNDP   45 (51)
T ss_dssp             SCSSHHHHHHTSCCHHHHHHHHHHHTSCCHHHHHHHHHHHSSST
T ss_pred             CHHHHHHHHHcCCCHHHHHHHHHHHCCCCHHHHHHHHHHcCCCc
Confidence            456799999999999999999999976 99999995 5677654

>d1wgna_ a.5.2.1 (A:) Ubiquitin-associated protein 1, UBAP1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin-associated protein 1, UBAP1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.01  E-value=3.9e-11  Score=85.26  Aligned_cols=40  Identities=18%  Similarity=0.417  Sum_probs=36.3

Q ss_pred             CCHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHh-ccCC
Q 024447          215 VDIEKIKELVSIGFEKELVAEALRRNENDSQKALDD-LTNP  254 (267)
Q Consensus       215 vd~e~v~~L~~MGF~~~~A~~ALr~t~ndve~Aldl-L~~p  254 (267)
                      ++++.|.+|++|||+++.|++||+.++||+++|++| |+|+
T Consensus        18 ~de~~v~~L~~MGF~~~~a~~AL~~~~~n~e~A~~~Lls~~   58 (63)
T d1wgna_          18 SERQCVETVVNMGYSYECVLRAMKKKGENIEQILDYLFAHS   58 (63)
T ss_dssp             HHHHHHHHHHHHHCCHHHHHHHHHHHCSCHHHHHHHHHHHS
T ss_pred             hhHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHHhCC
Confidence            467899999999999999999999999999999995 5554

>d1vega_ a.5.2.1 (A:) NEDD8 ultimate buster-1 (Nub1) {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: NEDD8 ultimate buster-1 (Nub1)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.98  E-value=2.2e-10  Score=83.60  Aligned_cols=44  Identities=27%  Similarity=0.358  Sum_probs=40.4

Q ss_pred             CCCCcCCHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhccC
Q 024447          210 PLKKAVDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDLTN  253 (267)
Q Consensus       210 ~~~~~vd~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL~~  253 (267)
                      ..+..|++++|++|++|||+++.|+.|||.++|||+.|.++|.|
T Consensus        23 ~~q~~~sQesidqLvYMGF~~~~Ae~ALRvfrGnVQlAaQtLah   66 (83)
T d1vega_          23 SRQASPSQESINQLVYMGFDTVVAEAALRVFGGNVQLAAQTLAH   66 (83)
T ss_dssp             SSSCCCCHHHHHHHHHHSCCHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             cccCCCCHHHHHHHHHhcccHHHHHHHHHHhcccHHHHHHHHHH
Confidence            34567999999999999999999999999999999999998765

>d1veka_ a.5.2.1 (A:) Ubiquitin isopeptidase T {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin isopeptidase T
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.89  E-value=8e-10  Score=82.55  Aligned_cols=45  Identities=22%  Similarity=0.329  Sum_probs=39.5

Q ss_pred             cCCHHHHHHHHhCCCCHHHHHHHHHHcCC-CHHHHHHh-ccCCCcch
Q 024447          214 AVDIEKIKELVSIGFEKELVAEALRRNEN-DSQKALDD-LTNPESNS  258 (267)
Q Consensus       214 ~vd~e~v~~L~~MGF~~~~A~~ALr~t~n-dve~Aldl-L~~pd~~~  258 (267)
                      .+|++.|.+|++|||++..|++||+.|+| |++.|++| |.|+++.+
T Consensus        27 ~~d~~~v~~L~~MGF~~~~a~~AL~~t~n~~~e~A~~Wl~~h~~d~d   73 (84)
T d1veka_          27 VANEEIVAQLVSMGFSQLHCQKAAINTSNAGVEEAMNWLLSHMDDPD   73 (84)
T ss_dssp             CCCHHHHHHHHHHTCCHHHHHHHHHHTTTCCHHHHHHHHHHHTTCST
T ss_pred             CCCHHHHHHHHHcCCCHHHHHHHHHHHcCCCHHHHHHHHHHcCCCCC
Confidence            47999999999999999999999999987 99999995 55766543

>d2g3qa1 a.5.2.1 (A:1339-1381) Endocytic protein Ede1, YBL047C {Saccharomyces cerevisiae [TaxId: 4932]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Endocytic protein Ede1, YBL047C
species: Saccharomyces cerevisiae [TaxId: 4932]

Probab=98.88  E-value=6.4e-10  Score=72.26  Aligned_cols=39  Identities=31%  Similarity=0.585  Sum_probs=35.9

Q ss_pred             ChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhh
Q 024447          144 PDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEE  182 (267)
Q Consensus       144 d~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~  182 (267)
                      .+.+|+.|++|||++++|++||..+++|++.|+|+|+.+
T Consensus         4 k~~ai~eL~~MGF~e~~A~~AL~k~~wnleaAtN~LLd~   42 (43)
T d2g3qa1           4 KSLAVEELSGMGFTEEEAHNALEKCNWDLEAATNFLLDS   42 (43)
T ss_dssp             HHHHHHHHHTTTSCHHHHHHHHHHHTSCHHHHHHHHHTC
T ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHcCCCHHHHHHHHHhc
Confidence            346799999999999999999999999999999999864

>d2g3qa1 a.5.2.1 (A:1339-1381) Endocytic protein Ede1, YBL047C {Saccharomyces cerevisiae [TaxId: 4932]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Endocytic protein Ede1, YBL047C
species: Saccharomyces cerevisiae [TaxId: 4932]

Probab=98.64  E-value=1.2e-08  Score=66.12  Aligned_cols=36  Identities=28%  Similarity=0.325  Sum_probs=32.8

Q ss_pred             HHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhcc
Q 024447          217 IEKIKELVSIGFEKELVAEALRRNENDSQKALDDLT  252 (267)
Q Consensus       217 ~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL~  252 (267)
                      ...|+.|++|||+++.|++||+++++|++.|+..|.
T Consensus         5 ~~ai~eL~~MGF~e~~A~~AL~k~~wnleaAtN~LL   40 (43)
T d2g3qa1           5 SLAVEELSGMGFTEEEAHNALEKCNWDLEAATNFLL   40 (43)
T ss_dssp             HHHHHHHHTTTSCHHHHHHHHHHHTSCHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            367999999999999999999999999999999543

>d2bwba1 a.5.2.1 (A:328-371) DSK2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: DSK2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.20  E-value=9.2e-07  Score=57.98  Aligned_cols=36  Identities=31%  Similarity=0.378  Sum_probs=32.1

Q ss_pred             hhHhhHHhCCC-CHHHHHHHHHHhCCCHHHHHHHHHh
Q 024447          146 ESLSLVMSMGF-KEQDAKRALRICSQDVGSAIDFLVE  181 (267)
Q Consensus       146 ~~l~~L~~MGF-~~~~Ar~ALr~~~gdve~A~~wL~~  181 (267)
                      ..+++|-+||| +.+...+||.+|+|||+.|++.|++
T Consensus         7 ~QL~qL~~MGF~d~~~Ni~AL~~t~GdV~~Aie~Ll~   43 (44)
T d2bwba1           7 HQLRQLNDMGFFDFDRNVAALRRSGGSVQGALDSLLN   43 (44)
T ss_dssp             HHHHHHHHTTCCCHHHHHHHHHHHTTCHHHHHHHHHC
T ss_pred             HHHHHHHHcCCCcHHHHHHHHHHcCCCHHHHHHHHhC
Confidence            46899999998 6777789999999999999999875

>d2bwba1 a.5.2.1 (A:328-371) DSK2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: DSK2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.17  E-value=1e-06  Score=57.73  Aligned_cols=35  Identities=34%  Similarity=0.544  Sum_probs=30.3

Q ss_pred             HHHHHHHhCCC-CHHHHHHHHHHcCCCHHHHHHhcc
Q 024447          218 EKIKELVSIGF-EKELVAEALRRNENDSQKALDDLT  252 (267)
Q Consensus       218 e~v~~L~~MGF-~~~~A~~ALr~t~ndve~AldlL~  252 (267)
                      ..+.+|.+||| +++.-..||..|+|||+.|+++|.
T Consensus         7 ~QL~qL~~MGF~d~~~Ni~AL~~t~GdV~~Aie~Ll   42 (44)
T d2bwba1           7 HQLRQLNDMGFFDFDRNVAALRRSGGSVQGALDSLL   42 (44)
T ss_dssp             HHHHHHHHTTCCCHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCCcHHHHHHHHHHcCCCHHHHHHHHh
Confidence            45899999999 455778999999999999999654

>d2dnaa1 a.5.2.1 (A:12-61) Ubiquilin-like protein Ubqlnl {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquilin-like protein Ubqlnl
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.15  E-value=1.2e-06  Score=58.91  Aligned_cols=37  Identities=24%  Similarity=0.287  Sum_probs=33.2

Q ss_pred             hhHhhHHhCCC-CHHHHHHHHHHhCCCHHHHHHHHHhh
Q 024447          146 ESLSLVMSMGF-KEQDAKRALRICSQDVGSAIDFLVEE  182 (267)
Q Consensus       146 ~~l~~L~~MGF-~~~~Ar~ALr~~~gdve~A~~wL~~~  182 (267)
                      ..+++|-+||| +.+...+||.+|+|||+.|++.|+++
T Consensus        10 ~QL~qL~~MGF~d~~~Ni~AL~~t~GdV~~Aie~Ll~~   47 (50)
T d2dnaa1          10 KEMECLQAMGFVNYNANLQALIATDGDTNAAIYKLKSS   47 (50)
T ss_dssp             HHHHHHHHHTCCCHHHHHHHHHHTTSCHHHHHHHHHHC
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHcCCCHHHHHHHHHhc
Confidence            56899999998 67777899999999999999999875

>d1veja1 a.5.2.1 (A:8-68) 4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: 4931431F19Rik
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.13  E-value=1.3e-06  Score=61.07  Aligned_cols=37  Identities=24%  Similarity=0.430  Sum_probs=32.4

Q ss_pred             hhhHhhHHhCCCC-HHHHHHHHHHhCCCHHHHHHHHHh
Q 024447          145 DESLSLVMSMGFK-EQDAKRALRICSQDVGSAIDFLVE  181 (267)
Q Consensus       145 ~~~l~~L~~MGF~-~~~Ar~ALr~~~gdve~A~~wL~~  181 (267)
                      ...|++|.+|||. .+...+||+.|+|||+.|+++|+.
T Consensus        23 ~~QL~qL~eMGF~d~~~Nl~AL~~t~Gdv~~Aie~Ll~   60 (61)
T d1veja1          23 QQELEELKALGFANRDANLQALVATDGDIHAAIEMLLG   60 (61)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHTTSCHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHcCCCHHHHHHHHhc
Confidence            3679999999996 555699999999999999999974

>d2dnaa1 a.5.2.1 (A:12-61) Ubiquilin-like protein Ubqlnl {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquilin-like protein Ubqlnl
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.10  E-value=1.6e-06  Score=58.22  Aligned_cols=36  Identities=19%  Similarity=0.338  Sum_probs=30.7

Q ss_pred             HHHHHHHhCCC-CHHHHHHHHHHcCCCHHHHHHh-ccC
Q 024447          218 EKIKELVSIGF-EKELVAEALRRNENDSQKALDD-LTN  253 (267)
Q Consensus       218 e~v~~L~~MGF-~~~~A~~ALr~t~ndve~Aldl-L~~  253 (267)
                      ..+.+|.+||| +++....||..|+|||+.|+++ |.+
T Consensus        10 ~QL~qL~~MGF~d~~~Ni~AL~~t~GdV~~Aie~Ll~~   47 (50)
T d2dnaa1          10 KEMECLQAMGFVNYNANLQALIATDGDTNAAIYKLKSS   47 (50)
T ss_dssp             HHHHHHHHHTCCCHHHHHHHHHHTTSCHHHHHHHHHHC
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHcCCCHHHHHHHHHhc
Confidence            55899999999 5557789999999999999994 444

>d1z96a1 a.5.2.1 (A:295-332) UBA-domain protein mud1 {Schizosaccharomyces pombe [TaxId: 4896]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: UBA-domain protein mud1
species: Schizosaccharomyces pombe [TaxId: 4896]

Probab=98.05  E-value=3.2e-06  Score=51.79  Aligned_cols=34  Identities=32%  Similarity=0.541  Sum_probs=31.9

Q ss_pred             hhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHH
Q 024447          146 ESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFL  179 (267)
Q Consensus       146 ~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL  179 (267)
                      .+|.+|++|||++-+|..||-+.|||++.|..|+
T Consensus         4 skiaqlvsmgfdpleaaqaldaangdldvaasfl   37 (38)
T d1z96a1           4 SKIAQLVSMGFDPLEAAQALDAANGDLDVAASFL   37 (38)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             hHHHHHHHcCCCHHHHHHHHhhhcCcHHHHHHhh
Confidence            4789999999999999999999999999999886

>d1veja1 a.5.2.1 (A:8-68) 4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: 4931431F19Rik
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.05  E-value=2.1e-06  Score=59.87  Aligned_cols=35  Identities=26%  Similarity=0.486  Sum_probs=30.6

Q ss_pred             HHHHHHHHhCCCC-HHHHHHHHHHcCCCHHHHHHhc
Q 024447          217 IEKIKELVSIGFE-KELVAEALRRNENDSQKALDDL  251 (267)
Q Consensus       217 ~e~v~~L~~MGF~-~~~A~~ALr~t~ndve~AldlL  251 (267)
                      ...+.+|.+|||. ++....||+.|+|||+.|+++|
T Consensus        23 ~~QL~qL~eMGF~d~~~Nl~AL~~t~Gdv~~Aie~L   58 (61)
T d1veja1          23 QQELEELKALGFANRDANLQALVATDGDIHAAIEML   58 (61)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHTTSCHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            4679999999996 5566999999999999999954

>d2daha1 a.5.2.1 (A:8-48) Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquilin-3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.02  E-value=1.9e-06  Score=55.62  Aligned_cols=34  Identities=26%  Similarity=0.395  Sum_probs=29.9

Q ss_pred             HHHHHHHhCCCCHH-HHHHHHHHcCCCHHHHHHhc
Q 024447          218 EKIKELVSIGFEKE-LVAEALRRNENDSQKALDDL  251 (267)
Q Consensus       218 e~v~~L~~MGF~~~-~A~~ALr~t~ndve~AldlL  251 (267)
                      ..+.+|.+|||+-+ .-..||+.++|||++|++.|
T Consensus         4 ~QL~~L~~MGF~d~~~Ni~AL~~t~Gdv~~Aie~L   38 (41)
T d2daha1           4 VQLEQLRSMGFLNREANLQALIATGGDVDAAVEKL   38 (41)
T ss_dssp             HHHHHHHHHTCCCHHHHHHHHHHHTSCHHHHHHHH
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            45899999999766 67799999999999999954

>d1vega_ a.5.2.1 (A:) NEDD8 ultimate buster-1 (Nub1) {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: NEDD8 ultimate buster-1 (Nub1)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.94  E-value=6.2e-06  Score=59.74  Aligned_cols=47  Identities=28%  Similarity=0.297  Sum_probs=41.7

Q ss_pred             hhccCCCChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447          137 KFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEK  183 (267)
Q Consensus       137 ~~~~l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~  183 (267)
                      ...+..++.++|.+|+-|||+...|+.|||.++|||..|.+-|..+.
T Consensus        22 ~~~q~~~sQesidqLvYMGF~~~~Ae~ALRvfrGnVQlAaQtLahng   68 (83)
T d1vega_          22 NSRQASPSQESINQLVYMGFDTVVAEAALRVFGGNVQLAAQTLAHHG   68 (83)
T ss_dssp             CSSSCCCCHHHHHHHHHHSCCHHHHHHHHHHTTTCHHHHHHHHHHHT
T ss_pred             ccccCCCCHHHHHHHHHhcccHHHHHHHHHHhcccHHHHHHHHHHcC
Confidence            34567789999999999999999999999999999999999776553

>d2daha1 a.5.2.1 (A:8-48) Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquilin-3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.87  E-value=1e-05  Score=52.14  Aligned_cols=36  Identities=31%  Similarity=0.371  Sum_probs=31.3

Q ss_pred             hhHhhHHhCCCC-HHHHHHHHHHhCCCHHHHHHHHHh
Q 024447          146 ESLSLVMSMGFK-EQDAKRALRICSQDVGSAIDFLVE  181 (267)
Q Consensus       146 ~~l~~L~~MGF~-~~~Ar~ALr~~~gdve~A~~wL~~  181 (267)
                      ..+++|-+|||+ ++...+||..++|||++|++.|.+
T Consensus         4 ~QL~~L~~MGF~d~~~Ni~AL~~t~Gdv~~Aie~Ll~   40 (41)
T d2daha1           4 VQLEQLRSMGFLNREANLQALIATGGDVDAAVEKLRQ   40 (41)
T ss_dssp             HHHHHHHHHTCCCHHHHHHHHHHHTSCHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHcCCCHHHHHHHHHh
Confidence            568999999986 556679999999999999999865

>d1z96a1 a.5.2.1 (A:295-332) UBA-domain protein mud1 {Schizosaccharomyces pombe [TaxId: 4896]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: UBA-domain protein mud1
species: Schizosaccharomyces pombe [TaxId: 4896]

Probab=97.79  E-value=1.7e-05  Score=48.44  Aligned_cols=34  Identities=38%  Similarity=0.438  Sum_probs=31.1

Q ss_pred             HHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhc
Q 024447          218 EKIKELVSIGFEKELVAEALRRNENDSQKALDDL  251 (267)
Q Consensus       218 e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL  251 (267)
                      .+|.+|++|||+.-.|..||...+||++.|...|
T Consensus         4 skiaqlvsmgfdpleaaqaldaangdldvaasfl   37 (38)
T d1z96a1           4 SKIAQLVSMGFDPLEAAQALDAANGDLDVAASFL   37 (38)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             hHHHHHHHcCCCHHHHHHHHhhhcCcHHHHHHhh
Confidence            4589999999999999999999999999998744

>d1oqya2 a.5.2.1 (A:317-360) DNA repair protein Hhr23a {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: DNA repair protein Hhr23a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.59  E-value=8.1e-06  Score=53.09  Aligned_cols=40  Identities=23%  Similarity=0.431  Sum_probs=37.4

Q ss_pred             ChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447          144 PDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEK  183 (267)
Q Consensus       144 d~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~  183 (267)
                      +.+.|..|++|||++..+..|-.+|+.|-+.|.+||+++.
T Consensus         4 e~~aIeRL~~LGF~r~~viqay~ACdKNEelAaN~L~~~~   43 (44)
T d1oqya2           4 EKEAIERLKALGFPESLVIQAYFACEKNENLAANFLLSQN   43 (44)
T ss_dssp             THHHHHHHHHHTCCSHHHHHHTSSSSSCSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHhCcCHHHHHHHHHHcc
Confidence            5688999999999999999999999999999999999873

>d2cosa1 a.5.2.1 (A:8-48) Serine/threonine protein kinase LATS2 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Serine/threonine protein kinase LATS2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.30  E-value=0.00011  Score=45.94  Aligned_cols=37  Identities=24%  Similarity=0.494  Sum_probs=32.4

Q ss_pred             CHHHHHHHHhCCCCHHHHHHHHHHcCC-CHHHHHHhcc
Q 024447          216 DIEKIKELVSIGFEKELVAEALRRNEN-DSQKALDDLT  252 (267)
Q Consensus       216 d~e~v~~L~~MGF~~~~A~~ALr~t~n-dve~AldlL~  252 (267)
                      +-+.+..|+.-||+.+.+..||++|++ +++.|++.++
T Consensus         2 nRQMlqdl~~aG~D~~m~iral~qt~~rsieaaie~is   39 (41)
T d2cosa1           2 NRQMLQELVNAGCDQEMAGRALKQTGSRSIEAALEYIS   39 (41)
T ss_dssp             CHHHHHHHHHHHCCHHHHHHHHHHHTSCCHHHHHHHHH
T ss_pred             cHHHHHHHHHcCCCHHHHHHHHHHhCcccHHHHHHHHh
Confidence            446688899999999999999999998 8999998664

>d2cosa1 a.5.2.1 (A:8-48) Serine/threonine protein kinase LATS2 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Serine/threonine protein kinase LATS2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.28  E-value=0.00014  Score=45.37  Aligned_cols=38  Identities=21%  Similarity=0.406  Sum_probs=33.6

Q ss_pred             CChhhHhhHHhCCCCHHHHHHHHHHhCC-CHHHHHHHHH
Q 024447          143 VPDESLSLVMSMGFKEQDAKRALRICSQ-DVGSAIDFLV  180 (267)
Q Consensus       143 vd~~~l~~L~~MGF~~~~Ar~ALr~~~g-dve~A~~wL~  180 (267)
                      |+-..++.|..-||+++-+.+||++||+ ++|.|++||-
T Consensus         1 vnRQMlqdl~~aG~D~~m~iral~qt~~rsieaaie~is   39 (41)
T d2cosa1           1 VNRQMLQELVNAGCDQEMAGRALKQTGSRSIEAALEYIS   39 (41)
T ss_dssp             CCHHHHHHHHHHHCCHHHHHHHHHHHTSCCHHHHHHHHH
T ss_pred             CcHHHHHHHHHcCCCHHHHHHHHHHhCcccHHHHHHHHh
Confidence            3556788899999999999999999987 7999999983

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.22  E-value=0.0014  Score=50.87  Aligned_cols=109  Identities=15%  Similarity=0.151  Sum_probs=73.4

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhh-----hccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLE-----FVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKA   78 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~-----~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~a   78 (267)
                      |..++++|-.++++++|.+|+....+|=+.+..+.+..-.     ...-..-+.+.+.+||+.+++   .++|-      
T Consensus        17 a~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~---~~~Al------   87 (153)
T d2fbna1          17 AFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKD---YPKAI------   87 (153)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTC---HHHHH------
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcc---cchhh------
Confidence            5678999999999999999999998887766554432111     001112356789999999975   33433      


Q ss_pred             HHHHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447           79 REGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus        79 e~~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                       ..|.++.          .-......+++-+     |.+.+..|+.++|...+.++-..
T Consensus        88 -~~~~~al----------~~~p~~~ka~~~~-----g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          88 -DHASKVL----------KIDKNNVKALYKL-----GVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             -HHHHHHH----------HHSTTCHHHHHHH-----HHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             -hhhhccc----------cccchhhhhhHHh-----HHHHHHcCCHHHHHHHHHHHHHh
Confidence             3333332          2222333466555     99999999999999998876543

>d1efub3 a.5.2.2 (B:1-54) Elongation factor Ts (EF-Ts), N-terminal domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: TS-N domain
domain: Elongation factor Ts (EF-Ts), N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=97.07  E-value=0.00048  Score=46.53  Aligned_cols=40  Identities=20%  Similarity=0.227  Sum_probs=34.4

Q ss_pred             CChhhHhhHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHhh
Q 024447          143 VPDESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEE  182 (267)
Q Consensus       143 vd~~~l~~L~~M-GF~~~~Ar~ALr~~~gdve~A~~wL~~~  182 (267)
                      |..+.|.+|-+. |.+.-+|+.||..++||++.|++||-.+
T Consensus         3 is~~~iK~LR~~Tgag~~dCKkAL~e~~gD~ekA~e~Lr~k   43 (54)
T d1efub3           3 ITASLVKELRERTGAGMMDCKKALTEANGDIELAIENMRKS   43 (54)
T ss_dssp             CCHHHHHHHHHHHCCCHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            455677777765 9999999999999999999999999654

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.93  E-value=0.0062  Score=47.80  Aligned_cols=110  Identities=19%  Similarity=0.131  Sum_probs=71.8

Q ss_pred             hhhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhh----hhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHH
Q 024447            3 MGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKV----LEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKA   78 (267)
Q Consensus         3 ~~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~----l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~a   78 (267)
                      .|-.|+++|..++++++|++|+.++..|=+.|..+...-    ...-.-.+.+-..+.=||+.+++   ..+|...+.+|
T Consensus        12 ~a~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~---~~~A~~~~~~a   88 (170)
T d1p5qa1          12 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQA---FSAAIESCNKA   88 (170)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTC---HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhh---cccccchhhhh
Confidence            366789999999999999999999988866665544311    11111222333456668888765   44444444444


Q ss_pred             HHHHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447           79 REGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus        79 e~~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                      -..       +|          ..-.+++.     .|++.++.|+.++|...+..+-..
T Consensus        89 l~~-------~p----------~~~~a~~~-----~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          89 LEL-------DS----------NNEKGLSR-----RGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HHH-------CT----------TCHHHHHH-----HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hhc-------cc----------cchhhhHH-----HHHHHHHhhhHHHHHHHHHHHHHh
Confidence            322       22          22234444     499999999999999999877553

>d1aipc1 a.5.2.2 (C:2-53) Elongation factor Ts (EF-Ts), N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: TS-N domain
domain: Elongation factor Ts (EF-Ts), N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=96.90  E-value=0.00067  Score=45.45  Aligned_cols=37  Identities=30%  Similarity=0.294  Sum_probs=30.7

Q ss_pred             hhHhhHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHhh
Q 024447          146 ESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEE  182 (267)
Q Consensus       146 ~~l~~L~~M-GF~~~~Ar~ALr~~~gdve~A~~wL~~~  182 (267)
                      +.|.+|-+. |.+..+|+.||..++||++.|++||-..
T Consensus         4 elvK~LR~~Tga~~~dcKkAL~e~~gD~ekA~e~Lr~~   41 (52)
T d1aipc1           4 ELIKKLREATGAGMMDVKRALEDAGWDEEKAVQLLRER   41 (52)
T ss_dssp             HHHHHHHHHHCCCHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            345555543 9999999999999999999999999654

>d1xb2b1 a.5.2.2 (B:56-111) Elongation factor Ts (EF-Ts), N-terminal domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: TS-N domain
domain: Elongation factor Ts (EF-Ts), N-terminal domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=96.84  E-value=0.00051  Score=46.71  Aligned_cols=38  Identities=26%  Similarity=0.406  Sum_probs=32.4

Q ss_pred             hhHhhHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447          146 ESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEEK  183 (267)
Q Consensus       146 ~~l~~L~~M-GF~~~~Ar~ALr~~~gdve~A~~wL~~~~  183 (267)
                      +.|.+|-+. |.+.-+|+.||..+|||++.|++||-..-
T Consensus         6 ~lvk~LRe~Tga~~~dcKkAL~e~~gD~ekA~e~LrkkG   44 (56)
T d1xb2b1           6 ELLMKLRRKTGYSFINCKKALETCGGDLKQAESWLHKQA   44 (56)
T ss_dssp             HHHHHHHHHHCCCHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            456666655 99999999999999999999999997654

>d1wj7a1 a.5.2.1 (A:8-98) Ubiquitin-associated protein 2-like Ubap2l {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin-associated protein 2-like Ubap2l
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.80  E-value=0.00068  Score=50.18  Aligned_cols=39  Identities=28%  Similarity=0.500  Sum_probs=36.2

Q ss_pred             hhHhhHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHhhhh
Q 024447          146 ESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEEKA  184 (267)
Q Consensus       146 ~~l~~L~~M-GF~~~~Ar~ALr~~~gdve~A~~wL~~~~~  184 (267)
                      ++|.+||+| |-++.+|..||+-|++|+++|+++|++...
T Consensus        34 ~kVkql~e~T~rsede~~~ALhDcn~D~~~AIn~lLEg~~   73 (91)
T d1wj7a1          34 EKVKQLIDITGKNQDECVIALHDCNGDVNRAINVLLEGNP   73 (91)
T ss_dssp             HHHHHHHHHTCCCHHHHHHHHHHHTSCHHHHHHHHHTCSS
T ss_pred             HHHHHHHHHhCCCHHHHHHHHhcCCccHHHHHHHHHhcCC
Confidence            678899999 899999999999999999999999998653

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.69  E-value=0.0062  Score=44.82  Aligned_cols=94  Identities=14%  Similarity=0.103  Sum_probs=67.4

Q ss_pred             hhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHh
Q 024447            7 LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAH   86 (267)
Q Consensus         7 l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~y   86 (267)
                      |.++|..+++.|+|++|+.++..|           |+.-.+.+.+-..+.+||+.+++..          .|...|.++-
T Consensus         6 l~~~g~~~~~~g~~~eAi~~~~~a-----------l~~~p~~~~~~~~~a~~~~~~~~~~----------~A~~~~~~al   64 (117)
T d1elwa_           6 LKEKGNKALSVGNIDDALQCYSEA-----------IKLDPHNHVLYSNRSAAYAKKGDYQ----------KAYEDGCKTV   64 (117)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHH-----------HHHCTTCHHHHHHHHHHHHHHTCHH----------HHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHH-----------HhcCCcchhhhhccccccccccccc----------ccchhhhhHH
Confidence            679999999999999999998877           4455666778888899999987653          3444444433


Q ss_pred             CCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           87 GKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        87 G~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                      -.         ....+ .+++-     .|.+....|+.++|...+.++-.
T Consensus        65 ~~---------~p~~~-~~~~~-----~g~~~~~~~~~~~A~~~~~~a~~   99 (117)
T d1elwa_          65 DL---------KPDWG-KGYSR-----KAAALEFLNRFEEAKRTYEEGLK   99 (117)
T ss_dssp             HH---------CTTCH-HHHHH-----HHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             Hh---------ccchh-hHHHH-----HHHHHHHccCHHHHHHHHHHHHH
Confidence            11         12222 23333     48889999999999999886654

>d1efub3 a.5.2.2 (B:1-54) Elongation factor Ts (EF-Ts), N-terminal domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: TS-N domain
domain: Elongation factor Ts (EF-Ts), N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.53  E-value=0.0017  Score=43.66  Aligned_cols=38  Identities=21%  Similarity=0.263  Sum_probs=34.2

Q ss_pred             CCHHHHHHHHhC-CCCHHHHHHHHHHcCCCHHHHHHhcc
Q 024447          215 VDIEKIKELVSI-GFEKELVAEALRRNENDSQKALDDLT  252 (267)
Q Consensus       215 vd~e~v~~L~~M-GF~~~~A~~ALr~t~ndve~AldlL~  252 (267)
                      ++.+.|.+|-+. |.+--.+++||..++||+++|++||-
T Consensus         3 is~~~iK~LR~~Tgag~~dCKkAL~e~~gD~ekA~e~Lr   41 (54)
T d1efub3           3 ITASLVKELRERTGAGMMDCKKALTEANGDIELAIENMR   41 (54)
T ss_dssp             CCHHHHHHHHHHHCCCHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            567788888877 99999999999999999999999874

>d1aipc1 a.5.2.2 (C:2-53) Elongation factor Ts (EF-Ts), N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: TS-N domain
domain: Elongation factor Ts (EF-Ts), N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=96.31  E-value=0.002  Score=43.07  Aligned_cols=36  Identities=33%  Similarity=0.278  Sum_probs=31.0

Q ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHcCCCHHHHHHhcc
Q 024447          217 IEKIKELVSI-GFEKELVAEALRRNENDSQKALDDLT  252 (267)
Q Consensus       217 ~e~v~~L~~M-GF~~~~A~~ALr~t~ndve~AldlL~  252 (267)
                      .+.|.+|-+. |++--.+++||..++||+++|++||-
T Consensus         3 ~elvK~LR~~Tga~~~dcKkAL~e~~gD~ekA~e~Lr   39 (52)
T d1aipc1           3 MELIKKLREATGAGMMDVKRALEDAGWDEEKAVQLLR   39 (52)
T ss_dssp             HHHHHHHHHHHCCCHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            3567777665 99999999999999999999999884

>d3e46a1 a.5.2.1 (A:157-198) Ubiquitin-conjugating enzyme E2-25 kDa, C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin-conjugating enzyme E2-25 kDa, C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.26  E-value=0.0038  Score=38.72  Aligned_cols=34  Identities=32%  Similarity=0.461  Sum_probs=31.4

Q ss_pred             HHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhc
Q 024447          218 EKIKELVSIGFEKELVAEALRRNENDSQKALDDL  251 (267)
Q Consensus       218 e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL  251 (267)
                      .+|+.|..|||++..+..||..-.-||+-|.++|
T Consensus         8 ~kidklca~gf~knavi~alsskswdvetatell   41 (42)
T d3e46a1           8 KKIENLCAAGFDRNAVIVALSSKSWDVETATELL   41 (42)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHHccccccceeeeeccCccchhhHHHhh
Confidence            4689999999999999999999999999999864

>d1xb2b1 a.5.2.2 (B:56-111) Elongation factor Ts (EF-Ts), N-terminal domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: TS-N domain
domain: Elongation factor Ts (EF-Ts), N-terminal domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=96.24  E-value=0.0018  Score=43.94  Aligned_cols=37  Identities=22%  Similarity=0.133  Sum_probs=32.5

Q ss_pred             CHHHHHHHHhC-CCCHHHHHHHHHHcCCCHHHHHHhcc
Q 024447          216 DIEKIKELVSI-GFEKELVAEALRRNENDSQKALDDLT  252 (267)
Q Consensus       216 d~e~v~~L~~M-GF~~~~A~~ALr~t~ndve~AldlL~  252 (267)
                      +.+.|.+|-+. |.+--.+++||..++||+++|++||-
T Consensus         4 s~~lvk~LRe~Tga~~~dcKkAL~e~~gD~ekA~e~Lr   41 (56)
T d1xb2b1           4 SKELLMKLRRKTGYSFINCKKALETCGGDLKQAESWLH   41 (56)
T ss_dssp             HHHHHHHHHHHHCCCHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            45677888776 99999999999999999999999874

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=96.00  E-value=0.057  Score=41.07  Aligned_cols=123  Identities=15%  Similarity=0.046  Sum_probs=82.1

Q ss_pred             hhhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccc---hhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHH
Q 024447            3 MGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDN---GPLLQIDMVWCYFMLRDISWLSEAGIRLRKAR   79 (267)
Q Consensus         3 ~~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn---~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae   79 (267)
                      .+..+...|...++.|+|++|+...-+|=+.+..=..  ....++   .|+.-.-|..||..|+   .+++|....+++-
T Consensus         8 ~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~--~~~~~~~~~~a~~~~nlg~~~~~lg---~~~~A~~~~~~al   82 (156)
T d2hr2a1           8 GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPP--EEAFDHAGFDAFCHAGLAEALAGLR---SFDEALHSADKAL   82 (156)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCT--TSCCCHHHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhh--hhhcccchhHHHHHHHHHHHHHHcC---ccchhhHhhhhhh
Confidence            3556667799999999999999999887444332111  011122   3555567888888775   4889999999998


Q ss_pred             HHHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccC
Q 024447           80 EGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQL  141 (267)
Q Consensus        80 ~~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l  141 (267)
                      +.+.+..-.+..--.           ...+.+.-.|.+.+..|+.++|.+.+.++-+..++.
T Consensus        83 ~~~~~~~~~~~~~~~-----------~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~~  133 (156)
T d2hr2a1          83 HYFNRRGELNQDEGK-----------LWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEER  133 (156)
T ss_dssp             HHHHHHCCTTSTHHH-----------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHC
T ss_pred             hcccccccccccccc-----------hhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHh
Confidence            888876533322111           111222334888999999999999998876554443

>d3e46a1 a.5.2.1 (A:157-198) Ubiquitin-conjugating enzyme E2-25 kDa, C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin-conjugating enzyme E2-25 kDa, C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.79  E-value=0.0092  Score=36.95  Aligned_cols=35  Identities=26%  Similarity=0.341  Sum_probs=31.6

Q ss_pred             hhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHH
Q 024447          146 ESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLV  180 (267)
Q Consensus       146 ~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~  180 (267)
                      .+|..|..|||+.+....||-.-..|||.|.+.|+
T Consensus         8 ~kidklca~gf~knavi~alsskswdvetatelll   42 (42)
T d3e46a1           8 KKIENLCAAGFDRNAVIVALSSKSWDVETATELLL   42 (42)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHHHHHccccccceeeeeccCccchhhHHHhhC
Confidence            47889999999999999999998999999998663

>d2dkla1 a.5.2.1 (A:8-79) Trinucleotide repeat containing 6c protein, TNRC6C {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Trinucleotide repeat containing 6c protein, TNRC6C
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.77  E-value=0.003  Score=44.45  Aligned_cols=40  Identities=30%  Similarity=0.429  Sum_probs=33.8

Q ss_pred             CcCCHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhcc
Q 024447          213 KAVDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDLT  252 (267)
Q Consensus       213 ~~vd~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL~  252 (267)
                      .|+--..+.|+..|||+++.+.+||+.++.|++.|+--|+
T Consensus        11 ~WiMnp~~KQfsnMGf~re~~e~~l~sN~m~L~~a~~~l~   50 (72)
T d2dkla1          11 AWIMSRLIKQLTDMGFPREPAEEALKSNNMNLDQAMSALL   50 (72)
T ss_dssp             HHHHHHHHHHHHHHTCCHHHHHHHHHHTTSCHHHHHHHHH
T ss_pred             hhhhhHHHHHHhhcCCcCCChHHhhhccCcchhhcccchh
Confidence            3543356899999999999999999999999999997443

>d1oqya2 a.5.2.1 (A:317-360) DNA repair protein Hhr23a {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: DNA repair protein Hhr23a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.76  E-value=0.0014  Score=42.22  Aligned_cols=36  Identities=31%  Similarity=0.404  Sum_probs=33.0

Q ss_pred             CHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhc
Q 024447          216 DIEKIKELVSIGFEKELVAEALRRNENDSQKALDDL  251 (267)
Q Consensus       216 d~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL  251 (267)
                      +.+.|..|.+|||++..+.+|--.++-|-+.|+.+|
T Consensus         4 e~~aIeRL~~LGF~r~~viqay~ACdKNEelAaN~L   39 (44)
T d1oqya2           4 EKEAIERLKALGFPESLVIQAYFACEKNENLAANFL   39 (44)
T ss_dssp             THHHHHHHHHHTCCSHHHHHHTSSSSSCSSHHHHHH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHhCcCHHHHHHHH
Confidence            457899999999999999999999999999999954

>d2k0bx1 a.5.2.1 (X:1-52) Sequestosome 1 (Sqstm1) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Sequestosome 1 (Sqstm1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.33  E-value=0.0057  Score=40.49  Aligned_cols=37  Identities=30%  Similarity=0.541  Sum_probs=31.5

Q ss_pred             HHHHHHHHhCCCCHH--HHHHHHHHcCCCHHHHHHhccC
Q 024447          217 IEKIKELVSIGFEKE--LVAEALRRNENDSQKALDDLTN  253 (267)
Q Consensus       217 ~e~v~~L~~MGF~~~--~A~~ALr~t~ndve~AldlL~~  253 (267)
                      .++|.+++.|||+-+  .-..=|..-++||.+|+|.++.
T Consensus        11 ~~al~qM~aMGFsneGGWLt~LL~skn~dI~~aLD~iq~   49 (52)
T d2k0bx1          11 IESLSQMLSMGFSDEGGWLTRLLQTKNYDIGAALDTIQY   49 (52)
T ss_dssp             HHHHHHHHHHTCCCSSSCHHHHHHHTTSCHHHHHHHTTC
T ss_pred             HHHHHHHHHcCCCCcchHHHHHHHHcCCCHHHHHHHHhh
Confidence            377999999999988  5566788899999999997764

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.26  E-value=0.13  Score=38.76  Aligned_cols=96  Identities=15%  Similarity=0.122  Sum_probs=67.1

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA   85 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~   85 (267)
                      .|-++|..+++.|+|++|+.++-.|=+.           --+.+..-..+..||+.+++   ..+|       .+.|+++
T Consensus        12 ~l~~~gn~~~~~~~y~~A~~~~~~al~~-----------~p~~~~~~~~lg~~~~~~~~---~~~A-------~~~~~ka   70 (159)
T d1a17a_          12 ELKTQANDYFKAKDYENAIKFYSQAIEL-----------NPSNAIYYGNRSLAYLRTEC---YGYA-------LGDATRA   70 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH-----------STTCHHHHHHHHHHHHHTTC---HHHH-------HHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHhhhcccc-----------chhhhhhhhhhHHHHHhccc---cchH-------HHHHHHH
Confidence            4668899999999999999999766543           33456666778899999875   3444       4455544


Q ss_pred             hCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447           86 HGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus        86 yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                      .          +-+...-.+++.+     |++.+..|+.++|...+..+-..
T Consensus        71 l----------~~~p~~~~a~~~~-----g~~~~~~g~~~eA~~~~~~a~~~  107 (159)
T d1a17a_          71 I----------ELDKKYIKGYYRR-----AASNMALGKFRAALRDYETVVKV  107 (159)
T ss_dssp             H----------HHCTTCHHHHHHH-----HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             H----------HHcccchHHHHHH-----HHHHHHcCCHHHHHHHHHHHHHc
Confidence            3          2122222344444     89999999999999988866553

>d1ttea1 a.5.2.1 (A:161-215) Ubiquitin-protein ligase ubc1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin-protein ligase ubc1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.17  E-value=0.0084  Score=40.17  Aligned_cols=27  Identities=44%  Similarity=0.645  Sum_probs=24.9

Q ss_pred             CCHHHHHHHHhCCCCHHHHHHHHHHcC
Q 024447          215 VDIEKIKELVSIGFEKELVAEALRRNE  241 (267)
Q Consensus       215 vd~e~v~~L~~MGF~~~~A~~ALr~t~  241 (267)
                      ++.+.|.+.++|||+++....+||+-+
T Consensus         8 id~~~V~~f~~mGF~rdKvI~VLrrlg   34 (55)
T d1ttea1           8 IDHDLIDEFESQGFEKDKIVEVLRRLG   34 (55)
T ss_dssp             CSHHHHHHHHHHTCCHHHHHHHHHHSC
T ss_pred             CCHHHHHHHHHcCCCchhHHHHHHHhC
Confidence            688999999999999999999999853

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.77  E-value=0.094  Score=41.48  Aligned_cols=136  Identities=17%  Similarity=0.227  Sum_probs=81.6

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      ++.|+.+|-.++.+++|+.|+..+..++              |..+-....+.=||+.+++          .++|.+.|.
T Consensus         5 ~~~l~~~g~~~~~~~d~~~Al~~~~~i~--------------~~~~~~~~nlG~~~~~~g~----------~~~A~~~~~   60 (192)
T d1hh8a_           5 AISLWNEGVLAADKKDWKGALDAFSAVQ--------------DPHSRICFNIGCMYTILKN----------MTEAEKAFT   60 (192)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHTSS--------------SCCHHHHHHHHHHHHHTTC----------HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHhcC--------------CCCHHHHHHHHHHHHHcCC----------chhHHHHHH
Confidence            5678899999999999999998775432              2223334466778888876          445566666


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhCCCCHHHH--
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDA--  161 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MGF~~~~A--  161 (267)
                      ++--.|+         .. -.+.+.|     |++.++.|+.++|...+.++-.....   ++..--....+-|....+  
T Consensus        61 kAl~ldp---------~~-~~a~~~~-----g~~~~~~g~~~~A~~~~~kAl~~~~~---n~~~~~~~~~~~~~~~~~e~  122 (192)
T d1hh8a_          61 RSINRDK---------HL-AVAYFQR-----GMLYYQTEKYDLAIKDLKEALIQLRG---NQLIDYKILGLQFKLFACEV  122 (192)
T ss_dssp             HHHHHCT---------TC-HHHHHHH-----HHHHHHTTCHHHHHHHHHHHHHTTTT---CSEEECGGGTBCCEEEHHHH
T ss_pred             HHHHHhh---------hh-hhhHHHH-----HHHHHhhccHHHHHHHHHHHHHhCcc---CchHHHHHhhhhcccchHHH
Confidence            6542221         11 1234444     99999999999999988876432211   111000112233332211  


Q ss_pred             --HHHH-HHhCCCHHHHHHHHHh
Q 024447          162 --KRAL-RICSQDVGSAIDFLVE  181 (267)
Q Consensus       162 --r~AL-r~~~gdve~A~~wL~~  181 (267)
                        ..|+ ...-|+.+.|++++..
T Consensus       123 ~~n~a~~~~~~~~~~~A~~~l~~  145 (192)
T d1hh8a_         123 LYNIAFMYAKKEEWKKAEEQLAL  145 (192)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHH
Confidence              2343 3446889999988744

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=94.59  E-value=0.28  Score=37.47  Aligned_cols=108  Identities=16%  Similarity=0.091  Sum_probs=71.1

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhh---cc-chhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEF---VD-NGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAR   79 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~---vD-n~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae   79 (267)
                      +-.++++|-.+.+.|+|.+|+.+.-.|=..+..+.+.--+.   ++ -.+.+-+.+.=||+.++   ..++|-.-..+|-
T Consensus        15 a~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~---~~~~Ai~~~~~al   91 (168)
T d1kt1a1          15 AAIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLR---EYTKAVECCDKAL   91 (168)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhh---hcccchhhhhhhh
Confidence            45689999999999999999999988877665554321111   11 12233345667888765   4455554444432


Q ss_pred             HHHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           80 EGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        80 ~~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                                       +-......+++.|     |.+.+..|+.++|...+..+-.
T Consensus        92 -----------------~l~p~~~~a~~~~-----~~~~~~l~~~~~A~~~~~~al~  126 (168)
T d1kt1a1          92 -----------------GLDSANEKGLYRR-----GEAQLLMNEFESAKGDFEKVLE  126 (168)
T ss_dssp             -----------------HHCTTCHHHHHHH-----HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             -----------------hcccchHHHHHHH-----HHHHHHcCCHHHHHHHHHHHHH
Confidence                             2233445566666     8889999999999998886543

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.59  E-value=0.15  Score=38.72  Aligned_cols=96  Identities=17%  Similarity=0.164  Sum_probs=69.5

Q ss_pred             hhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHh
Q 024447            7 LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAH   86 (267)
Q Consensus         7 l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~y   86 (267)
                      |-++|..++++|+|++|+.++..|=+.-           .+.+.+-.-+.=||+.+++          ...|...|+++-
T Consensus         7 l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-----------p~~~~~~~~lg~~y~~~~~----------~~~Ai~~~~~al   65 (201)
T d2c2la1           7 LKEQGNRLFVGRKYPEAAACYGRAITRN-----------PLVAVYYTNRALCYLKMQQ----------PEQALADCRRAL   65 (201)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------SCCHHHHHHHHHHHHHTTC----------HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-----------CCCHHHHHhHHHHHhhhhh----------hhhhhHHHHHHH
Confidence            6789999999999999999998875542           2345555567778999886          456666777665


Q ss_pred             CCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhh
Q 024447           87 GKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKF  138 (267)
Q Consensus        87 G~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~  138 (267)
                      -.+|.          ...+.+-+     |.+.+..|+.++|...+.++-...
T Consensus        66 ~l~p~----------~~~a~~~l-----g~~~~~l~~~~~A~~~~~~al~l~  102 (201)
T d2c2la1          66 ELDGQ----------SVKAHFFL-----GQCQLEMESYDEAIANLQRAYSLA  102 (201)
T ss_dssp             TSCTT----------CHHHHHHH-----HHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HhCCC----------cHHHHHHH-----HHHHHHCCCHHHHHHHHHHHHHhC
Confidence            44432          12233333     888999999999999988775433

>d1wgla_ a.5.2.4 (A:) Toll-interacting protein {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: CUE domain
domain: Toll-interacting protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.51  E-value=0.024  Score=38.55  Aligned_cols=38  Identities=16%  Similarity=0.371  Sum_probs=34.6

Q ss_pred             CCHHHHHHHHhC--CCCHHHHHHHHHHcCCCHHHHHH-hcc
Q 024447          215 VDIEKIKELVSI--GFEKELVAEALRRNENDSQKALD-DLT  252 (267)
Q Consensus       215 vd~e~v~~L~~M--GF~~~~A~~ALr~t~ndve~Ald-lL~  252 (267)
                      ...+.|++|.+|  .++++..+..|+.++||++.|++ +|.
T Consensus         8 ~~Ee~i~~LkeMFP~~D~~vI~~VL~a~~G~vd~aid~LL~   48 (59)
T d1wgla_           8 CSEEDLKAIQDMFPNMDQEVIRSVLEAQRGNKDAAINSLLQ   48 (59)
T ss_dssp             SCHHHHHHHHHHCSSSCHHHHHHHHTTTTTCHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHh
Confidence            467889999999  89999999999999999999999 654

>d1wj7a1 a.5.2.1 (A:8-98) Ubiquitin-associated protein 2-like Ubap2l {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin-associated protein 2-like Ubap2l
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.44  E-value=0.023  Score=41.73  Aligned_cols=35  Identities=31%  Similarity=0.477  Sum_probs=32.3

Q ss_pred             HHHHHHHhC-CCCHHHHHHHHHHcCCCHHHHHH-hcc
Q 024447          218 EKIKELVSI-GFEKELVAEALRRNENDSQKALD-DLT  252 (267)
Q Consensus       218 e~v~~L~~M-GF~~~~A~~ALr~t~ndve~Ald-lL~  252 (267)
                      ++|.+|++| |-+++.|.-||.-++||+++|++ +|.
T Consensus        34 ~kVkql~e~T~rsede~~~ALhDcn~D~~~AIn~lLE   70 (91)
T d1wj7a1          34 EKVKQLIDITGKNQDECVIALHDCNGDVNRAINVLLE   70 (91)
T ss_dssp             HHHHHHHHHTCCCHHHHHHHHHHHTSCHHHHHHHHHT
T ss_pred             HHHHHHHHHhCCCHHHHHHHHhcCCccHHHHHHHHHh
Confidence            679999999 99999999999999999999999 554

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.43  E-value=0.35  Score=35.30  Aligned_cols=115  Identities=14%  Similarity=0.075  Sum_probs=75.9

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      |+-+.++|-.++++++|++|+.++..|=+..           .+.+....-+..||+.+++   .++|..-+.+|-+.-.
T Consensus         4 a~~~k~~G~~~~~~~~y~~Ai~~y~~al~~~-----------p~~~~~~~~~a~~~~~~~~---~~~A~~~~~~al~l~~   69 (128)
T d1elra_           4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD-----------PTNMTYITNQAAVYFEKGD---YNKCRELCEKAIEVGR   69 (128)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------TTCHHHHHHHHHHHHHHTC---HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-----------cccHHHHHhHHHHHHHcCc---hHHHHHHHHHHHHhCc
Confidence            4667899999999999999999998887652           2345566778999999974   5566555555544333


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhH
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLV  151 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L  151 (267)
                      +.. ...              ...-+.+.-.|.+.+..|+.++|...++++-+.    ..+++.+..+
T Consensus        70 ~~~-~~~--------------~~~a~~~~~lg~~~~~~~~~~~A~~~~~kal~~----~~~~~~~~~l  118 (128)
T d1elra_          70 ENR-EDY--------------RQIAKAYARIGNSYFKEEKYKDAIHFYNKSLAE----HRTPDVLKKC  118 (128)
T ss_dssp             HST-TCH--------------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CCCHHHHHHH
T ss_pred             ccH-HHH--------------HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc----CCCHHHHHHH
Confidence            222 111              122244445677888889999999988765432    2344545444

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.31  E-value=0.54  Score=37.77  Aligned_cols=26  Identities=8%  Similarity=0.065  Sum_probs=16.5

Q ss_pred             hhHhHHHHHHhhchHHHHHHHHhhhh
Q 024447            7 LHANAKSLIKRHMYKDALEVLTMGEE   32 (267)
Q Consensus         7 l~ek~r~~~~~~~y~~al~~ll~ad~   32 (267)
                      +...|......++|++|+..+..+.+
T Consensus       206 ~~~l~~~~~~~~~~~~A~~~~~~~~~  231 (388)
T d1w3ba_         206 YINLGNVLKEARIFDRAVAAYLRALS  231 (388)
T ss_dssp             HHHHHHHHHTTTCTTHHHHHHHHHHH
T ss_pred             HHHHhhhhhccccHHHHHHHHHHhHH
Confidence            44566666677777777766655544

>d2dkla1 a.5.2.1 (A:8-79) Trinucleotide repeat containing 6c protein, TNRC6C {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Trinucleotide repeat containing 6c protein, TNRC6C
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.91  E-value=0.059  Score=37.61  Aligned_cols=40  Identities=25%  Similarity=0.428  Sum_probs=34.5

Q ss_pred             hhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhhhh
Q 024447          146 ESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAK  185 (267)
Q Consensus       146 ~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~~d  185 (267)
                      ..+.|+..|||+.+.+-.+|+..+.|++.|+-=|++.+-+
T Consensus        16 p~~KQfsnMGf~re~~e~~l~sN~m~L~~a~~~l~dKk~e   55 (72)
T d2dkla1          16 RLIKQLTDMGFPREPAEEALKSNNMNLDQAMSALLEKKVD   55 (72)
T ss_dssp             HHHHHHHHHTCCHHHHHHHHHHTTSCHHHHHHHHHTTSCC
T ss_pred             HHHHHHhhcCCcCCChHHhhhccCcchhhcccchhhhhhc
Confidence            3578999999999999999999999999999887665433

>d2k0bx1 a.5.2.1 (X:1-52) Sequestosome 1 (Sqstm1) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Sequestosome 1 (Sqstm1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.65  E-value=0.013  Score=38.66  Aligned_cols=35  Identities=40%  Similarity=0.627  Sum_probs=28.1

Q ss_pred             hhHhhHHhCCCCHHHHH--HHHHHhCCCHHHHHHHHH
Q 024447          146 ESLSLVMSMGFKEQDAK--RALRICSQDVGSAIDFLV  180 (267)
Q Consensus       146 ~~l~~L~~MGF~~~~Ar--~ALr~~~gdve~A~~wL~  180 (267)
                      ++|.+++.|||+-+-.-  +=|.+.+|||.+|++-|.
T Consensus        12 ~al~qM~aMGFsneGGWLt~LL~skn~dI~~aLD~iq   48 (52)
T d2k0bx1          12 ESLSQMLSMGFSDEGGWLTRLLQTKNYDIGAALDTIQ   48 (52)
T ss_dssp             HHHHHHHHHTCCCSSSCHHHHHHHTTSCHHHHHHHTT
T ss_pred             HHHHHHHHcCCCCcchHHHHHHHHcCCCHHHHHHHHh
Confidence            67999999999977653  346777899999998764

>d2cp8a1 a.5.2.1 (A:8-48) Migration-inducing protein 19 NBR1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Migration-inducing protein 19 NBR1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.15  E-value=0.038  Score=34.56  Aligned_cols=32  Identities=16%  Similarity=0.322  Sum_probs=27.7

Q ss_pred             HHHHHHHhCCCCHH-HHHHHHHHcCCCHHHHHH
Q 024447          218 EKIKELVSIGFEKE-LVAEALRRNENDSQKALD  249 (267)
Q Consensus       218 e~v~~L~~MGF~~~-~A~~ALr~t~ndve~Ald  249 (267)
                      ..+++|.+|||-.+ .-.+=|+++++|+..++.
T Consensus         4 ~lM~~L~EMGF~DR~lNq~LL~KH~~nl~~vV~   36 (41)
T d2cp8a1           4 ALMAHLFEMGFCDRQLNLRLLKKHNYNILQVVT   36 (41)
T ss_dssp             HHHHHHHHHTCCCHHHHHHHHTTTTTCHHHHHH
T ss_pred             HHHHHHHHhCcchhHHHHHHHHHccCcHHHHHH
Confidence            56889999999655 777889999999999987

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.07  E-value=0.42  Score=38.46  Aligned_cols=60  Identities=12%  Similarity=-0.035  Sum_probs=37.7

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHH
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKA   78 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~a   78 (267)
                      ..++..|....+.++|++|+.++-.|=+...           +.+-...-+.++|..+++   .++|..-+.++
T Consensus       238 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-----------~~~~~~~~l~~~~~~~~~---~~~A~~~~~~~  297 (388)
T d1w3ba_         238 VVHGNLACVYYEQGLIDLAIDTYRRAIELQP-----------HFPDAYCNLANALKEKGS---VAEAEDCYNTA  297 (388)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCS-----------SCHHHHHHHHHHHHHHSC---HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-----------CCHHHHHHHHHHHHHcCC---HHHHHHHHHhh
Confidence            3456678888999999999998876644322           233344556777877764   34444444433

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.04  E-value=1.6  Score=35.00  Aligned_cols=25  Identities=36%  Similarity=0.383  Sum_probs=18.9

Q ss_pred             HHHHhhhhccCCchhHhhhhHhhHh
Q 024447          112 LLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus       112 lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                      ...|.+.+..|+.++|...+.++-.
T Consensus       176 ~~l~~~~~~~~~~~~A~~~~~~al~  200 (323)
T d1fcha_         176 CGLGVLFNLSGEYDKAVDCFTAALS  200 (323)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHhhhhcccccccc
Confidence            3447788888999999888876643

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.70  E-value=0.56  Score=37.94  Aligned_cols=95  Identities=17%  Similarity=0.023  Sum_probs=61.4

Q ss_pred             hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447            6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA   85 (267)
Q Consensus         6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~   85 (267)
                      .+...|...++.++|++|+..+-.|=+           .-.|.+.....+.+||+.+++   .++|.+.+.+|-+.    
T Consensus       174 ~~~~l~~~~~~~~~~~~A~~~~~~al~-----------~~p~~~~~~~~lg~~~~~~g~---~~~A~~~~~~al~~----  235 (323)
T d1fcha_         174 VQCGLGVLFNLSGEYDKAVDCFTAALS-----------VRPNDYLLWNKLGATLANGNQ---SEEAVAAYRRALEL----  235 (323)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH-----------HCTTCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHH----
T ss_pred             cchhhHHHHHHHHHHhhhhcccccccc-----------cccccccchhhhhhccccccc---chhHHHHHHHHHHH----
Confidence            355668888899999999988866533           223445666778899988766   34554444333221    


Q ss_pred             hCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           86 HGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        86 yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                                 .. ..+ .++     .--|++.+..|+.++|...+.++=+
T Consensus       236 -----------~p-~~~-~a~-----~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         236 -----------QP-GYI-RSR-----YNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             -----------CT-TCH-HHH-----HHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             -----------hh-ccH-HHH-----HHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                       11 111 122     2238889999999999999887644

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.60  E-value=0.25  Score=34.53  Aligned_cols=59  Identities=5%  Similarity=-0.062  Sum_probs=44.0

Q ss_pred             chhhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCC
Q 024447            2 MMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRD   64 (267)
Q Consensus         2 ~~~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~   64 (267)
                      |.+=-.++.|+.+.+.|+|.+|...+-+|=+.+......-.+.    +-.---+.|||+.+++
T Consensus         3 Lsaddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~----~~~l~~Lg~~~~~~g~   61 (95)
T d1tjca_           3 LTAEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDK----VSVLDYLSYAVYQQGD   61 (95)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCH----HHHHHHHHHHHHHTTC
T ss_pred             ccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccH----HHHHHHHhhHHHhcCC
Confidence            4455678999999999999999999999988777665432221    1222247999999987

>d1wgla_ a.5.2.4 (A:) Toll-interacting protein {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: CUE domain
domain: Toll-interacting protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.51  E-value=0.098  Score=35.34  Aligned_cols=42  Identities=17%  Similarity=0.279  Sum_probs=36.0

Q ss_pred             ChhhHhhHHhC--CCCHHHHHHHHHHhCCCHHHHHHHHHhhhhh
Q 024447          144 PDESLSLVMSM--GFKEQDAKRALRICSQDVGSAIDFLVEEKAK  185 (267)
Q Consensus       144 d~~~l~~L~~M--GF~~~~Ar~ALr~~~gdve~A~~wL~~~~~d  185 (267)
                      .++.+++|.+|  .+++.-.+-.|++++||++.|++-|++-.++
T Consensus         9 ~Ee~i~~LkeMFP~~D~~vI~~VL~a~~G~vd~aid~LL~Msd~   52 (59)
T d1wgla_           9 SEEDLKAIQDMFPNMDQEVIRSVLEAQRGNKDAAINSLLQMGEE   52 (59)
T ss_dssp             CHHHHHHHHHHCSSSCHHHHHHHHTTTTTCHHHHHHHHHHSSCC
T ss_pred             cHHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHhcCCC
Confidence            56778999999  6888889999999999999999999876543

>d1mn3a_ a.5.2.4 (A:) Vacuolar protein sorting-associated protein vps9 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: CUE domain
domain: Vacuolar protein sorting-associated protein vps9
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.25  E-value=0.074  Score=35.35  Aligned_cols=35  Identities=11%  Similarity=0.306  Sum_probs=31.6

Q ss_pred             HHHHHHHhC--CCCHHHHHHHHHHcCCCHHHHHH-hcc
Q 024447          218 EKIKELVSI--GFEKELVAEALRRNENDSQKALD-DLT  252 (267)
Q Consensus       218 e~v~~L~~M--GF~~~~A~~ALr~t~ndve~Ald-lL~  252 (267)
                      +.+++|.+|  +++++..+.-|+.++||++.|++ +|+
T Consensus        14 e~~~~Lk~MFP~~D~~VI~~VL~a~~G~vd~aidaLL~   51 (54)
T d1mn3a_          14 DTLNTLQNMFPDMDPSLIEDVCIAKKSRIEPCVDALLS   51 (54)
T ss_dssp             HHHHHHHHHCTTSCHHHHHHHHSCSSCSHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHh
Confidence            568999999  89999999999999999999999 553

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=91.22  E-value=1.8  Score=32.38  Aligned_cols=108  Identities=17%  Similarity=0.090  Sum_probs=66.7

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhc----cC-ChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFS----LC-DPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKA   78 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~----~c-~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~a   78 (267)
                      +-.+.++|..+.++++|.+|+...-+|=+.+.    .. ..+..+.=.+.+.+-..+..||+.+++.   .+|-      
T Consensus        27 a~~~~~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~---~~Ai------   97 (169)
T d1ihga1          27 SEDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDW---QGAV------   97 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCH---HHHH------
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhccc---chhh------
Confidence            33567889999999999999998877633221    11 1122222234555556678899988753   3443      


Q ss_pred             HHHHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           79 REGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        79 e~~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                       ..|.++--.+|          ..-.+++-|     |.+.+..|+.++|...+.++-+
T Consensus        98 -~~~~~al~~~p----------~~~~a~~~~-----g~~~~~l~~~~~A~~~~~~al~  139 (169)
T d1ihga1          98 -DSCLEALEIDP----------SNTKALYRR-----AQGWQGLKEYDQALADLKKAQE  139 (169)
T ss_dssp             -HHHHHHHTTCT----------TCHHHHHHH-----HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             -hhhhhhhhhhh----------hhhhHHHhH-----HHHHHHccCHHHHHHHHHHHHH
Confidence             33433332222          222334444     8889999999999988876654

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=89.62  E-value=1.4  Score=34.17  Aligned_cols=97  Identities=14%  Similarity=0.028  Sum_probs=62.1

Q ss_pred             hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447            4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE   83 (267)
Q Consensus         4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~   83 (267)
                      +-.++..|...++.|+|++|+..+..|=+...           |++-.-.-+.-||..+++          ...|...|+
T Consensus        37 a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p-----------~~~~a~~~lg~~~~~~g~----------~~~A~~~~~   95 (259)
T d1xnfa_          37 AQLLYERGVLYDSLGLRALARNDFSQALAIRP-----------DMPEVFNYLGIYLTQAGN----------FDAAYEAFD   95 (259)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-----------CCHHHHHHHHHHHHHTTC----------HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHhhccCC-----------CCHHHHhhhchHHHHHHH----------HHHhhhhhh
Confidence            34678899999999999999998877643322           333334456677887775          334445555


Q ss_pred             HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447           84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA  136 (267)
Q Consensus        84 r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~  136 (267)
                      ++.-.+|.         .++ +.     .-.|++.+..|+.++|...+..+-.
T Consensus        96 ~al~~~p~---------~~~-a~-----~~lg~~~~~~g~~~~A~~~~~~al~  133 (259)
T d1xnfa_          96 SVLELDPT---------YNY-AH-----LNRGIALYYGGRDKLAQDDLLAFYQ  133 (259)
T ss_dssp             HHHHHCTT---------CTH-HH-----HHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhh---------hhh-hH-----HHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            44422221         111 22     2238888899999999988876643

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=88.70  E-value=1.9  Score=33.59  Aligned_cols=105  Identities=14%  Similarity=-0.025  Sum_probs=73.7

Q ss_pred             hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 024447            5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER   84 (267)
Q Consensus         5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r   84 (267)
                      ..+...|......+++++|...+-.+.+....+++....       ...-+.++|+.++   ....|...+.++...+++
T Consensus       214 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-------~~~~la~~~~~~g---~~~~A~~~~~~al~~~~~  283 (366)
T d1hz4a_         214 NANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQG-------QWRNIARAQILLG---EFEPAEIVLEELNENARS  283 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHH-------HHHHHHHHHHHTT---CHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHH-------HHHHHHHHHHHcC---CHHHHHHHHHHHHHHHhh
Confidence            345567888899999999999998887766555443222       2233678888876   467888888888776665


Q ss_pred             HhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhH
Q 024447           85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQ  135 (267)
Q Consensus        85 ~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~  135 (267)
                      . |..+..               .+.+.+.|.+.+..|+.++|...+..|-
T Consensus       284 ~-~~~~~~---------------~~~~~~la~~~~~~g~~~~A~~~l~~Al  318 (366)
T d1hz4a_         284 L-RLMSDL---------------NRNLLLLNQLYWQAGRKSDAQRVLLDAL  318 (366)
T ss_dssp             T-TCHHHH---------------HHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             c-ccChHH---------------HHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            3 333322               2345566999999999999999888653

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=88.25  E-value=4.5  Score=31.29  Aligned_cols=109  Identities=16%  Similarity=0.048  Sum_probs=56.3

Q ss_pred             hhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHh
Q 024447            7 LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAH   86 (267)
Q Consensus         7 l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~y   86 (267)
                      +...|.....+|+|++|+..+-.|-+....-++.     -+.+.....+.|+|....+   +..|...+..+-....+..
T Consensus        54 ~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~---~~~a~~~~~~al~~~~~~~  125 (366)
T d1hz4a_          54 TSVLGEVLHCKGELTRSLALMQQTEQMARQHDVW-----HYALWSLIQQSEILFAQGF---LQTAWETQEKAFQLINEQH  125 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCH-----HHHHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcch-----HHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHhHhcc
Confidence            4445666666666666666666665544332211     1223344556666665443   4455555555555444443


Q ss_pred             CCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447           87 GKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK  137 (267)
Q Consensus        87 G~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~  137 (267)
                      +...           +   .....+...|.+.+..|+.+.+...+..+...
T Consensus       126 ~~~~-----------~---~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~  162 (366)
T d1hz4a_         126 LEQL-----------P---MHEFLVRIRAQLLWAWARLDEAEASARSGIEV  162 (366)
T ss_dssp             CTTS-----------T---HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cchh-----------h---HHHHHHHHHHHHHHHhcchhhhHHHHHHHHHH
Confidence            2221           1   11123334466777778888887776655443

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=88.08  E-value=1.5  Score=30.85  Aligned_cols=91  Identities=10%  Similarity=-0.118  Sum_probs=57.3

Q ss_pred             hhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHh
Q 024447            7 LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAH   86 (267)
Q Consensus         7 l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~y   86 (267)
                      ..+.|..++++|+|.+|+..+-.|=+....           .+-...-..-||+.+++          ...|...|+++.
T Consensus        19 ~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-----------~~~a~~~lg~~~~~~~~----------~~~A~~~~~~al   77 (112)
T d1hxia_          19 PMEEGLSMLKLANLAEAALAFEAVCQKEPE-----------REEAWRSLGLTQAENEK----------DGLAIIALNHAR   77 (112)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-----------CHHHHHHHHHHHHHTTC----------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHhhhcccccc-----------cchhhhhhhhhhhhhhh----------HHHhhccccccc
Confidence            356899999999999999888776544322           23333445556666554          445555555544


Q ss_pred             CCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHh
Q 024447           87 GKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTS  133 (267)
Q Consensus        87 G~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~  133 (267)
                      -.+          ...-.+++..     |++....|+.++|.+.+.+
T Consensus        78 ~~~----------p~~~~a~~~l-----a~~y~~~g~~~~A~~~l~~  109 (112)
T d1hxia_          78 MLD----------PKDIAVHAAL-----AVSHTNEHNANAALASLRA  109 (112)
T ss_dssp             HHC----------TTCHHHHHHH-----HHHHHHHHHHHHHHHHHHH
T ss_pred             ccc----------cccccchHHH-----HHHHHHCCCHHHHHHHHHH
Confidence            222          2222344333     8888888999999887764

>d1ttea1 a.5.2.1 (A:161-215) Ubiquitin-protein ligase ubc1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin-protein ligase ubc1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.77  E-value=0.21  Score=33.14  Aligned_cols=28  Identities=18%  Similarity=0.273  Sum_probs=25.4

Q ss_pred             CCChhhHhhHHhCCCCHHHHHHHHHHhC
Q 024447          142 QVPDESLSLVMSMGFKEQDAKRALRICS  169 (267)
Q Consensus       142 ~vd~~~l~~L~~MGF~~~~Ar~ALr~~~  169 (267)
                      -+|++.|.+..+|||++.-...+||.-|
T Consensus         7 Gid~~~V~~f~~mGF~rdKvI~VLrrlg   34 (55)
T d1ttea1           7 GIDHDLIDEFESQGFEKDKIVEVLRRLG   34 (55)
T ss_dssp             CCSHHHHHHHHHHTCCHHHHHHHHHHSC
T ss_pred             CCCHHHHHHHHHcCCCchhHHHHHHHhC
Confidence            4799999999999999999999998764

>d1v92a_ a.5.2.3 (A:) NSFL1 (p97 ATPase) cofactor p47, UBA-like domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: TAP-C domain-like
domain: NSFL1 (p97 ATPase) cofactor p47, UBA-like domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=87.06  E-value=0.35  Score=30.63  Aligned_cols=35  Identities=26%  Similarity=0.319  Sum_probs=29.4

Q ss_pred             HHHHHHHhC-CCCHHHHHHHHHHcCCCHHHHHHhcc
Q 024447          218 EKIKELVSI-GFEKELVAEALRRNENDSQKALDDLT  252 (267)
Q Consensus       218 e~v~~L~~M-GF~~~~A~~ALr~t~ndve~AldlL~  252 (267)
                      +.|.+.++. |-+++.|+.=|..+++|++.|+..+.
T Consensus         7 ~lI~qF~~iTg~~~~~A~~~Le~~~w~Le~Ai~~yf   42 (46)
T d1v92a_           7 DALREFVAVTGAEEDRARFFLESAGWDLQIALASFY   42 (46)
T ss_dssp             HHHHHHHHHTCCCHHHHHHHHHHTTSCSHHHHHHHH
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHcCCcHHHHHHHHH
Confidence            456666665 89999999999999999999999543

>d1mn3a_ a.5.2.4 (A:) Vacuolar protein sorting-associated protein vps9 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: CUE domain
domain: Vacuolar protein sorting-associated protein vps9
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=86.41  E-value=0.29  Score=32.32  Aligned_cols=38  Identities=11%  Similarity=0.149  Sum_probs=32.9

Q ss_pred             hhhHhhHHhC--CCCHHHHHHHHHHhCCCHHHHHHHHHhh
Q 024447          145 DESLSLVMSM--GFKEQDAKRALRICSQDVGSAIDFLVEE  182 (267)
Q Consensus       145 ~~~l~~L~~M--GF~~~~Ar~ALr~~~gdve~A~~wL~~~  182 (267)
                      ++.+++|.+|  +++..--+-.|++++|+++.|++-|++-
T Consensus        13 ~e~~~~Lk~MFP~~D~~VI~~VL~a~~G~vd~aidaLL~M   52 (54)
T d1mn3a_          13 KDTLNTLQNMFPDMDPSLIEDVCIAKKSRIEPCVDALLSL   52 (54)
T ss_dssp             HHHHHHHHHHCTTSCHHHHHHHHSCSSCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHhc
Confidence            4678899999  6888888889999999999999988764

>d1v92a_ a.5.2.3 (A:) NSFL1 (p97 ATPase) cofactor p47, UBA-like domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: TAP-C domain-like
domain: NSFL1 (p97 ATPase) cofactor p47, UBA-like domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=86.30  E-value=0.48  Score=29.97  Aligned_cols=37  Identities=22%  Similarity=0.293  Sum_probs=30.6

Q ss_pred             hhHhhHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHhh
Q 024447          146 ESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEE  182 (267)
Q Consensus       146 ~~l~~L~~M-GF~~~~Ar~ALr~~~gdve~A~~wL~~~  182 (267)
                      +.|++.++. |=++..|+.=|..+++|++.|++-.++.
T Consensus         7 ~lI~qF~~iTg~~~~~A~~~Le~~~w~Le~Ai~~yfe~   44 (46)
T d1v92a_           7 DALREFVAVTGAEEDRARFFLESAGWDLQIALASFYED   44 (46)
T ss_dssp             HHHHHHHHHTCCCHHHHHHHHHHTTSCSHHHHHHHHHT
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHcCCcHHHHHHHHHhc
Confidence            556665553 8899999999999999999999977653

>d2cp8a1 a.5.2.1 (A:8-48) Migration-inducing protein 19 NBR1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Migration-inducing protein 19 NBR1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.56  E-value=0.36  Score=29.97  Aligned_cols=36  Identities=17%  Similarity=0.327  Sum_probs=27.3

Q ss_pred             hhhHhhHHhCCCCHHHHH-HHHHHhCCCHHHHHHHHH
Q 024447          145 DESLSLVMSMGFKEQDAK-RALRICSQDVGSAIDFLV  180 (267)
Q Consensus       145 ~~~l~~L~~MGF~~~~Ar-~ALr~~~gdve~A~~wL~  180 (267)
                      ...++.|.+|||.-++-- +-|+..++|+..+++-|.
T Consensus         3 ~~lM~~L~EMGF~DR~lNq~LL~KH~~nl~~vV~eLl   39 (41)
T d2cp8a1           3 AALMAHLFEMGFCDRQLNLRLLKKHNYNILQVVTELL   39 (41)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHTTTTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhCcchhHHHHHHHHHccCcHHHHHHHHH
Confidence            345789999999766654 455777889999988664

>d1cuka1 a.5.1.1 (A:156-203) DNA helicase RuvA subunit, C-terminal domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: DNA helicase RuvA subunit, C-terminal domain
family: DNA helicase RuvA subunit, C-terminal domain
domain: DNA helicase RuvA subunit, C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=83.91  E-value=0.43  Score=30.57  Aligned_cols=26  Identities=23%  Similarity=0.525  Sum_probs=22.7

Q ss_pred             hhhHhhHHhCCCCHHHHHHHHHHhCC
Q 024447          145 DESLSLVMSMGFKEQDAKRALRICSQ  170 (267)
Q Consensus       145 ~~~l~~L~~MGF~~~~Ar~ALr~~~g  170 (267)
                      +++++.|+..||++.+|++|+....+
T Consensus         6 ~eAi~AL~~LGY~~~ea~~av~~i~~   31 (48)
T d1cuka1           6 QEAVARLVALGYKPQEASRMVSKIAR   31 (48)
T ss_dssp             HHHHHHHHHHTCCHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHhcC
Confidence            47899999999999999999987643

>d1cuka1 a.5.1.1 (A:156-203) DNA helicase RuvA subunit, C-terminal domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: DNA helicase RuvA subunit, C-terminal domain
family: DNA helicase RuvA subunit, C-terminal domain
domain: DNA helicase RuvA subunit, C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=82.53  E-value=0.64  Score=29.72  Aligned_cols=26  Identities=15%  Similarity=0.381  Sum_probs=22.6

Q ss_pred             HHHHHHHHhCCCCHHHHHHHHHHcCC
Q 024447          217 IEKIKELVSIGFEKELVAEALRRNEN  242 (267)
Q Consensus       217 ~e~v~~L~~MGF~~~~A~~ALr~t~n  242 (267)
                      .+.+..|+.+||++..|.+|+++..+
T Consensus         6 ~eAi~AL~~LGY~~~ea~~av~~i~~   31 (48)
T d1cuka1           6 QEAVARLVALGYKPQEASRMVSKIAR   31 (48)
T ss_dssp             HHHHHHHHHHTCCHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHhcC
Confidence            37799999999999999999987644