Citrus Sinensis ID: 024453

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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
MSAGVCGKRVGFEEICGSSSPTSAKRSRCSTFGSLVRSGSDDPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRVLSFSNISERIKSQGLEPTIIGNFSAVPGESATSCSQMSEEEVRSAHTNFCGENITDGSKWVDLFVHEMMSAADLDDARGRAARILEVFERSIITNSKASKELEHASLKEHLQSLLNDNQILKKAVSIQHERHLEQEQKEKEVELLKLVISQYQDQARNLELRNYALKLHLQRAQESSSIPRQFHPDIF
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccccHHHHHHccccccHHHHHHHHHHcHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccHHHHHHccccccccccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccc
Secondary Structure Prediction (SSPRO)
ccEEEEcccccHHHcccccccccHHcccccccccccccccccHHHHHHHHcccccHHHHHHHHHHccccHHHHHHHHHHHccccHHHHcccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccc
Coil and Loop (DISEMBL)
msagvcgkrvgfeeicgsssptsakrsrcstfgslvrsgsddpvsfllqmfpdvdpeVVKSVLGEHDNKIEDAIDRLRVLSFSNISERiksqgleptiignfsavpgesatscsqmsEEEVRSAHtnfcgenitdgskWVDLFVHEMMSAADLDDARGRAARILEVFERSIITNSKASKELEHASLKEHLQSLLNDNQILKKAVSIQHERHLEQEQKEKEVELLKLVISQYQDQARNLELRNYALKLHLQRaqesssiprqfhpdif
Flexible Loop (DISEMBL)
msagvcgkrvgfeeicgsssptsakrsrCSTFGSLVRSGSDDPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRVLSFSNISERiksqgleptiIGNFSAVPGESATSCSQMSEEEVRSAHTNFCGENITDGSKWVDLFVHEMMSAADLDDARGRAARILEVFERSIITNSKASKELEHASLKEHLQSLLNDNQILKKAVSIQHERHLEQEQKEKEVELLKLVISQYQDQARNLELRNYALKLHLqraqesssiprqfhpdif
Low Complexity Region (SEG)
MSAGVCGKRVGFEEICGSSSPTSAKRSRCSTFGSLVRSGSDDPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRVLSFSNISERIKSQGLEPTIIGNFSAVPGESATSCSQMSEEEVRSAHTNFCGENITDGSKWVDLFVHEMMSaadlddargraarILEVFERSIITNSKASKELEHASLKEHLQSLLNDNQILKKAVSIQHERHleqeqkekevellklvISQYQDQARNLELRNYALKLHLQRAQESSSIPRQFHPDIF
Disordered region (IsUnstruct)
*******************************************VSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRVLSFSNISERIKSQGLEPTIIGNF***********************TNFCGENITDGSKWVDLFVHEMMSAADLDDARGRAARILEVFERSIIT***********************************************VELLKLVISQYQDQARNLELRNYALKLHL******************
Disordered Region (DISOPRED)
*SAGVCGKRVG********************************VSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRVLSF****************************************************DGSKWVDLFVHEMMSAA**DDARGRAARILEVFERS**************************NQILKKAVSIQH*********************QYQDQARNLELRNYALKL********************
Disordered Region (DISEMBL)
MSAGVCGKRVGFEEIC*****************SLVRSGSDDPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRVLSFSNISERIKSQGLEPTIIGNFSAVP*****************AHTNFCGENITDGSKWVDLFVHEMMSAADLDDARGRAARILEVFERSIITNSKASKELEHASLKEHLQSLLNDNQILKKAVSIQHERHLEQEQKEKEVELLKLVISQYQDQARNLELRNYALKLHLQ*****************
Disordered Region (DISPRO)
*********VGFEEIC***********************SDDPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRVLSFSN*************************************************TDGSKWVDLFVHEMMSAADLDDARGRAARILEVFERSIITNSKASKELEHASLKEHLQSLLNDNQILKKAVSIQHERHLEQEQKEKEVELLKLVISQYQDQARNLELRNYALKLHLQRAQE******QFH****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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)
MSAGVCGKRVGFEEICGSSSPTSAKRSRCSTFGSLVRSGSDDPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRVLSFSNISERIKSQGLEPTIIGNFSAVPGESATSCSQMSEEEVRSAHTNFCGENITDGSKWVDLFVHEMMSAADLDDARGRAARILEVFERSIITNSKASKELExxxxxxxxxxxxxxxxxxxxxVSIQHERHLExxxxxxxxxxxxxxxxxxxxxxxxxxxxNYALKLHLQRAQESSSIPRQFHPDIF
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

No hits with e-value below 0.001 by BLAST

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
255573637	268	conserved hypothetical protein [Ricinus	0.981	0.977	0.627	2e-87
359481792	274	PREDICTED: uncharacterized protein LOC10	0.996	0.970	0.614	5e-82
449448649	249	PREDICTED: uncharacterized protein LOC10	0.891	0.955	0.539	1e-64
147859242	213	hypothetical protein VITISV_023939 [Viti	0.786	0.985	0.596	6e-64
297806185	247	hypothetical protein ARALYDRAFT_349548 [	0.898	0.971	0.437	4e-52
294464579	264	unknown [Picea sitchensis]	0.947	0.958	0.449	2e-49
118483552	286	unknown [Populus trichocarpa]	0.970	0.905	0.425	5e-48
224144158	270	predicted protein [Populus trichocarpa]	0.913	0.903	0.419	4e-47
118488028	285	unknown [Populus trichocarpa]	0.966	0.905	0.411	9e-47
224090347	280	predicted protein [Populus trichocarpa]	0.951	0.907	0.402	8e-46

>gi|255573637|ref|XP_002527741.1| conserved hypothetical protein [Ricinus communis] gi|223532882|gb|EEF34654.1| conserved hypothetical protein [Ricinus communis]

 Score =  328 bits (841), Expect = 2e-87,   Method: Compositional matrix adjust.
 Identities = 170/271 (62%), Positives = 206/271 (76%), Gaps = 9/271 (3%)

Query: 1   MSAGVCGKRVGFEEICGSSSPTSAKRSRCSTFGSLVRS-----GSDDPVSFLLQMFPDVD 55
           MSAGVCGKRVGFEEI GSSS  +AKRSRCS FGS  RS     GSDD +  LLQMFP +D
Sbjct: 1   MSAGVCGKRVGFEEIFGSSS--AAKRSRCSGFGSPTRSTDFGSGSDDTLFTLLQMFPSLD 58

Query: 56  PEVVKSVLGEHDNKIEDAIDRLRVLSFSNISERIKSQGLEPTIIGNFSAVPGESATSCSQ 115
           PE+V++    H+NK++DA+  L  +SF +  ER K Q  E   IGN  AVP  S T+C Q
Sbjct: 59  PELVRTAHRNHNNKVDDAVKTLMKISFGDAVERNKLQSFESATIGNCDAVPPMSMTACLQ 118

Query: 116 MSEEEVRSAHTNFCGENITDGSKWVDLFVHEMMSAADLDDARGRAARILEVFERSIITNS 175
           M EEEV    +++  EN  DGSKWVDLFV EMM+AADLDDAR R+A+ILE FERSI   +
Sbjct: 119 MPEEEVEKKASDY--ENAVDGSKWVDLFVQEMMNAADLDDARRRSAQILEAFERSITAQA 176

Query: 176 KASKELEHASLKEHLQSLLNDNQILKKAVSIQHERHLEQEQKEKEVELLKLVISQYQDQA 235
              ++LE  SLKEHLQSLLNDNQILK+AV+IQHER+LEQE+K KEV+ LKL+++QYQ+Q 
Sbjct: 177 NRLEQLELTSLKEHLQSLLNDNQILKRAVAIQHERNLEQEEKTKEVQNLKLLLNQYQEQI 236

Query: 236 RNLELRNYALKLHLQRAQESSSIPRQFHPDI 266
           R+LEL NYALKLHLQRAQ++S+IP  F+PDI
Sbjct: 237 RSLELNNYALKLHLQRAQQNSNIPGHFNPDI 267

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359481792|ref|XP_002263099.2| PREDICTED: uncharacterized protein LOC100247807 [Vitis vinifera] gi|297740397|emb|CBI30579.3| unnamed protein product [Vitis vinifera]

 Score =  310 bits (793), Expect = 5e-82,   Method: Compositional matrix adjust.
 Identities = 169/275 (61%), Positives = 205/275 (74%), Gaps = 9/275 (3%)

Query: 1   MSAGVCGKRVGFEEICGSSSPTSAKRSRCSTFGSLVRS-----GSDDPVSFLLQMFPDVD 55
           MSAGVCGKRVGFEEI GSSS +S +   CSTFGS VRS     GSDD VS LLQMFP++D
Sbjct: 1   MSAGVCGKRVGFEEIFGSSSTSSKRSR-CSTFGSPVRSSDFGSGSDDSVSVLLQMFPNLD 59

Query: 56  PEVVKSVLGEHDNKIEDAIDRLRVLSFSNISERIKSQGLEPTIIGNFSAVPGESATSCSQ 115
            E+V++VL  H+NKIEDAI+ L  LS  +   R +SQGL+  ++GN    P +S     Q
Sbjct: 60  REMVETVLRTHNNKIEDAIESLHALSLGDTIARNESQGLDSAMMGNNDTGPAQSEHEYGQ 119

Query: 116 MSE---EEVRSAHTNFCGENITDGSKWVDLFVHEMMSAADLDDARGRAARILEVFERSII 172
            +E   E+V+   + F   N  DGSKWVDLFVHEMM+A DL DAR RAARILE FE++++
Sbjct: 120 TTEQKVEDVQDLKSMFEFGNAMDGSKWVDLFVHEMMNATDLSDARARAARILEAFEKNVV 179

Query: 173 TNSKASKELEHASLKEHLQSLLNDNQILKKAVSIQHERHLEQEQKEKEVELLKLVISQYQ 232
           ++S   KELEHASLKEHLQ+ L DNQILK+AV+IQH+R+LEQE++ +EV+ LK VI QYQ
Sbjct: 180 SHSMELKELEHASLKEHLQNFLRDNQILKRAVAIQHDRNLEQEERAREVQQLKDVIRQYQ 239

Query: 233 DQARNLELRNYALKLHLQRAQESSSIPRQFHPDIF 267
           +Q R LEL NY LKLHLQRAQ SSSIP QFHPDIF
Sbjct: 240 EQVRALELNNYTLKLHLQRAQGSSSIPGQFHPDIF 274

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449448649|ref|XP_004142078.1| PREDICTED: uncharacterized protein LOC101216078 [Cucumis sativus] gi|449525433|ref|XP_004169722.1| PREDICTED: uncharacterized protein LOC101227012 [Cucumis sativus]

 Score =  252 bits (643), Expect = 1e-64,   Method: Compositional matrix adjust.
 Identities = 150/278 (53%), Positives = 176/278 (63%), Gaps = 40/278 (14%)

Query: 1   MSAGVCGKRVGFEEICGSSSPTS----AKRSRCSTFGSLVRS----GSDDPVSFLLQMFP 52
           MSAGVCGKRVGFEEI GSSS  +    AKRSR STFGS  RS    G DD  S LLQMFP
Sbjct: 1   MSAGVCGKRVGFEEIFGSSSSPTACSSAKRSRWSTFGSPTRSDFGSGPDDSASVLLQMFP 60

Query: 53  DVDPEVVKSVLGEHDNKIEDAIDRLRVLSFSNISERIKSQGLEPTIIGNFSAVPGESATS 112
            V  EV                      SF + S R  S       IGN S VP E   +
Sbjct: 61  GVGAEVP---------------------SFDDFSARGHS-----ATIGNCSTVPDERTAT 94

Query: 113 CSQMSEEEVRSAH---TNFCGENITDGSKWVDLFVHEMMSAADLDDARGRAARILEVFER 169
           CSQMS E++  A    +     N   GSKWVD+FV EM  A D+ DAR RAARILE FE 
Sbjct: 95  CSQMSHEKIEEAKDVGSTVAEGNGMHGSKWVDMFVQEMAGAVDVGDARIRAARILEAFEH 154

Query: 170 SIITNSKASKELEHASLKEHLQSLLNDNQILKKAVSIQHERHLEQEQKEKEVELLKLVIS 229
           ++  NS+ S+EL+HASLKEHLQ+L+NDNQILK+AV+IQHER+LEQE+K +EV  LK V+ 
Sbjct: 155 NVTVNSRESEELKHASLKEHLQNLVNDNQILKRAVAIQHERNLEQEEKTREVHQLKHVLC 214

Query: 230 QYQDQARNLELRNYALKLHLQRAQESSSIPRQFHPDIF 267
           QYQ+Q ++LE+RNY L LHLQRAQ   S+   FH DIF
Sbjct: 215 QYQEQIQSLEVRNYTLNLHLQRAQ---SVSGHFHQDIF 249

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147859242|emb|CAN79697.1| hypothetical protein VITISV_023939 [Vitis vinifera]

 Score =  249 bits (637), Expect = 6e-64,   Method: Compositional matrix adjust.
 Identities = 127/213 (59%), Positives = 159/213 (74%), Gaps = 3/213 (1%)

Query: 58  VVKSVLGEHDNKIEDAIDRLRVLSFSNISERIKSQGLEPTIIGNFSAVPGESATSCSQMS 117
           +V++VL  H+NKIEDAI+ L  LS  +   R +SQGL+  ++GN    P +S     Q +
Sbjct: 1   MVETVLRTHNNKIEDAIESLHALSLGDTIARNESQGLDSAMMGNNDTAPAQSEHEYGQTT 60

Query: 118 E---EEVRSAHTNFCGENITDGSKWVDLFVHEMMSAADLDDARGRAARILEVFERSIITN 174
           E   E+V+   + F   N  DGSKWVDLFVHEMM+A DL DAR RAARILE FE++++++
Sbjct: 61  EQKVEDVQDLKSMFEFGNAMDGSKWVDLFVHEMMNATDLSDARARAARILEAFEKNVVSH 120

Query: 175 SKASKELEHASLKEHLQSLLNDNQILKKAVSIQHERHLEQEQKEKEVELLKLVISQYQDQ 234
           S   KELEHASLKEHLQ+LL DNQILK+AV+IQH+R+LEQE++ +EV+ LK VI QYQ+Q
Sbjct: 121 SMELKELEHASLKEHLQNLLRDNQILKRAVAIQHDRNLEQEERAREVQQLKDVIRQYQEQ 180

Query: 235 ARNLELRNYALKLHLQRAQESSSIPRQFHPDIF 267
            R LEL NY LKLHLQRAQ SSSIP QFHPDIF
Sbjct: 181 VRALELNNYTLKLHLQRAQGSSSIPGQFHPDIF 213

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297806185|ref|XP_002870976.1| hypothetical protein ARALYDRAFT_349548 [Arabidopsis lyrata subsp. lyrata] gi|297316813|gb|EFH47235.1| hypothetical protein ARALYDRAFT_349548 [Arabidopsis lyrata subsp. lyrata]

 Score =  210 bits (535), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 120/274 (43%), Positives = 165/274 (60%), Gaps = 34/274 (12%)

Query: 1   MSAGVCGKRVGFEEICGSSSPTSAKRSRCSTFGSLVRS-----GSDDPVSFLLQMFPDVD 55
           MS  VCGKRVG+++  GSSS  + KRS+ S+FGS +RS     GSDDP + L+ MFP +D
Sbjct: 1   MSTRVCGKRVGYDDFFGSSSSPTNKRSKWSSFGSPIRSSEVGSGSDDPFASLIHMFPSMD 60

Query: 56  PEVVKSVLGEHDNKIEDAIDRLRVLSFSNISERIKSQGLEPTIIGNFSAVPGESATSCSQ 115
           PE V+ VL   +   E+A + L  + F+  S+R ++        G+F    G        
Sbjct: 61  PEFVREVLSNKNYVFEEAKESLSSILFNGDSDRTEA--------GSFDGSVG-------- 104

Query: 116 MSEEEVRSAHTNFCGENITDGSKWVDLFVHEMMSAADLDDARGRAARILEVFERSIITNS 175
                      ++  E++ DG+KWVD  V EM  A ++DD R R A ILE  E  I  N+
Sbjct: 105 -----------SWKDEDMIDGAKWVDRLVSEMAKAINVDDMRRRVAVILEALEIIIKKNT 153

Query: 176 KASKELEHASLKEHLQSLLNDNQILKKAVSIQHERHLEQEQKEKEVELLKLVISQYQDQA 235
            AS +LE+ASLKE LQSL+NDNQILK+ ++ QH+R  E E+K K+V+ LK V+ QYQDQ 
Sbjct: 154 NASNKLEYASLKESLQSLINDNQILKRVIANQHQRSSENEEKAKQVQHLKGVVGQYQDQV 213

Query: 236 RNLELRNYALKLHLQRA--QESSSIPRQFHPDIF 267
             LEL NYA+KLHLQR+  Q+ +S      PD++
Sbjct: 214 HKLELSNYAMKLHLQRSQQQQQTSFSENLPPDVY 247

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|294464579|gb|ADE77799.1| unknown [Picea sitchensis]

 Score =  201 bits (512), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 125/278 (44%), Positives = 177/278 (63%), Gaps = 25/278 (8%)

Query: 1   MSAGVCGKRVG-FEEICGSSSPTSAKRSRCSTFGSLVRSGSDDPVSFLLQMFPDVDPEVV 59
           MSA VCGKR+  FE++ GS  P  AKR R ++  SL  S   D +S L+ +FP +DP++V
Sbjct: 1   MSAAVCGKRLPPFEDVHGSP-PIVAKRLRYTS--SLSPS---DNLSRLIALFPAMDPQLV 54

Query: 60  KSVLGEHDNKIEDAIDRLRVLSFSNISERI--KSQGL-----EPTIIGNFSAVPGESATS 112
           +SV    D  ++ AI  L  L  +   + I     GL     +P        VPG + ++
Sbjct: 55  ESVFESCDENMDHAIKSLSNLCLNPFEKNIFTADDGLVHSDAQPV------QVPGSTQST 108

Query: 113 CSQMSEEEVRSAHTNFCGENITDGSKWVDLFVHEMMSAADLDDARGRAARILEVFERSII 172
            +  S  E   A  +       DG +WV+  V EM +A+DLDDAR RA+RILE FE++++
Sbjct: 109 DADSSNLEF--AQLDGKSGCPADGVEWVEFLVIEMKNASDLDDARSRASRILEAFEKTVM 166

Query: 173 TNSKASKEL---EHASLKEHLQSLLNDNQILKKAVSIQHERHLEQEQKEKEVELLKLVIS 229
           + S A  E+   E+ SLKE +Q+LL++N ILK+AV+IQHER LEQE+K KEV+ L+ +++
Sbjct: 167 SRSGAMAEVLYKENTSLKEQVQNLLHENNILKRAVAIQHERQLEQEEKSKEVQQLRQLVT 226

Query: 230 QYQDQARNLELRNYALKLHLQRAQESSSIPRQFHPDIF 267
           QYQ+Q R LEL NYALKLHL++A+E SS+P +FHPDIF
Sbjct: 227 QYQEQVRTLELNNYALKLHLRKAEEGSSMPGRFHPDIF 264

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118483552|gb|ABK93674.1| unknown [Populus trichocarpa]

 Score =  197 bits (500), Expect = 5e-48,   Method: Compositional matrix adjust.
 Identities = 125/294 (42%), Positives = 177/294 (60%), Gaps = 35/294 (11%)

Query: 1   MSAGVCGKRVGFEEICGSSSPTSAKRSRCSTFGSLVR-------SGSDDPVSF------- 46
           MSA VCGKR  FEE+  +S P S KR RCS+  S VR       + + +P SF       
Sbjct: 1   MSAIVCGKRSFFEELTVTSPPVS-KRIRCSS-SSPVRFSPPRSNTLASNPPSFNFGSSSS 58

Query: 47  --------LLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRVLSFSNISERIKSQGLEPTI 98
                   L  +FPD+D ++++ VL E  + ++ AI  L  L   + +E   +   +  +
Sbjct: 59  SSSTLIEQLAAIFPDMDKQLIEKVLEECGDDLDSAIRSLNDLRLGS-AENFSAAADKSDV 117

Query: 99  IGNFSAVPGES-ATSCSQMSEEEVRSAHTNFCGENITDGSKWVDLFVHEMMSAADLDDAR 157
           I   S VP +  AT+ ++    E  SA  +       DG++WV+LFV EMMSA+++DDAR
Sbjct: 118 IDE-SNVPAQGVATTGAEAPPTEDLSASAHLS----LDGAEWVELFVREMMSASNIDDAR 172

Query: 158 GRAARILEVFERSIITNSKASK----ELEHASLKEHLQSLLNDNQILKKAVSIQHERHLE 213
            RA+R LEV E+SI   + A        EH  LKE +Q+L+ +N ILK+AVSIQHER  E
Sbjct: 173 ARASRALEVLEKSICARAGAEAVKNFHQEHMILKEQVQALIQENTILKRAVSIQHERQKE 232

Query: 214 QEQKEKEVELLKLVISQYQDQARNLELRNYALKLHLQRAQESSSIPRQFHPDIF 267
            E++ +E++ LK ++SQYQDQ R LE+ NYAL LHL++AQ+SSSIP +FHPD+F
Sbjct: 233 YEERNQEMQQLKQLVSQYQDQLRTLEVNNYALTLHLKQAQQSSSIPGRFHPDVF 286

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224144158|ref|XP_002325204.1| predicted protein [Populus trichocarpa] gi|222866638|gb|EEF03769.1| predicted protein [Populus trichocarpa]

 Score =  194 bits (492), Expect = 4e-47,   Method: Compositional matrix adjust.
 Identities = 123/293 (41%), Positives = 173/293 (59%), Gaps = 49/293 (16%)

Query: 1   MSAGVCGKRVGFEEICGSSSPTSAKRSRCSTFGSLVR-------SGSDDPVSF------- 46
           MSA VCGKR  FEE+  +S P S KR RCS+  S VR       + + +P SF       
Sbjct: 1   MSAIVCGKRSFFEELTVTSPPVS-KRIRCSS-SSPVRFSPPRSNTLASNPPSFNFGSSSS 58

Query: 47  --------LLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRVLSFSNISERIKSQGLEPTI 98
                   L  +FPD+D ++++ VL E  + ++ AI  L  L   + +E   +   +  +
Sbjct: 59  SSSTLIEQLAAIFPDMDKQLIEKVLEECGDDLDSAIRSLNDLRLGS-AENFSAAADKSDV 117

Query: 99  IGNFSAVPGESATSCSQMSEEEVRSAHTNFCGENITDGSKWVDLFVHEMMSAADLDDARG 158
           I   S VP ++             SAH +       DG++WV+LFV EMMSA+++DDAR 
Sbjct: 118 IDE-SNVPAQA-------------SAHLSL------DGAEWVELFVREMMSASNIDDARA 157

Query: 159 RAARILEVFERSIITNSKASK----ELEHASLKEHLQSLLNDNQILKKAVSIQHERHLEQ 214
           RA+R LEV E+SI   + A        EH  LKE +Q+L+ +N ILK+AVSIQHER  E 
Sbjct: 158 RASRALEVLEKSICARAGAEAVKNFHQEHMILKEQVQALIQENTILKRAVSIQHERQKEY 217

Query: 215 EQKEKEVELLKLVISQYQDQARNLELRNYALKLHLQRAQESSSIPRQFHPDIF 267
           E++ +E++ LK ++SQYQDQ R LE+ NYAL LHL++AQ+SSSIP +FHPD+F
Sbjct: 218 EERNQEMQQLKQLVSQYQDQLRTLEVNNYALTLHLKQAQQSSSIPGRFHPDVF 270

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118488028|gb|ABK95835.1| unknown [Populus trichocarpa]

 Score =  192 bits (489), Expect = 9e-47,   Method: Compositional matrix adjust.
 Identities = 121/294 (41%), Positives = 177/294 (60%), Gaps = 36/294 (12%)

Query: 1   MSAGVCGKRVGFEEICGSSSPTSAKRSRCSTFGSLVR-------SGSDDPVSF------- 46
           MSA VCGKR  FEE+  +S P S KR RCS+  S VR       + + +P SF       
Sbjct: 1   MSAIVCGKRSFFEELTVTSPPVS-KRIRCSS-SSPVRFSPPRSNTIASNPASFNFSSSSS 58

Query: 47  --------LLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRVLSFSNISERIKSQGLEPTI 98
                   L  +FPD+D ++++  L E  + ++ AI  L  L  +++ E   +  ++  +
Sbjct: 59  SSSAFVEQLAAIFPDMDKQLLEKALEECGDDLDLAIRSLNELRLASV-ENFSAAAVKSDV 117

Query: 99  IGNFSAVP-GESATSCSQMSEEEVRSAHTNFCGENITDGSKWVDLFVHEMMSAADLDDAR 157
           +   +  P G + T     +E+   SA  +       DG +WV+LFV EMMSA+++DDAR
Sbjct: 118 MDKANVPPQGLAPTDAEAPTEDPSASALLSM------DGMEWVELFVREMMSASNIDDAR 171

Query: 158 GRAARILEVFERSIIT--NSKASKEL--EHASLKEHLQSLLNDNQILKKAVSIQHERHLE 213
            RA+R LE  E+SI T   ++A+K    E+  LKE +Q+L+ +N ILK+AVSIQHER  E
Sbjct: 172 ARASRALEALEKSICTRAGAEAAKSFHQENMMLKEQMQALIQENTILKRAVSIQHERQKE 231

Query: 214 QEQKEKEVELLKLVISQYQDQARNLELRNYALKLHLQRAQESSSIPRQFHPDIF 267
            E+  +E++ LK ++SQYQDQ R LE+ NYAL LHL++AQ+SSSIP +FHPD+F
Sbjct: 232 FEESSQELQQLKQLVSQYQDQLRTLEVNNYALTLHLKQAQQSSSIPGRFHPDVF 285

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224090347|ref|XP_002308974.1| predicted protein [Populus trichocarpa] gi|222854950|gb|EEE92497.1| predicted protein [Populus trichocarpa]

 Score =  189 bits (481), Expect = 8e-46,   Method: Compositional matrix adjust.
 Identities = 118/293 (40%), Positives = 173/293 (59%), Gaps = 39/293 (13%)

Query: 1   MSAGVCGKRVGFEEICGSSSPTSAKRSRCSTFGSLVR-------SGSDDPVSF------- 46
           MSA VCGKR  FEE+  +S P S KR RCS+  S VR       + + +P SF       
Sbjct: 1   MSAIVCGKRSFFEELTVTSPPVS-KRIRCSS-SSPVRFSPPRSNTIASNPASFNFSSSSS 58

Query: 47  --------LLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRVLSFSNISERIKSQGLEPTI 98
                   L  +FPD+D ++++  L E  + ++ AI  L  L  +++ E   +  ++  +
Sbjct: 59  SSSAFVEQLAAIFPDMDKQLLEKALEECGDDLDLAIRSLNELRLASV-ENFSAAAVKSDV 117

Query: 99  IGNFSAVPGESATSCSQMSEEEVRSAHTNFCGENITDGSKWVDLFVHEMMSAADLDDARG 158
           +   +  P ++       S   + S           DG +WV+LFV EMMSA+++DDAR 
Sbjct: 118 MDKANVPPQDAEAPTEDPSASALLS----------MDGMEWVELFVREMMSASNIDDARA 167

Query: 159 RAARILEVFERSIIT--NSKASKEL--EHASLKEHLQSLLNDNQILKKAVSIQHERHLEQ 214
           RA+R LE  E+SI T   ++A+K    E+  LKE +Q+L+ +N ILK+AVSIQHER  E 
Sbjct: 168 RASRALEALEKSICTRAGAEAAKSFHQENMMLKEQMQALIQENTILKRAVSIQHERQKEF 227

Query: 215 EQKEKEVELLKLVISQYQDQARNLELRNYALKLHLQRAQESSSIPRQFHPDIF 267
           E+  +E++ LK ++SQYQDQ R LE+ NYAL LHL++AQ+SSSIP +FHPD+F
Sbjct: 228 EESSQELQQLKQLVSQYQDQLRTLEVNNYALTLHLKQAQQSSSIPGRFHPDVF 280

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	267
TAIR|locus:2181738	179	AT5G02510 "AT5G02510" [Arabido	0.513	0.765	0.434	1.2e-24

TAIR|locus:2181738 AT5G02510 "AT5G02510" [Arabidopsis thaliana (taxid:3702)]

 Score = 281 (104.0 bits), Expect = 1.2e-24, P = 1.2e-24
 Identities = 60/138 (43%), Positives = 79/138 (57%)

Query:   131 ENITDGSKWVDLFVHEMMSXXXXXXXXXXXXXILEVFERSIITNSKASKELEHASLKEHL 190
             E++ DG+KWVD  V EM               ILE  E  I  N+ ASK+LE+AS+KE L
Sbjct:    42 EDMIDGAKWVDRLVSEMTKAINIDDMRRRVAVILEALESIIKKNTNASKKLEYASMKESL 101

Query:   191 QSLLNDNQILKKAVSIQHERHXXXXXXXXXXXXXXXXISQYQDQARNLELRNYALKLHLQ 250
             QSL+NDNQILK+ ++ QH+R                 + QYQ+Q   LEL NYA+KLHLQ
Sbjct:   102 QSLINDNQILKRVIANQHQRSSENEEKAKQVLHLRGVVGQYQEQVHKLELSNYAMKLHLQ 161

Query:   251 RAQES-SSIPRQFHPDIF 267
             R+Q+  +S      PDI+
Sbjct:   162 RSQQQQTSFSGNLPPDIY 179


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        0.315   0.130   0.364    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       238   0.00091  113 3  11 22  0.45    33
                                                     32  0.44    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:  1
  No. of states in DFA:  604 (64 KB)
  Total size of DFA:  176 KB (2102 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:  21.71u 0.12s 21.83t   Elapsed:  00:00:01
  Total cpu time:  21.71u 0.12s 21.83t   Elapsed:  00:00:01
  Start:  Fri May 10 07:57:45 2013   End:  Fri May 10 07:57:46 2013

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

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: GSVIVG00021296001 SubName- Full=Chromosome chr8 scaffold_23, whole genome shotgun sequence; (274 aa) (Vitis vinifera)

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
pfam02845	42	pfam02845, CUE, CUE domain	1e-06
smart00546	43	smart00546, CUE, Domain that may be involved in bi	1e-04

>gnl|CDD|202430 pfam02845, CUE, CUE domain

 Score = 44.4 bits (106), Expect = 1e-06
 Identities = 15/34 (44%), Positives = 23/34 (67%)

Query: 44 VSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRL 77
          +  L +MFPD+D EV+++VL   +  +E AID L
Sbjct: 5  LETLKEMFPDLDEEVIRAVLQASNGNVEAAIDAL 38

CUE domains have been shown to bind ubiquitin. It has been suggested that CUE domains are related to pfam00627 and this has been confirmed by the structure of the domain. CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Length = 42

>gnl|CDD|214715 smart00546, CUE, Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs)

 Score = 38.2 bits (90), Expect = 1e-04
 Identities = 12/32 (37%), Positives = 21/32 (65%)

Query: 47 LLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLR 78
          L +MFP++D EV+++VL  +   +E  I+ L 
Sbjct: 9  LKEMFPNLDEEVIEAVLEANTGNVEATINNLL 40

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). Length = 43

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	267
PF14817	632	HAUS5: HAUS augmin-like complex subunit 5	98.97
PF02845	42	CUE: CUE domain; InterPro: IPR003892 This domain m	98.26
smart00546	43	CUE Domain that may be involved in binding ubiquit	98.23
PF03474	39	DMA: DMRTA motif; InterPro: IPR005173 This region	97.39
COG3074	79	Uncharacterized protein conserved in bacteria [Fun	96.29
PRK15422	79	septal ring assembly protein ZapB; Provisional	96.16
PF00627	37	UBA: UBA/TS-N domain; InterPro: IPR000449 UBA doma	95.57
PF06005	72	DUF904: Protein of unknown function (DUF904); Inte	95.07
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	94.72
PF10205	102	KLRAQ: Predicted coiled-coil domain-containing pro	94.51
PF09744	158	Jnk-SapK_ap_N: JNK_SAPK-associated protein-1; Inte	94.46
smart00165	37	UBA Ubiquitin associated domain. Present in Rad23,	92.38
PRK10884	206	SH3 domain-containing protein; Provisional	92.14
cd00194	38	UBA Ubiquitin Associated domain. The UBA domain is	92.02
PHA02047	101	phage lambda Rz1-like protein	91.08
PF02403	108	Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal dom	90.71
PF15058	200	Speriolin_N: Speriolin N terminus	90.57
PRK09413	121	IS2 repressor TnpA; Reviewed	89.64
PF13747	89	DUF4164: Domain of unknown function (DUF4164)	88.98
PF05010	207	TACC: Transforming acidic coiled-coil-containing p	88.75
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	87.93
TIGR03495	135	phage_LysB phage lysis regulatory protein, LysB fa	86.01
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	85.77
KOG4588	267	consensus Predicted ubiquitin-conjugating enzyme [	85.52
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	84.55
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	84.0
TIGR03752	472	conj_TIGR03752 integrating conjugative element pro	83.79
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	83.59
PF15058	200	Speriolin_N: Speriolin N terminus	83.12
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	82.99
PF07058	351	Myosin_HC-like: Myosin II heavy chain-like; InterP	82.08
PRK03918	880	chromosome segregation protein; Provisional	81.31
PF10226	195	DUF2216: Uncharacterized conserved proteins (DUF22	81.28
PLN02678	448	seryl-tRNA synthetase	80.87

>PF14817 HAUS5: HAUS augmin-like complex subunit 5

Probab=98.97  E-value=7.5e-09  Score=105.49  Aligned_cols=121  Identities=27%  Similarity=0.290  Sum_probs=105.2

Q ss_pred             CChhhhHHHHHHHHhcCC-CchHHHHHHHHHHHHHHHHHHHhhhh-h--hhHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Q 024453          134 TDGSKWVDLFVHEMMSAA-DLDDARGRAARILEVFERSIITNSKA-S--KELEHASLKEHLQSLLNDNQILKKAVSIQHE  209 (267)
Q Consensus       134 ~~g~eWVEl~V~EM~~As-d~dDARaRAsRvLEafEksi~~ra~a-a--~~~En~~LKe~l~~l~~eN~iLKRAv~IQhe  209 (267)
                      -.|-.+|.-||.|.+..- ...+...|..+.++..|+.+...+.. +  +..|..+||..++.|..+...|+++++.+++
T Consensus       307 qe~~a~v~q~~~e~~~l~~eaq~l~~~L~~~~~e~~~~~~~~s~~~al~~ele~~~l~A~l~~L~se~q~L~~~~~~r~e  386 (632)
T PF14817_consen  307 QEQWAHVQQFLAEEDALNKEAQALSQRLQRLLEEIERRLSGSSEREALALELEVAGLKASLNALRSECQRLKEAAAERQE  386 (632)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456666776666665544 47888889999999999987665444 3  7789999999999999999999999999999


Q ss_pred             hhHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhc
Q 024453          210 RHLEQEQKEKEVELLKLVISQYQDQARNLELRNYALKLHLQRAQE  254 (267)
Q Consensus       210 R~~e~e~~~~E~~~Lkql~~qyqEqir~LE~~NYaL~~HL~qA~~  254 (267)
                      ...+++.+.|++.++++++.+||+|||+|...||++..||.+.+.
T Consensus       387 ~~~~Lq~K~q~I~~frqlv~e~QeqIr~LiK~Nsaakt~L~q~~~  431 (632)
T PF14817_consen  387 ALRSLQAKWQRILDFRQLVSEKQEQIRALIKGNSAAKTQLEQSPA  431 (632)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhChH
Confidence            999999999999999999999999999999999999999987653

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

Probab=98.26  E-value=1.1e-06  Score=59.72  Aligned_cols=38  Identities=42%  Similarity=0.655  Sum_probs=34.5

Q ss_pred             cHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHhcc
Q 024453           43 PVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRVL   80 (267)
Q Consensus        43 ~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~L   80 (267)
                      .|..|+.+||++++..|+.+|+++++|+|.||..|.++
T Consensus         4 ~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~LL~~   41 (42)
T PF02845_consen    4 MVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDALLEM   41 (42)
T ss_dssp             HHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence            47899999999999999999999999999999998764

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.

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

Probab=98.23  E-value=1.7e-06  Score=58.97  Aligned_cols=38  Identities=34%  Similarity=0.606  Sum_probs=35.3

Q ss_pred             CcHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHhc
Q 024453           42 DPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRV   79 (267)
Q Consensus        42 ~~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~   79 (267)
                      ..++.|+.+||++++..++.+|++|++|+|.||..|.+
T Consensus         4 ~~v~~L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~LL~   41 (43)
T smart00546        4 EALHDLKDMFPNLDEEVIKAVLEANNGNVEATINNLLE   41 (43)
T ss_pred             HHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHc
Confidence            35889999999999999999999999999999999864

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)

>PF03474 DMA: DMRTA motif; InterPro: IPR005173 This region is found to the C terminus of the DM DNA-binding domain IPR001275 from INTERPRO []

Probab=97.39  E-value=0.00026  Score=48.96  Aligned_cols=35  Identities=23%  Similarity=0.559  Sum_probs=32.9

Q ss_pred             cHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHH
Q 024453           43 PVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRL   77 (267)
Q Consensus        43 ~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL   77 (267)
                      +++-|..+||+..+.+||.+|+.|+.|+-.||+-+
T Consensus         4 pidiL~rvFP~~kr~~Le~iL~~C~GDvv~AIE~~   38 (39)
T PF03474_consen    4 PIDILTRVFPHQKRSVLELILQRCNGDVVQAIEQF   38 (39)
T ss_pred             HHHHHHHHCCCCChHHHHHHHHHcCCcHHHHHHHh
Confidence            38999999999999999999999999999999864

DM-domain proteins with this motif are known as DMRTA proteins. The function of this region is unknown.

>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.29  E-value=0.061  Score=42.05  Aligned_cols=67  Identities=31%  Similarity=0.382  Sum_probs=50.0

Q ss_pred             HHHHHHHHHHHHhhhh-h-hhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024453          162 RILEVFERSIITNSKA-S-KELEHASLKEHLQSLLNDNQILKKAVSIQHERHLEQEQKEKEVELLKLVISQYQDQARNL  238 (267)
Q Consensus       162 RvLEafEksi~~ra~a-a-~~~En~~LKe~l~~l~~eN~iLKRAv~IQheR~~e~e~~~~E~~~Lkql~~qyqEqir~L  238 (267)
                      .|||-+|.-|....-. + +|.|...|||.-..|..|-.-      .||.|    +...+|..+||+--..+||+||.|
T Consensus         4 Ev~ekLE~KiqqAvdTI~LLQmEieELKEknn~l~~e~q~------~q~~r----eaL~~eneqlk~e~~~WQerlrsL   72 (79)
T COG3074           4 EVFEKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQN------AQHQR----EALERENEQLKEEQNGWQERLRAL   72 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhHHHHHH------HHHHH----HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3566666666665555 3 899999999887777666443      34544    567789999999999999999987

>PRK15422 septal ring assembly protein ZapB; Provisional

Probab=96.16  E-value=0.075  Score=41.99  Aligned_cols=67  Identities=27%  Similarity=0.355  Sum_probs=52.3

Q ss_pred             HHHHHHHHHHHHhhhh-h-hhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024453          162 RILEVFERSIITNSKA-S-KELEHASLKEHLQSLLNDNQILKKAVSIQHERHLEQEQKEKEVELLKLVISQYQDQARNL  238 (267)
Q Consensus       162 RvLEafEksi~~ra~a-a-~~~En~~LKe~l~~l~~eN~iLKRAv~IQheR~~e~e~~~~E~~~Lkql~~qyqEqir~L  238 (267)
                      -+|+-+|.=|-+..-. + +++|...||++-..|..|+.-++      +.|    ++..+|.++||+--..+|++||.|
T Consensus         4 EvleqLE~KIqqAvdtI~LLqmEieELKekn~~L~~e~~~~~------~~r----~~L~~en~qLk~E~~~WqerLr~L   72 (79)
T PRK15422          4 EVFEKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQNAQ------HQR----EELERENNHLKEQQNGWQERLQAL   72 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------hhH----HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4666677667665555 3 99999999999988888877543      222    567789999999999999999987

>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=95.57  E-value=0.022  Score=37.59  Aligned_cols=34  Identities=26%  Similarity=0.442  Sum_probs=29.8

Q ss_pred             CcHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHH
Q 024453           42 DPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRL   77 (267)
Q Consensus        42 ~~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL   77 (267)
                      ..|.+|..+  +.++....+||..||||++.||.-|
T Consensus         4 ~~v~~L~~m--Gf~~~~~~~AL~~~~~nve~A~~~L   37 (37)
T PF00627_consen    4 EKVQQLMEM--GFSREQAREALRACNGNVERAVDWL   37 (37)
T ss_dssp             HHHHHHHHH--TS-HHHHHHHHHHTTTSHHHHHHHH
T ss_pred             HHHHHHHHc--CCCHHHHHHHHHHcCCCHHHHHHhC
Confidence            357889999  9999999999999999999999865

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 ....

>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation

Probab=95.07  E-value=0.31  Score=37.50  Aligned_cols=60  Identities=32%  Similarity=0.431  Sum_probs=38.9

Q ss_pred             HHHHHHHHHHHHhhhh-h-hhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024453          162 RILEVFERSIITNSKA-S-KELEHASLKEHLQSLLNDNQILKKAVSIQHERHLEQEQKEKEVELLKLVISQYQDQARNL  238 (267)
Q Consensus       162 RvLEafEksi~~ra~a-a-~~~En~~LKe~l~~l~~eN~iLKRAv~IQheR~~e~e~~~~E~~~Lkql~~qyqEqir~L  238 (267)
                      .+|+-+|.=|.+..-. + ++.|+..||++-..|..+|.-|+                 +|.++||+--.+++++|+.|
T Consensus         4 E~l~~LE~ki~~aveti~~Lq~e~eeLke~n~~L~~e~~~L~-----------------~en~~L~~e~~~~~~rl~~L   65 (72)
T PF06005_consen    4 ELLEQLEEKIQQAVETIALLQMENEELKEKNNELKEENEELK-----------------EENEQLKQERNAWQERLRSL   65 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------------HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH-----------------HHHHHHHHHHHHHHHHHHHH
Confidence            4566777777665555 2 78888888877766665554443                 55556666666667776654

It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=94.72  E-value=0.63  Score=41.65  Aligned_cols=72  Identities=28%  Similarity=0.291  Sum_probs=53.1

Q ss_pred             hhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhHhHHHH-----------HHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q 024453          179 KELEHASLKEHLQSLLNDNQILKKAVSIQHERHLEQEQK-----------EKEVELLKLVISQYQDQARNLELRNYALKL  247 (267)
Q Consensus       179 ~~~En~~LKe~l~~l~~eN~iLKRAv~IQheR~~e~e~~-----------~~E~~~Lkql~~qyqEqir~LE~~NYaL~~  247 (267)
                      ++-+...|...++.+..||.+||+.=.-|--....|++-           +.|+..||..+-.|+++.|++|...--...
T Consensus        17 L~n~l~elq~~l~~l~~ENk~Lk~lq~Rq~kAL~k~e~~e~~Lpqll~~h~eEvr~Lr~~LR~~q~~~r~~~~klk~~~~   96 (194)
T PF15619_consen   17 LQNELAELQRKLQELRKENKTLKQLQKRQEKALQKYEDTEAELPQLLQRHNEEVRVLRERLRKSQEQERELERKLKDKDE   96 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            788999999999999999999998766555555566543           566677777777777777777766554444


Q ss_pred             HHH
Q 024453          248 HLQ  250 (267)
Q Consensus       248 HL~  250 (267)
                      +|.
T Consensus        97 el~   99 (194)
T PF15619_consen   97 ELL   99 (194)
T ss_pred             HHH
Confidence            444

>PF10205 KLRAQ: Predicted coiled-coil domain-containing protein; InterPro: IPR019343 This entry represents a N-terminal 100 residues long domain, which contains a conserved KLRAQ motif

Probab=94.51  E-value=0.34  Score=39.90  Aligned_cols=54  Identities=33%  Similarity=0.382  Sum_probs=40.0

Q ss_pred             HHHHHhhHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHh
Q 024453          190 LQSLLNDNQILKKAVSIQHERHLEQEQKEKEVELLKLVISQYQDQARNLELRNYALKLHLQRAQ  253 (267)
Q Consensus       190 l~~l~~eN~iLKRAv~IQheR~~e~e~~~~E~~~Lkql~~qyqEqir~LE~~NYaL~~HL~qA~  253 (267)
                      -..|-.+|.|||+||.       +.+.++.   .|+.-+-+....||++|+.|.+|.+|-+|=+
T Consensus         7 YsKLraQ~~vLKKaVi-------eEQ~k~~---~L~e~Lk~ke~~LRk~eqE~dSL~FrN~QL~   60 (102)
T PF10205_consen    7 YSKLRAQNQVLKKAVI-------EEQAKNA---ELKEQLKEKEQALRKLEQENDSLTFRNQQLT   60 (102)
T ss_pred             HHHHHHHHHHHHHHHH-------HHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455566799999996       2222333   5666888888999999999999999987643

This domain is found in a family of coiled-coil domain-containing proteins that are conserved from nematodes to humans. These proteins also contain a C-terminal TTKRSYEDQ motif domain (IPR019348 from INTERPRO). The function of these proteins is not known.

>PF09744 Jnk-SapK_ap_N: JNK_SAPK-associated protein-1; InterPro: IPR019143 This entry represents the N-terminal 200 residues of a set of proteins conserved from yeasts to humans

Probab=94.46  E-value=0.87  Score=39.77  Aligned_cols=77  Identities=30%  Similarity=0.363  Sum_probs=50.4

Q ss_pred             HHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHhhHHHHHHHHHHHHH-hhHhHHH-HHHHHHHHHHHHHHHHHHHHHH
Q 024453          161 ARILEVFERSIITNSKASKELEHASLKEHLQSLLNDNQILKKAVSIQHE-RHLEQEQ-KEKEVELLKLVISQYQDQARNL  238 (267)
Q Consensus       161 sRvLEafEksi~~ra~aa~~~En~~LKe~l~~l~~eN~iLKRAv~IQhe-R~~e~e~-~~~E~~~Lkql~~qyqEqir~L  238 (267)
                      =+|||.+|..+..+-..  +-|...|++..+.|..+..- ++...-|-+ +.-++++ -.+|.+.|...+.+.|++.|.|
T Consensus        32 V~vLE~Le~~~~~n~~~--~~e~~~L~~d~e~L~~q~~~-ek~~r~~~e~~l~~~Ed~~~~e~k~L~~~v~~Le~e~r~L  108 (158)
T PF09744_consen   32 VRVLELLESLASRNQEH--EVELELLREDNEQLETQYER-EKELRKQAEEELLELEDQWRQERKDLQSQVEQLEEENRQL  108 (158)
T ss_pred             HHHHHHHHHHHHhhhhh--hhHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            37999999988876654  44566777777777665543 333333333 3333333 5677778888888888888888


Q ss_pred             Hh
Q 024453          239 EL  240 (267)
Q Consensus       239 E~  240 (267)
                      +.
T Consensus       109 ~~  110 (158)
T PF09744_consen  109 EL  110 (158)
T ss_pred             HH
Confidence            83

Most of the proteins in this entry have a RhoGEF domain (IPR000219 from INTERPRO) at their C-terminal end.

>smart00165 UBA Ubiquitin associated domain

Probab=92.38  E-value=0.27  Score=31.85  Aligned_cols=33  Identities=24%  Similarity=0.331  Sum_probs=29.0

Q ss_pred             cHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHH
Q 024453           43 PVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRL   77 (267)
Q Consensus        43 ~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL   77 (267)
                      .|.+|..+  +.++.....+|..||+|++.|+.-|
T Consensus         4 ~v~~L~~m--Gf~~~~a~~aL~~~~~d~~~A~~~L   36 (37)
T smart00165        4 KIDQLLEM--GFSREEALKALRAANGNVERAAEYL   36 (37)
T ss_pred             HHHHHHHc--CCCHHHHHHHHHHhCCCHHHHHHHH
Confidence            46778887  8889999999999999999999765

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

>PRK10884 SH3 domain-containing protein; Provisional

Probab=92.14  E-value=2.8  Score=37.97  Aligned_cols=70  Identities=14%  Similarity=0.106  Sum_probs=48.2

Q ss_pred             hhHHHHHHHHHHHHHHhhHHHHHHHHHHHH---HhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Q 024453          179 KELEHASLKEHLQSLLNDNQILKKAVSIQH---ERHLEQEQKEKEVELLKLVISQYQDQARNLELRNYALKLHLQ  250 (267)
Q Consensus       179 ~~~En~~LKe~l~~l~~eN~iLKRAv~IQh---eR~~e~e~~~~E~~~Lkql~~qyqEqir~LE~~NYaL~~HL~  250 (267)
                      +++|...||.++..+..+..  .+.--+|.   ++.+...+...|.++|++.+.+.+.+++.||..|-.+.-..+
T Consensus        98 le~el~~l~~~l~~~~~~~~--~~~~~l~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~~~~~~~~  170 (206)
T PRK10884         98 LENQVKTLTDKLNNIDNTWN--QRTAEMQQKVAQSDSVINGLKEENQKLKNQLIVAQKKVDAANLQLDDKQRTII  170 (206)
T ss_pred             HHHHHHHHHHHHHHHHhHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66777777777777766644  22222222   234445557788889999999999999999999988875443

>cd00194 UBA Ubiquitin Associated domain

Probab=92.02  E-value=0.34  Score=31.51  Aligned_cols=34  Identities=26%  Similarity=0.409  Sum_probs=29.1

Q ss_pred             cHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHh
Q 024453           43 PVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLR   78 (267)
Q Consensus        43 ~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~   78 (267)
                      .|.+|..+  +.+.+.+..||..|++|++.||.-|.
T Consensus         4 ~v~~L~~m--Gf~~~~~~~AL~~~~~d~~~A~~~L~   37 (38)
T cd00194           4 KLEQLLEM--GFSREEARKALRATNNNVERAVEWLL   37 (38)
T ss_pred             HHHHHHHc--CCCHHHHHHHHHHhCCCHHHHHHHHh
Confidence            46777776  67799999999999999999998764

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.

>PHA02047 phage lambda Rz1-like protein

Probab=91.08  E-value=1.5  Score=36.16  Aligned_cols=53  Identities=23%  Similarity=0.342  Sum_probs=44.2

Q ss_pred             HHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhccC
Q 024453          201 KKAVSIQHERHLEQEQKEKEVELLKLVISQYQDQARNLELRNYALKLHLQRAQESS  256 (267)
Q Consensus       201 KRAv~IQheR~~e~e~~~~E~~~Lkql~~qyqEqir~LE~~NYaL~~HL~qA~~~~  256 (267)
                      .|+..|=|++-+.+   .+.+.+++..+..||+++..||.+--.=+--+++|-+.+
T Consensus        26 ~r~~g~~h~~a~~l---a~qLE~a~~r~~~~Q~~V~~l~~kae~~t~Ei~~aL~~n   78 (101)
T PHA02047         26 YRALGIAHEEAKRQ---TARLEALEVRYATLQRHVQAVEARTNTQRQEVDRALDQN   78 (101)
T ss_pred             HHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            57778888877544   578889999999999999999999888888888887743

>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6

Probab=90.71  E-value=4.3  Score=32.03  Aligned_cols=83  Identities=20%  Similarity=0.238  Sum_probs=66.7

Q ss_pred             HHHHHHHHHHhh-hhh-------hhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHH
Q 024453          164 LEVFERSIITNS-KAS-------KELEHASLKEHLQSLLNDNQILKKAVSIQHERHLEQEQKEKEVELLKLVISQYQDQA  235 (267)
Q Consensus       164 LEafEksi~~ra-~aa-------~~~En~~LKe~l~~l~~eN~iLKRAv~IQheR~~e~e~~~~E~~~Lkql~~qyqEqi  235 (267)
                      .+.+.+++..|. ...       +.++...++.+++.|..+.+.+-+.|+.--.-..+.++...|+..+|..+..+++++
T Consensus        11 ~e~v~~~l~~R~~~~~~vd~i~~ld~~~r~l~~~~e~lr~~rN~~sk~I~~~~~~~~~~~~l~~e~~~lk~~i~~le~~~   90 (108)
T PF02403_consen   11 PEEVRENLKKRGGDEEDVDEIIELDQERRELQQELEELRAERNELSKEIGKLKKAGEDAEELKAEVKELKEEIKELEEQL   90 (108)
T ss_dssp             HHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHTTCCTHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCHhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHHHHHH
Confidence            467777888774 221       777888889999999999888888887665444588889999999999999999999


Q ss_pred             HHHHhhhHHHH
Q 024453          236 RNLELRNYALK  246 (267)
Q Consensus       236 r~LE~~NYaL~  246 (267)
                      +.+|..-+.+-
T Consensus        91 ~~~e~~l~~~l  101 (108)
T PF02403_consen   91 KELEEELNELL  101 (108)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99998776653

1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....

>PF15058 Speriolin_N: Speriolin N terminus

Probab=90.57  E-value=0.24  Score=45.01  Aligned_cols=22  Identities=36%  Similarity=0.496  Sum_probs=14.5

Q ss_pred             HHHHHHHHHHHHHHhhHHHHHHH
Q 024453          181 LEHASLKEHLQSLLNDNQILKKA  203 (267)
Q Consensus       181 ~En~~LKe~l~~l~~eN~iLKRA  203 (267)
                      .||+.||+++ +|++||.-||||
T Consensus        19 ~ENeeLKKlV-rLirEN~eLksa   40 (200)
T PF15058_consen   19 RENEELKKLV-RLIRENHELKSA   40 (200)
T ss_pred             hhhHHHHHHH-HHHHHHHHHHHH
Confidence            4666666666 666666666666

>PRK09413 IS2 repressor TnpA; Reviewed

Probab=89.64  E-value=0.56  Score=38.19  Aligned_cols=32  Identities=22%  Similarity=0.245  Sum_probs=28.5

Q ss_pred             hhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Q 024453          179 KELEHASLKEHLQSLLNDNQILKKAVSIQHER  210 (267)
Q Consensus       179 ~~~En~~LKe~l~~l~~eN~iLKRAv~IQheR  210 (267)
                      .++|+..|+.++..|..||.|||+|..|=..|
T Consensus        76 ~~~ei~~L~~el~~L~~E~diLKKa~~~~~~~  107 (121)
T PRK09413         76 AMKQIKELQRLLGKKTMENELLKEAVEYGRAK  107 (121)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhchh
Confidence            67889999999999999999999999886543

>PF13747 DUF4164: Domain of unknown function (DUF4164)

Probab=88.98  E-value=10  Score=30.12  Aligned_cols=83  Identities=18%  Similarity=0.239  Sum_probs=56.2

Q ss_pred             CCCchHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHH
Q 024453          150 AADLDDARGRAARILEVFERSIITNSKASKELEHASLKEHLQSLLNDNQILKKAVSIQHERHLEQEQKEKEVELLKLVIS  229 (267)
Q Consensus       150 Asd~dDARaRAsRvLEafEksi~~ra~aa~~~En~~LKe~l~~l~~eN~iLKRAv~IQheR~~e~e~~~~E~~~Lkql~~  229 (267)
                      ...+++|-.|=.+.|..||++|..|-..  ......+.+.++.|..+..-|-..+--.-.|....+..+.|+.+   -+.
T Consensus         3 ~~~le~al~rL~~aid~LE~~v~~r~~~--~~~~~~~e~ei~~l~~dr~rLa~eLD~~~ar~~~Le~~~~Evs~---rL~   77 (89)
T PF13747_consen    3 TYSLEAALTRLEAAIDRLEKAVDRRLER--DRKRDELEEEIQRLDADRSRLAQELDQAEARANRLEEANREVSR---RLD   77 (89)
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHHHh--hhhhhhHHHHHHHHHhhHHHHHHHHHhHHHHHHHHHHHHHHHHH---HHH
Confidence            4568899999999999999999998776  11124555666666666666666666666666666666666655   555


Q ss_pred             HHHHHHHH
Q 024453          230 QYQDQARN  237 (267)
Q Consensus       230 qyqEqir~  237 (267)
                      -..|.||.
T Consensus        78 ~a~e~Ir~   85 (89)
T PF13747_consen   78 SAIETIRA   85 (89)
T ss_pred             HHHHHHHH
Confidence            55555554

>PF05010 TACC: Transforming acidic coiled-coil-containing protein (TACC); InterPro: IPR007707 This family contains the proteins TACC 1, 2 and 3, found concentrated in the centrosomes of eukaryotes which may play a conserved role in organising centrosomal microtubules

Probab=88.75  E-value=13  Score=33.89  Aligned_cols=90  Identities=29%  Similarity=0.358  Sum_probs=63.4

Q ss_pred             HHHHHHHHHHHHHhhhh-h-----hhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhHhHHHH----HHHHHHHHHHHHH
Q 024453          161 ARILEVFERSIITNSKA-S-----KELEHASLKEHLQSLLNDNQILKKAVSIQHERHLEQEQK----EKEVELLKLVISQ  230 (267)
Q Consensus       161 sRvLEafEksi~~ra~a-a-----~~~En~~LKe~l~~l~~eN~iLKRAv~IQheR~~e~e~~----~~E~~~Lkql~~q  230 (267)
                      ..|.+.|||.|...... .     .+.+...+....+.+..+-.-+-++|.=.|.|..-+.+.    ..-=.-||.-+..
T Consensus        43 ~~i~~e~Ek~i~~~i~e~~~~~~~~~~~i~~~~~erdq~~~dL~s~E~sfsdl~~ryek~K~vi~~~k~NEE~Lkk~~~e  122 (207)
T PF05010_consen   43 RKIMEEYEKTIAQMIEEKQKQKELSEAEIQKLLKERDQAYADLNSLEKSFSDLHKRYEKQKEVIEGYKKNEETLKKCIEE  122 (207)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHhhHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            46889999998886655 1     233344444455555566677888999888877544322    2222357889999


Q ss_pred             HHHHHHHHHhhhHHHHHHHH
Q 024453          231 YQDQARNLELRNYALKLHLQ  250 (267)
Q Consensus       231 yqEqir~LE~~NYaL~~HL~  250 (267)
                      |.+.|+..|+..-+|.-|-.
T Consensus       123 y~~~l~~~eqry~aLK~hAe  142 (207)
T PF05010_consen  123 YEERLKKEEQRYQALKAHAE  142 (207)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999853

The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=87.93  E-value=11  Score=35.80  Aligned_cols=30  Identities=23%  Similarity=0.123  Sum_probs=16.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 024453          213 EQEQKEKEVELLKLVISQYQDQARNLELRN  242 (267)
Q Consensus       213 e~e~~~~E~~~Lkql~~qyqEqir~LE~~N  242 (267)
                      ++.+...|++.|+..+...++|+.+|+..|
T Consensus       107 ~l~~~~~e~~sl~~q~~~~~~~L~~L~ktN  136 (314)
T PF04111_consen  107 ELIEFQEERDSLKNQYEYASNQLDRLRKTN  136 (314)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHCHHT--
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            333445556666666666666666666544

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.

>TIGR03495 phage_LysB phage lysis regulatory protein, LysB family

Probab=86.01  E-value=9.9  Score=32.65  Aligned_cols=68  Identities=16%  Similarity=0.162  Sum_probs=48.5

Q ss_pred             hhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhHhHHH-HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q 024453          179 KELEHASLKEHLQSLLNDNQILKKAVSIQHERHLEQEQ-KEKEVELLKLVISQYQDQARNLELRNYALKL  247 (267)
Q Consensus       179 ~~~En~~LKe~l~~l~~eN~iLKRAv~IQheR~~e~e~-~~~E~~~Lkql~~qyqEqir~LE~~NYaL~~  247 (267)
                      +..-+..++.+-..+..-|+-|.++ .++-++...++. ..+++.+...++.+.+.+|++|...|-.|+-
T Consensus        28 ~~~a~~~~~~~~~~l~~~~~qL~~l-~~~a~~~~~~Q~~Lr~~~~~~~~~l~~re~~i~rL~~ENe~lR~   96 (135)
T TIGR03495        28 LERANRVLKAQQAELASKANQLIVL-LALAKRNEEAQAQLRQQLAQARALLAQREQRIERLKRENEDLRR   96 (135)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCHHHHH
Confidence            4445555555655666666666555 556655554443 5778889999999999999999999998864

Members of this protein family are phage lysis regulatory protein, including the well-studied protein LysB (lysis protein B) of Enterobacteria phage P2. For members of this family, genes are found in phage or in prophage regions of bacterial genomes, typically near a phage lysozyme or phage holin.

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=85.77  E-value=6.7  Score=37.67  Aligned_cols=66  Identities=23%  Similarity=0.209  Sum_probs=42.4

Q ss_pred             HHHHHHHHHHHHHhhHHHHH-------HHHHHHHHhhHhH-HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q 024453          182 EHASLKEHLQSLLNDNQILK-------KAVSIQHERHLEQ-EQKEKEVELLKLVISQYQDQARNLELRNYALKL  247 (267)
Q Consensus       182 En~~LKe~l~~l~~eN~iLK-------RAv~IQheR~~e~-e~~~~E~~~Lkql~~qyqEqir~LE~~NYaL~~  247 (267)
                      +..-|+.+...|..+|+-|+       --+--||...-.. .....++.|++.++.|.++.||.||+.|.-|--
T Consensus        53 qL~q~etrnrdl~t~nqrl~~E~e~~Kek~e~q~~q~y~q~s~Leddlsqt~aikeql~kyiReLEQaNDdLEr  126 (333)
T KOG1853|consen   53 QLDQLETRNRDLETRNQRLTTEQERNKEKQEDQRVQFYQQESQLEDDLSQTHAIKEQLRKYIRELEQANDDLER  126 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHH
Confidence            34444555555555555443       3344444333221 235678999999999999999999999987754

>KOG4588 consensus Predicted ubiquitin-conjugating enzyme [Posttranslational modification, protein turnover, chaperones]

Probab=85.52  E-value=1.2  Score=41.88  Aligned_cols=32  Identities=31%  Similarity=0.420  Sum_probs=29.6

Q ss_pred             cCCCCCHHHHHHHHhhcchhHHHHHHHHhccc
Q 024453           50 MFPDVDPEVVKSVLGEHDNKIEDAIDRLRVLS   81 (267)
Q Consensus        50 lFP~md~q~le~aLe~cgndlDaAIksL~~L~   81 (267)
                      |||.||-+++|-||++.=-++|.+|.-|....
T Consensus         1 Mfp~~Dye~ie~VlranlgavD~tid~llaM~   32 (267)
T KOG4588|consen    1 MFPYDDYEDIEGVLRANLGAVDRTIDDLLAMF   32 (267)
T ss_pred             CCCcchHHHHHHHHHHhcchHHHHHHHHHHhc
Confidence            79999999999999998889999999987765

>PF07926 TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro: IPR012929 This domain is found in a number of proteins, including TPR protein (P12270 from SWISSPROT) and yeast myosin-like proteins 1 (MLP1, Q02455 from SWISSPROT) and 2 (MLP2, P40457 from SWISSPROT)

Probab=84.55  E-value=22  Score=29.50  Aligned_cols=68  Identities=26%  Similarity=0.276  Sum_probs=37.1

Q ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHhhHhHHH-HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHH
Q 024453          182 EHASLKEHLQSLLNDNQILKKAVSIQHERHLEQEQ-KEKEVELLKLVISQYQDQARNLELRNYALKLHL  249 (267)
Q Consensus       182 En~~LKe~l~~l~~eN~iLKRAv~IQheR~~e~e~-~~~E~~~Lkql~~qyqEqir~LE~~NYaL~~HL  249 (267)
                      +...||+++..+..+..-|+..+..........+. -..+...|+.-+...+.++.-|...|=-|--+|
T Consensus        60 ~L~~lr~e~~~~~~~~~~l~~~~~~a~~~l~~~e~sw~~qk~~le~e~~~~~~r~~dL~~QN~lLh~Ql  128 (132)
T PF07926_consen   60 ELQQLREELQELQQEINELKAEAESAKAELEESEASWEEQKEQLEKELSELEQRIEDLNEQNKLLHDQL  128 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455555555555555555555555555544443 244555556666666666666666665554444

These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores [, , ]. TPR is thought to be a component of nuclear pore complex- attached intranuclear filaments [], and is implicated in nuclear protein import []. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex []. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity []. ; GO: 0006606 protein import into nucleus, 0005643 nuclear pore

>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch

Probab=84.00  E-value=24  Score=29.50  Aligned_cols=98  Identities=20%  Similarity=0.162  Sum_probs=59.8

Q ss_pred             chHHHHHHHHHHHHHHHHHHHhhhh-h-hhHHHHHHHHHHHHHHhhHHHHHHHHHHHHH-------hhH-hHHHHHHHHH
Q 024453          153 LDDARGRAARILEVFERSIITNSKA-S-KELEHASLKEHLQSLLNDNQILKKAVSIQHE-------RHL-EQEQKEKEVE  222 (267)
Q Consensus       153 ~dDARaRAsRvLEafEksi~~ra~a-a-~~~En~~LKe~l~~l~~eN~iLKRAv~IQhe-------R~~-e~e~~~~E~~  222 (267)
                      |-.-|.|-.+..|.++.-+..-... . ++..+..||++++.+.++...++.-..--..       ..+ +-++.++-..
T Consensus        43 Ll~~~~r~~~~~e~l~~~~~~l~~d~~~l~~~~~rL~~~~~~~ere~~~~~~~~~~l~~~~~~~~~~~k~~kee~~klk~  122 (151)
T PF11559_consen   43 LLQQRDRDMEQREDLSDKLRRLRSDIERLQNDVERLKEQLEELERELASAEEKERQLQKQLKSLEAKLKQEKEELQKLKN  122 (151)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456778888888888877775444 2 5555556666665555555544332221111       111 1222333333


Q ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHH
Q 024453          223 LLKLVISQYQDQARNLELRNYALKLHLQ  250 (267)
Q Consensus       223 ~Lkql~~qyqEqir~LE~~NYaL~~HL~  250 (267)
                      .+.+...||.-.||+-|...-.|.-+|.
T Consensus       123 ~~~~~~tq~~~e~rkke~E~~kLk~rL~  150 (151)
T PF11559_consen  123 QLQQRKTQYEHELRKKEREIEKLKERLN  150 (151)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            5667888999999999999998888775

pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.

>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family

Probab=83.79  E-value=11  Score=38.38  Aligned_cols=59  Identities=27%  Similarity=0.266  Sum_probs=28.5

Q ss_pred             hhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024453          179 KELEHASLKEHLQSLLNDNQILKKAVSIQHERHLEQEQKEKEVELLKLVISQYQDQARNLE  239 (267)
Q Consensus       179 ~~~En~~LKe~l~~l~~eN~iLKRAv~IQheR~~e~e~~~~E~~~Lkql~~qyqEqir~LE  239 (267)
                      +.+||+.||++.++|.+...-+..  .||..-..+..+..+|.++|+..+.+.+.+|..|+
T Consensus        78 l~~~N~~l~~eN~~L~~r~~~id~--~i~~av~~~~~~~~~~~~ql~~~~~~~~~~l~~l~  136 (472)
T TIGR03752        78 LISENEALKAENERLQKREQSIDQ--QIQQAVQSETQELTKEIEQLKSERQQLQGLIDQLQ  136 (472)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhHHH--HHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455566666555555442222221  23433333334445555555555555555555554

Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.

>PF13851 GAS: Growth-arrest specific micro-tubule binding

Probab=83.59  E-value=16  Score=32.79  Aligned_cols=68  Identities=16%  Similarity=0.275  Sum_probs=43.2

Q ss_pred             hhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHh
Q 024453          179 KELEHASLKEHLQSLLNDNQILKKAVSIQHERHLEQEQKEKEVELLKLVISQYQDQARNLELRNYALKLHLQRAQ  253 (267)
Q Consensus       179 ~~~En~~LKe~l~~l~~eN~iLKRAv~IQheR~~e~e~~~~E~~~Lkql~~qyqEqir~LE~~NYaL~~HL~qA~  253 (267)
                      +..||..|++-|..+..|+.-|++-+.- +      +.-...++.+|..+...+++|+.|+..+-+|.....+-.
T Consensus        53 i~~eN~~L~epL~~a~~e~~eL~k~L~~-y------~kdK~~L~~~k~rl~~~ek~l~~Lk~e~evL~qr~~kle  120 (201)
T PF13851_consen   53 ISQENKRLSEPLKKAEEEVEELRKQLKN-Y------EKDKQSLQNLKARLKELEKELKDLKWEHEVLEQRFEKLE  120 (201)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHH-H------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5566777777777777777777665542 2      222345666666677777777777777777766655443

>PF15058 Speriolin_N: Speriolin N terminus

Probab=83.12  E-value=2.9  Score=38.17  Aligned_cols=37  Identities=27%  Similarity=0.429  Sum_probs=29.0

Q ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHH
Q 024453          183 HASLKEHLQSLLNDNQILKKAVSIQHERHLEQEQKEKEVELLKLVISQ  230 (267)
Q Consensus       183 n~~LKe~l~~l~~eN~iLKRAv~IQheR~~e~e~~~~E~~~Lkql~~q  230 (267)
                      .+.|.+|+++|.+||.=||+-|..=           +|.+.||.++.|
T Consensus         7 yeGlrhqierLv~ENeeLKKlVrLi-----------rEN~eLksaL~e   43 (200)
T PF15058_consen    7 YEGLRHQIERLVRENEELKKLVRLI-----------RENHELKSALGE   43 (200)
T ss_pred             hHHHHHHHHHHHhhhHHHHHHHHHH-----------HHHHHHHHHHHH
Confidence            4568999999999999999988653           456677777554

>PF10473 CENP-F_leu_zip: Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; InterPro: IPR019513 Cenp-F, a centromeric kinetochore, microtubule-binding protein consisting of two 1,600-amino acid-long coils, is essential for the full functioning of the mitotic checkpoint pathway [, ]

Probab=82.99  E-value=30  Score=29.88  Aligned_cols=65  Identities=26%  Similarity=0.281  Sum_probs=49.6

Q ss_pred             hhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHh
Q 024453          179 KELEHASLKEHLQSLLNDNQILKKAVSIQHERHLEQEQKEKEVELLKLVISQYQDQARNLELRNYALKLHLQRAQ  253 (267)
Q Consensus       179 ~~~En~~LKe~l~~l~~eN~iLKRAv~IQheR~~e~e~~~~E~~~Lkql~~qyqEqir~LE~~NYaL~~HL~qA~  253 (267)
                      -++|+..|++++..+..+.+.|.-          |+.....|...|.+.+.+-|++|..||..|..+.-||+-.-
T Consensus        50 ~k~eie~L~~el~~lt~el~~L~~----------EL~~l~sEk~~L~k~lq~~q~kv~eLE~~~~~~~~~l~~~E  114 (140)
T PF10473_consen   50 SKAEIETLEEELEELTSELNQLEL----------ELDTLRSEKENLDKELQKKQEKVSELESLNSSLENLLQEKE  114 (140)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            466777788888777777766542          44555677778888888899999999999999998887654

There are several leucine-rich repeats along the sequence of LEK1 that are considered to be zippers, though they do not appear to be binding DNA directly in this instance []. ; GO: 0008134 transcription factor binding, 0042803 protein homodimerization activity, 0045502 dynein binding

>PF07058 Myosin_HC-like: Myosin II heavy chain-like; InterPro: IPR009768 This family represents a conserved region within a number of myosin II heavy chain-like proteins that seem to be specific to Arabidopsis thaliana

Probab=82.08  E-value=13  Score=36.38  Aligned_cols=70  Identities=24%  Similarity=0.361  Sum_probs=52.5

Q ss_pred             hhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhH--hHHHHHHHHHHHHHH----------HHHHHHHHHHHHhhhHHHH
Q 024453          179 KELEHASLKEHLQSLLNDNQILKKAVSIQHERHL--EQEQKEKEVELLKLV----------ISQYQDQARNLELRNYALK  246 (267)
Q Consensus       179 ~~~En~~LKe~l~~l~~eN~iLKRAv~IQheR~~--e~e~~~~E~~~Lkql----------~~qyqEqir~LE~~NYaL~  246 (267)
                      +|-.|-.|+.|++....||.||-+.     .|||  |.|...|-+++|...          |-.||-|+..|-..--.|-
T Consensus         5 ~QN~N~EL~kQiEIcqEENkiLdK~-----hRQKV~EVEKLsqTi~ELEEaiLagGaaaNavrdYqrq~~elneEkrtLe   79 (351)
T PF07058_consen    5 VQNQNQELMKQIEICQEENKILDKM-----HRQKVLEVEKLSQTIRELEEAILAGGAAANAVRDYQRQVQELNEEKRTLE   79 (351)
T ss_pred             hhhhcHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5667889999999999999999885     3776  666677777777654          4578888877766666666


Q ss_pred             HHHHHHh
Q 024453          247 LHLQRAQ  253 (267)
Q Consensus       247 ~HL~qA~  253 (267)
                      --|-.|.
T Consensus        80 RELARaK   86 (351)
T PF07058_consen   80 RELARAK   86 (351)
T ss_pred             HHHHHhh
Confidence            6665554

>PRK03918 chromosome segregation protein; Provisional

Probab=81.31  E-value=71  Score=33.47  Aligned_cols=31  Identities=16%  Similarity=0.347  Sum_probs=21.7

Q ss_pred             HHHHHhcCCCchHHHHHHHHHHHHHHHHHHH
Q 024453          143 FVHEMMSAADLDDARGRAARILEVFERSIIT  173 (267)
Q Consensus       143 ~V~EM~~Asd~dDARaRAsRvLEafEksi~~  173 (267)
                      ++.++.....++.+..++..+...++..+..
T Consensus       150 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  180 (880)
T PRK03918        150 VVRQILGLDDYENAYKNLGEVIKEIKRRIER  180 (880)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4567777777777777777777766666544

>PF10226 DUF2216: Uncharacterized conserved proteins (DUF2216); InterPro: IPR019359 Proteins in this entry are found in Metazoa and contain a coiled-coil domain

Probab=81.28  E-value=9.1  Score=34.91  Aligned_cols=63  Identities=29%  Similarity=0.382  Sum_probs=45.1

Q ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHH-HhhHhHHHHHHHH--------HHHHHHHHHHHHHHHHHHhhhHHH
Q 024453          182 EHASLKEHLQSLLNDNQILKKAVSIQH-ERHLEQEQKEKEV--------ELLKLVISQYQDQARNLELRNYAL  245 (267)
Q Consensus       182 En~~LKe~l~~l~~eN~iLKRAv~IQh-eR~~e~e~~~~E~--------~~Lkql~~qyqEqir~LE~~NYaL  245 (267)
                      |+.+||+-.++|..||+=|+-.-.+.- .|+|--. ..+|-        .-++|-|.+|+.+|+.||..--.|
T Consensus        56 EIR~LKe~NqkLqedNqELRdLCCFLDddRqKgrk-larEWQrFGryta~vmr~eV~~Y~~KL~eLE~kq~~L  127 (195)
T PF10226_consen   56 EIRGLKEVNQKLQEDNQELRDLCCFLDDDRQKGRK-LAREWQRFGRYTASVMRQEVAQYQQKLKELEDKQEEL  127 (195)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHcccchhHHHhHH-HhHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            889999999999999999987776654 3554322 23332        345778888999999887765554

Some annotation suggests it might be PKR, the Hepatitis delta antigen-interacting protein A, but this could not be confirmed.

>PLN02678 seryl-tRNA synthetase

Probab=80.87  E-value=19  Score=36.19  Aligned_cols=79  Identities=18%  Similarity=0.101  Sum_probs=51.7

Q ss_pred             hhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhccCCC
Q 024453          179 KELEHASLKEHLQSLLNDNQILKKAVSIQHERHLEQEQKEKEVELLKLVISQYQDQARNLELRNYALKLHLQRAQESSSI  258 (267)
Q Consensus       179 ~~~En~~LKe~l~~l~~eN~iLKRAv~IQheR~~e~e~~~~E~~~Lkql~~qyqEqir~LE~~NYaL~~HL~qA~~~~~~  258 (267)
                      +.+|-..|+.+++.|..+.+.+-+.+..=..-..+.++...|+++||+.+.+.+++++.+|..-+.+-+         .+
T Consensus        38 ld~~~r~l~~~~e~lr~erN~~sk~I~~~k~~~~~~~~l~~~~~~Lk~ei~~le~~~~~~~~~l~~~~~---------~i  108 (448)
T PLN02678         38 LDKEWRQRQFELDSLRKEFNKLNKEVAKLKIAKEDATELIAETKELKKEITEKEAEVQEAKAALDAKLK---------TI  108 (448)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------hC
Confidence            444555566666666666666666665311122355667788889999999999999988887774322         25


Q ss_pred             CCCCCCCC
Q 024453          259 PRQFHPDI  266 (267)
Q Consensus       259 ~g~f~PDV  266 (267)
                      |-.-||||
T Consensus       109 PNi~~~~V  116 (448)
T PLN02678        109 GNLVHDSV  116 (448)
T ss_pred             CCCCCccC
Confidence            66666766

---

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
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-09
2dhy_A	67	CUE domain-containing protein 1; structural genomi	7e-05

>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 = 55.6 bits (133), Expect = 6e-09
 Identities = 43/269 (15%), Positives = 79/269 (29%), Gaps = 61/269 (22%)

Query: 46  FLLQMFP-------DV-DPEVVKSVLGEHDN--KI------EDAIDRLRVLSFSNISERI 89
              + +        +V + +   +     +   KI      +   D L   + ++IS   
Sbjct: 238 LKSKPYENCLLVLLNVQNAKAWNAF----NLSCKILLTTRFKQVTDFLSAATTTHISLDH 293

Query: 90  KSQGLEPT-IIGNFSAVPGESATSCSQMSEEEVRSA--HTNFCGENITDGSK----WVDL 142
            S  L P  +                 +  E + +     +   E+I DG      W  +
Sbjct: 294 HSMTLTPDEVKSLLLKYLD---CRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHV 350

Query: 143 FVHEM-----MSAADLDDARGRAA-RILEVFERSI-IT--------NSKASKELEHASLK 187
              ++      S   L+ A  R     L VF  S  I               ++     K
Sbjct: 351 NCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNK 410

Query: 188 EHLQSLLNDNQILKKAVSIQHERHLE-QEQKEKEVELLKLVISQYQ-------DQARNLE 239
            H  SL+      +  +SI    +LE + + E E  L + ++  Y        D      
Sbjct: 411 LHKYSLVEKQP-KESTISI-PSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPY 468

Query: 240 LRNYA---LKLHL---QRAQESSSIPRQF 262
           L  Y    +  HL   +  +  +     F
Sbjct: 469 LDQYFYSHIGHHLKNIEHPERMTLFRMVF 497

>2dhy_A CUE domain-containing protein 1; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 67

 Score = 39.3 bits (91), Expect = 7e-05
 Identities = 9/44 (20%), Positives = 24/44 (54%)

Query: 41 DDPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRVLSFSN 84
          +  +     MFP++D ++++ VL  +   ++  ID+L  ++  +
Sbjct: 19 NQAMDDFKTMFPNMDYDIIECVLRANSGAVDATIDQLLQMNLES 62

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	267
2dhy_A	67	CUE domain-containing protein 1; structural genomi	99.01
1wgl_A	59	TOLL-interacting protein; CUE domain, structural g	98.97
1p3q_Q	54	VPS9P, vacuolar protein sorting-associated protein	97.95
1otr_A	49	Protein CUE2; protein-protein complex, cell cycle;	97.64
2di0_A	71	Activating signal cointegrator 1 complex subunit 2	96.64
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	96.37
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	94.9
1z96_A	40	DNA-damage, UBA-domain protein MUD1; ubiquitin, th	94.23
2v66_B	111	Nuclear distribution protein NUDE-like 1; structur	94.11
1vg5_A	73	RSGI RUH-014, rhomboid family protein; UBA domain,	93.84
2jy5_A	52	Ubiquilin-1; UBA, alternative splicing, cytoplasm,	92.44
2knz_A	53	Ubiquilin-4; cytoplasm, endoplasmic reticulum, nuc	92.43
2cpw_A	64	CBL-interacting protein STS-1 variant; ubiquitin a	92.41
2dae_A	75	KIAA0733 protein; mitogen-activated protein kinase	92.24
1vej_A	74	Riken cDNA 4931431F19; UBA domain, three helix bun	92.15
2dak_A	63	Ubiquitin carboxyl-terminal hydrolase 5; isopeptid	92.12
2g3q_A	43	Protein YBL047C; endocytosis, solution structure,	91.94
2dah_A	54	Ubiquilin-3; UBA domain, structural genomics, NPPS	90.87
1wji_A	63	Tudor domain containing protein 3; UBA domain, str	90.68
2bwb_A	46	Ubiquitin-like protein DSK2; UBA, signaling protei	90.61
1ify_A	49	HHR23A, UV excision repair protein RAD23 homolog A	90.21
1wr1_B	58	Ubiquitin-like protein DSK2; UBA domain, UBA-ubiqu	88.32
1wj7_A	104	Hypothetical protein (RSGI RUH-015); UBA domain, u	88.23
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	88.0
2ejs_A	58	Autocrine motility factor receptor, isoform 2; CUE	87.91
2cp9_A	64	EF-TS, EF-TSMT, elongation factor TS, mitochondria	87.36
2ekf_A	61	Ancient ubiquitous protein 1; CUE, ubiquitin ligas	86.43
1whc_A	64	RSGI RUH-027, UBA/UBX 33.3 kDa protein; UBA domain	86.39
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	86.23
1veg_A	83	NEDD8 ultimate buster-1; ubiquitin associated doma	83.02
4g3o_A	58	E3 ubiquitin-protein ligase AMFR; all-helical stru	82.75
2crn_A	64	Ubash3A protein; compact three-helix bundle, struc	82.63
1dv0_A	47	DNA repair protein HHR23A; helical bundle, DNA bin	81.82
2ekk_A	47	UBA domain from E3 ubiquitin-protein ligase HUWE1;	81.2

>2dhy_A CUE domain-containing protein 1; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.01  E-value=1.7e-10  Score=86.14  Aligned_cols=45  Identities=20%  Similarity=0.463  Sum_probs=41.7

Q ss_pred             CCcHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHhccccccc
Q 024453           41 DDPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRVLSFSNI   85 (267)
Q Consensus        41 ~~~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~L~L~sa   85 (267)
                      +..+++|+.+||+||+++|+.+|++||+|+|+||++|.++...+.
T Consensus        19 ~~~v~~L~~MFP~lD~~vI~~vL~a~~G~vd~aId~LL~ms~~~~   63 (67)
T 2dhy_A           19 NQAMDDFKTMFPNMDYDIIECVLRANSGAVDATIDQLLQMNLESG   63 (67)
T ss_dssp             HHHHHHHHHHCSSSCHHHHHHHHHHHTSCHHHHHHHHHHHHHCSS
T ss_pred             HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHhcCCCCC
Confidence            667899999999999999999999999999999999999887653

>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=98.97  E-value=3.6e-10  Score=82.30  Aligned_cols=46  Identities=26%  Similarity=0.461  Sum_probs=42.1

Q ss_pred             CCcHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHhccccccch
Q 024453           41 DDPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRVLSFSNIS   86 (267)
Q Consensus        41 ~~~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~L~L~sa~   86 (267)
                      +.-+.+|+.+||+||+++|+.+|++|++|+|.||+.|.++...+..
T Consensus        10 ee~l~~L~emFP~ld~~~I~~vL~a~~gdvd~aI~~LL~m~~~~~~   55 (59)
T 1wgl_A           10 EEDLKAIQDMFPNMDQEVIRSVLEAQRGNKDAAINSLLQMGEEPSG   55 (59)
T ss_dssp             HHHHHHHHHHCSSSCHHHHHHHHTTTTTCHHHHHHHHHHSSCCCCS
T ss_pred             HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcCcCCCCC
Confidence            4458999999999999999999999999999999999999887653

>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=97.95  E-value=1.7e-06  Score=62.36  Aligned_cols=39  Identities=33%  Similarity=0.578  Sum_probs=30.1

Q ss_pred             CcHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHhcc
Q 024453           42 DPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRVL   80 (267)
Q Consensus        42 ~~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~L   80 (267)
                      ..+..|+.+||+||.+||+.+|++++.++|+||.+|.++
T Consensus        14 ~~~~~L~~MFP~lD~evI~~Vl~a~~G~~~~~IdaLLqm   52 (54)
T 1p3q_Q           14 DTLNTLQNMFPDMDPSLIEDVCIAAASRIGPCVDALLSL   52 (54)
T ss_dssp             HHHHHHHHHSTTSCHHHHHHHHHHSCC--CGGGC-----
T ss_pred             HHHHHHHHHcccCCHHHHHHHHHHcCCCHHHHHHHHHhh
Confidence            347889999999999999999999999999999999775

>1otr_A Protein CUE2; protein-protein complex, cell cycle; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.4

Probab=97.64  E-value=3.5e-05  Score=54.30  Aligned_cols=37  Identities=27%  Similarity=0.409  Sum_probs=34.9

Q ss_pred             HHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHhcc
Q 024453           44 VSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRVL   80 (267)
Q Consensus        44 ~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~L   80 (267)
                      +..|..+||..+...+..+|+.|++|+|.||..|.+.
T Consensus         8 v~~L~EMFP~~~~~~ik~~L~~~~Gd~d~Ai~~LL~~   44 (49)
T 1otr_A            8 LSILMDMFPAISKSKLQVHLLENNNDLDLTIGLLLKE   44 (49)
T ss_dssp             HHHHHHHCSSSCHHHHHHHHHHTTTCSHHHHHHHHHH
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHhc
Confidence            6789999999999999999999999999999998774

>2di0_A Activating signal cointegrator 1 complex subunit 2; ASCC2, CUE domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.4

Probab=96.64  E-value=0.0015  Score=49.30  Aligned_cols=39  Identities=18%  Similarity=0.267  Sum_probs=37.3

Q ss_pred             CCcHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHhc
Q 024453           41 DDPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRV   79 (267)
Q Consensus        41 ~~~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~   79 (267)
                      .+.+.+++.|||++....+++.|+.+|+|++.+|-.|.+
T Consensus        14 ~s~I~qV~DLfPdLG~gfi~~~L~~y~~nvE~vin~LLE   52 (71)
T 2di0_A           14 DSLISQVKDLLPDLGEGFILACLEYYHYDPEQVINNILE   52 (71)
T ss_dssp             HHHHHHHHHHCCSSCHHHHHHHHHHTTTCHHHHHHHHHT
T ss_pred             HHHHHHHHHHcccCCHHHHHHHHHHhCCCHHHHHHHHHc
Confidence            667999999999999999999999999999999999987

>2jee_A YIIU; FTSZ, septum, coiled-coil, cell division, cell cycle, hypothetical protein; 2.8A {Escherichia coli}

Probab=96.37  E-value=0.043  Score=42.32  Aligned_cols=67  Identities=24%  Similarity=0.303  Sum_probs=54.0

Q ss_pred             HHHHHHHHHHHHhhhh-h-hhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024453          162 RILEVFERSIITNSKA-S-KELEHASLKEHLQSLLNDNQILKKAVSIQHERHLEQEQKEKEVELLKLVISQYQDQARNL  238 (267)
Q Consensus       162 RvLEafEksi~~ra~a-a-~~~En~~LKe~l~~l~~eN~iLKRAv~IQheR~~e~e~~~~E~~~Lkql~~qyqEqir~L  238 (267)
                      -+|+-+|.=|-+..-. + ++.|+..||++-..|..||.-++.-          .+...+|.++||+-...+|++|+.|
T Consensus         6 ElleqLE~KIq~avdtI~lLqmEieELKekN~~L~~e~~e~~~~----------~~~L~~en~qLk~E~~~wq~Rl~~L   74 (81)
T 2jee_A            6 EVFEKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQNAQHQ----------REELERENNHLKEQQNGWQERLQAL   74 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh----------hHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4677777777765555 3 8999999999999999998876542          2567789999999999999999987

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}

Probab=94.90  E-value=0.51  Score=41.23  Aligned_cols=73  Identities=19%  Similarity=0.175  Sum_probs=52.5

Q ss_pred             hHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh-hHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Q 024453          180 ELEHASLKEHLQSLLNDNQILKKAVSIQHER-HLEQEQKEKEVELLKLVISQYQDQARNLELRNYALKLHLQRA  252 (267)
Q Consensus       180 ~~En~~LKe~l~~l~~eN~iLKRAv~IQheR-~~e~e~~~~E~~~Lkql~~qyqEqir~LE~~NYaL~~HL~qA  252 (267)
                      .+-+..|+.++.+|..|..-+|.=+..++.- .+.....+.|+..|+....+++.+||.||+.|.-|----|.+
T Consensus        55 Ek~~~~L~~~~~~L~~E~e~~k~K~~~~~~e~~~~~~~Lq~el~~l~~~~~~l~~~ireLEq~NDdlEr~~R~~  128 (189)
T 2v71_A           55 EQRNRDLQADNQRLKYEVEALKEKLEHQYAQSYKQVSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKRAT  128 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            3445666667777777776666555444322 334556789999999999999999999999999886655543

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

Probab=94.23  E-value=0.065  Score=34.35  Aligned_cols=34  Identities=21%  Similarity=0.310  Sum_probs=30.5

Q ss_pred             CcHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHH
Q 024453           42 DPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRL   77 (267)
Q Consensus        42 ~~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL   77 (267)
                      ..|.+|..+  +.++....+||..|++|++.||..|
T Consensus         6 ~~i~~L~~m--Gf~~~~a~~AL~~~~~n~e~A~~~L   39 (40)
T 1z96_A            6 SKIAQLVSM--GFDPLEAAQALDAANGDLDVAASFL   39 (40)
T ss_dssp             HHHHHHHHT--TCCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHHc--CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            357889998  8999999999999999999999876

>2v66_B Nuclear distribution protein NUDE-like 1; structural protein, developmental protein, structural protei phosphorylation, transport, microtubule; 2.10A {Homo sapiens}

Probab=94.11  E-value=0.49  Score=38.26  Aligned_cols=68  Identities=19%  Similarity=0.167  Sum_probs=51.7

Q ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHH-hhHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Q 024453          183 HASLKEHLQSLLNDNQILKKAVSIQHE-RHLEQEQKEKEVELLKLVISQYQDQARNLELRNYALKLHLQ  250 (267)
Q Consensus       183 n~~LKe~l~~l~~eN~iLKRAv~IQhe-R~~e~e~~~~E~~~Lkql~~qyqEqir~LE~~NYaL~~HL~  250 (267)
                      +..|+....+|..|.--+|.=+.-++. -.+..-..+.|+.+|+.....|+.+||.||+.|.-|----|
T Consensus         5 ~rdL~~~~~~L~~E~e~~k~K~~~~~~e~~~~~~~Lq~El~~lr~~~~~l~~~iReLEq~NDDLER~~R   73 (111)
T 2v66_B            5 NRDLQADNQRLKYEVEALKEKLEHQYAQSYKQVSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKR   73 (111)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHH
Confidence            456777777777777777766655432 23344557899999999999999999999999998865544

>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=93.84  E-value=0.068  Score=40.12  Aligned_cols=37  Identities=22%  Similarity=0.355  Sum_probs=33.3

Q ss_pred             CCcHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHhc
Q 024453           41 DDPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRV   79 (267)
Q Consensus        41 ~~~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~   79 (267)
                      +..|.+|..|  +++...+.+||..|++|++.|+..|..
T Consensus        30 ee~I~~L~eM--GF~r~~a~~AL~~~~~nve~Ave~Ll~   66 (73)
T 1vg5_A           30 EEQIQKLVAM--GFDRTQVEVALAAADDDLTVAVEILMS   66 (73)
T ss_dssp             HHHHHHHHTT--TCCHHHHHHHHHHHTSCHHHHHHHHHT
T ss_pred             HHHHHHHHHc--CCCHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            4568899988  789999999999999999999999876

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

Probab=92.44  E-value=0.16  Score=35.24  Aligned_cols=36  Identities=25%  Similarity=0.228  Sum_probs=32.1

Q ss_pred             CcHHHHHhcCCCC-CHHHHHHHHhhcchhHHHHHHHHhc
Q 024453           42 DPVSFLLQMFPDV-DPEVVKSVLGEHDNKIEDAIDRLRV   79 (267)
Q Consensus        42 ~~~~~L~~lFP~m-d~q~le~aLe~cgndlDaAIksL~~   79 (267)
                      .-|.+|..|  +. |.+...+||..||+|++.||..|..
T Consensus        14 ~~l~~L~~M--GF~~~~~~~~AL~~t~gn~e~A~e~L~~   50 (52)
T 2jy5_A           14 QQLEQLSAM--GFLNREANLQALIATGGDINAAIERLLG   50 (52)
T ss_dssp             HHHHHHHHT--TCCCHHHHHHHHHHHTTCHHHHHHHHTT
T ss_pred             HHHHHHHHc--CCCCHHHHHHHHHHhCCCHHHHHHHHHh
Confidence            458999998  78 9999999999999999999998854

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

Probab=92.43  E-value=0.14  Score=35.61  Aligned_cols=36  Identities=25%  Similarity=0.223  Sum_probs=32.0

Q ss_pred             CcHHHHHhcCCCC-CHHHHHHHHhhcchhHHHHHHHHhc
Q 024453           42 DPVSFLLQMFPDV-DPEVVKSVLGEHDNKIEDAIDRLRV   79 (267)
Q Consensus        42 ~~~~~L~~lFP~m-d~q~le~aLe~cgndlDaAIksL~~   79 (267)
                      .-|.+|..|  +. |.+...+||..||+|++.||..|..
T Consensus        13 ~~l~~L~~M--GF~~~~~~~~AL~~t~gnve~Ave~L~~   49 (53)
T 2knz_A           13 QQLEQLNSM--GFINREANLQALIATGGDINAAIERLLG   49 (53)
T ss_dssp             HHHHHHHTT--TCCCHHHHHHHHHHHTSCHHHHHHHHHH
T ss_pred             HHHHHHHHc--CCCCHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            347888888  67 9999999999999999999999876

>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=92.41  E-value=0.43  Score=34.50  Aligned_cols=51  Identities=20%  Similarity=0.235  Sum_probs=40.5

Q ss_pred             CCcccccCCCCCCCCCCCCcHHHHHhcCCCCCHHHHHHHHhhcch-hHHHHHHHHhc
Q 024453           24 AKRSRCSTFGSLVRSGSDDPVSFLLQMFPDVDPEVVKSVLGEHDN-KIEDAIDRLRV   79 (267)
Q Consensus        24 sKR~Rcsss~sp~r~~~~~~~~~L~~lFP~md~q~le~aLe~cgn-dlDaAIksL~~   79 (267)
                      +||.+-....   ....+..|.+|..|  ++++....+||..||| |++.|+.-|.+
T Consensus         6 ~~r~~t~~ya---~~~~e~~i~~L~~M--GF~~~~a~~AL~~t~~~nve~A~ewL~~   57 (64)
T 2cpw_A            6 SGRNRQQRPG---TIKHGSALDVLLSM--GFPRARAQKALASTGGRSVQTACDWLFS   57 (64)
T ss_dssp             CSCCSCCSSC---SSSCCCHHHHHHHH--TCCHHHHHHHHHHTTTSCHHHHHHHHHS
T ss_pred             ccchhhhccc---ccCCHHHHHHHHHc--CCCHHHHHHHHHHcCCCCHHHHHHHHHh
Confidence            6776543322   22346789999998  7889999999999998 99999999976

>2dae_A KIAA0733 protein; mitogen-activated protein kinase kinase kinase 7 interacting protein 2, MAP3K7IP2, CUE domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=92.24  E-value=0.099  Score=39.78  Aligned_cols=37  Identities=24%  Similarity=0.320  Sum_probs=35.0

Q ss_pred             cHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHhc
Q 024453           43 PVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRV   79 (267)
Q Consensus        43 ~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~   79 (267)
                      +++.|+..||.+...||...+-+.++++|+.|..|.+
T Consensus        13 vfheLkQrFPEvPd~VVsqc~~qN~~Nl~aC~~~L~q   49 (75)
T 2dae_A           13 VLHDLRQKFPEVPEVVVSRCMLQNNNNLDACCAVLSQ   49 (75)
T ss_dssp             HHHHHHHHSSSSCHHHHHHHHTTTTSCSHHHHHHHHH
T ss_pred             HHHHHHHhcccCcHHHHHHHHHHhccCHHHHHHHHHH
Confidence            4899999999999999999999999999999999976

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

Probab=92.15  E-value=0.15  Score=38.41  Aligned_cols=36  Identities=19%  Similarity=0.181  Sum_probs=31.6

Q ss_pred             CcHHHHHhcCCCC-CHHHHHHHHhhcchhHHHHHHHHhc
Q 024453           42 DPVSFLLQMFPDV-DPEVVKSVLGEHDNKIEDAIDRLRV   79 (267)
Q Consensus        42 ~~~~~L~~lFP~m-d~q~le~aLe~cgndlDaAIksL~~   79 (267)
                      .-|.+|..|  ++ |.+...+||..+++|++.||..|..
T Consensus        31 ~qi~qL~eM--GF~dr~~~~~AL~~t~Gnve~Ave~L~~   67 (74)
T 1vej_A           31 QELEELKAL--GFANRDANLQALVATDGDIHAAIEMLLG   67 (74)
T ss_dssp             HHHHHHHHH--TCCCHHHHHHHHHHTTSCHHHHHHHHHT
T ss_pred             HHHHHHHHc--CCCcHHHHHHHHHHhCCCHHHHHHHHHh
Confidence            357888888  54 7899999999999999999999986

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

Probab=92.12  E-value=0.1  Score=37.38  Aligned_cols=37  Identities=22%  Similarity=0.338  Sum_probs=33.1

Q ss_pred             CCcHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHhc
Q 024453           41 DDPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRV   79 (267)
Q Consensus        41 ~~~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~   79 (267)
                      +..|.+|..+  +++.....+||..|+||++.|+.-|.+
T Consensus        10 ~~~v~~L~~M--GF~~~~a~~AL~~t~~nve~A~e~L~~   46 (63)
T 2dak_A           10 EDCVTTIVSM--GFSRDQALKALRATNNSLERAVDWIFS   46 (63)
T ss_dssp             HHHHHHHHHH--TCCHHHHHHHHHHTTSCSHHHHHHHHH
T ss_pred             HHHHHHHHHc--CCCHHHHHHHHHHcCCCHHHHHHHHHh
Confidence            4568999998  677899999999999999999999977

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

Probab=91.94  E-value=0.19  Score=33.12  Aligned_cols=36  Identities=22%  Similarity=0.116  Sum_probs=30.7

Q ss_pred             CcHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHhc
Q 024453           42 DPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRV   79 (267)
Q Consensus        42 ~~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~   79 (267)
                      ..|.+|..+  +.++....+||..|++|++.|+.-|-+
T Consensus         6 ~~i~~L~~M--GF~~~~a~~AL~~~~~n~e~A~~~L~~   41 (43)
T 2g3q_A            6 LAVEELSGM--GFTEEEAHNALEKCNWDLEAATNFLLD   41 (43)
T ss_dssp             HHHHHHHTT--TSCHHHHHHHHHHHTSCHHHHHHHHHT
T ss_pred             HHHHHHHHc--CCCHHHHHHHHHHhCcCHHHHHHHHHc
Confidence            347788887  678899999999999999999998754

>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=90.87  E-value=0.23  Score=34.94  Aligned_cols=37  Identities=19%  Similarity=0.232  Sum_probs=31.7

Q ss_pred             CcHHHHHhcCCCC-CHHHHHHHHhhcchhHHHHHHHHhcc
Q 024453           42 DPVSFLLQMFPDV-DPEVVKSVLGEHDNKIEDAIDRLRVL   80 (267)
Q Consensus        42 ~~~~~L~~lFP~m-d~q~le~aLe~cgndlDaAIksL~~L   80 (267)
                      .-|.+|..|  ++ |.+...+||..|++|++.||..|...
T Consensus        11 ~~l~~L~~M--GF~d~~~n~~AL~~~~Gdv~~Ave~L~~~   48 (54)
T 2dah_A           11 VQLEQLRSM--GFLNREANLQALIATGGDVDAAVEKLRQS   48 (54)
T ss_dssp             HHHHHHHHH--TCCCHHHHHHHHHHHTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHc--CCCcHHHHHHHHHHcCCCHHHHHHHHHhC
Confidence            358999998  56 67788999999999999999999863

>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=90.68  E-value=0.26  Score=35.62  Aligned_cols=37  Identities=19%  Similarity=0.371  Sum_probs=33.0

Q ss_pred             CCcHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHhc
Q 024453           41 DDPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRV   79 (267)
Q Consensus        41 ~~~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~   79 (267)
                      +..|.+|..|  +++.....+||..|++|++.|+.-|.+
T Consensus        10 ~~~I~~L~~M--GF~~~~a~~AL~~~~~nve~A~e~L~~   46 (63)
T 1wji_A           10 EKALKHITEM--GFSKEASRQALMDNGNNLEAALNVLLT   46 (63)
T ss_dssp             HHHHHHHHTT--TCCHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHc--CCCHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            4568888888  789999999999999999999999876

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

Probab=90.61  E-value=0.34  Score=32.96  Aligned_cols=35  Identities=20%  Similarity=0.212  Sum_probs=29.8

Q ss_pred             cHHHHHhcCCCC-CHHHHHHHHhhcchhHHHHHHHHhc
Q 024453           43 PVSFLLQMFPDV-DPEVVKSVLGEHDNKIEDAIDRLRV   79 (267)
Q Consensus        43 ~~~~L~~lFP~m-d~q~le~aLe~cgndlDaAIksL~~   79 (267)
                      -|.+|..+  +. |.+...+||..+++|++.||..|..
T Consensus        10 ~i~~L~~M--GF~d~~~~~~AL~~~~gnv~~Ave~L~~   45 (46)
T 2bwb_A           10 QLRQLNDM--GFFDFDRNVAALRRSGGSVQGALDSLLN   45 (46)
T ss_dssp             HHHHHHHT--TCCCHHHHHHHHHHHTTCHHHHHHHHHC
T ss_pred             HHHHHHHc--CCCcHHHHHHHHHHhCCCHHHHHHHHHc
Confidence            47888887  54 7888899999999999999998853

>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=90.21  E-value=0.27  Score=33.72  Aligned_cols=36  Identities=19%  Similarity=0.212  Sum_probs=31.8

Q ss_pred             CcHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHhc
Q 024453           42 DPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRV   79 (267)
Q Consensus        42 ~~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~   79 (267)
                      ..|.+|..+  +.++....+||..|+||++.|+.-|-+
T Consensus        10 ~~i~~L~~M--GF~~~~a~~AL~~~~~n~e~A~e~L~~   45 (49)
T 1ify_A           10 TMLTEIMSM--GYERERVVAALRASYNNPHRAVEYLLT   45 (49)
T ss_dssp             HHHHHHHHT--TCCHHHHHHHHHTTTSCSHHHHHHHHH
T ss_pred             HHHHHHHHc--CCCHHHHHHHHHHhCCCHHHHHHHHHh
Confidence            457888888  789999999999999999999998865

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

Probab=88.32  E-value=0.5  Score=33.83  Aligned_cols=36  Identities=19%  Similarity=0.210  Sum_probs=31.0

Q ss_pred             CcHHHHHhcCCCC-CHHHHHHHHhhcchhHHHHHHHHhc
Q 024453           42 DPVSFLLQMFPDV-DPEVVKSVLGEHDNKIEDAIDRLRV   79 (267)
Q Consensus        42 ~~~~~L~~lFP~m-d~q~le~aLe~cgndlDaAIksL~~   79 (267)
                      .-|.+|..+  +. |.+...+||..+++|++.||..|..
T Consensus        19 ~qi~~L~~M--GF~d~~~~~~AL~~~~gnve~Ave~L~~   55 (58)
T 1wr1_B           19 HQLRQLNDM--GFFDFDRNVAALRRSGGSVQGALDSLLN   55 (58)
T ss_dssp             HHHHHHHHH--TCCCHHHHHHHHHHHTSCHHHHHHHHHH
T ss_pred             HHHHHHHHc--CCCcHHHHHHHHHHhCCCHHHHHHHHHh
Confidence            357889988  54 7889999999999999999999864

>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=88.23  E-value=0.48  Score=37.96  Aligned_cols=36  Identities=17%  Similarity=0.240  Sum_probs=31.7

Q ss_pred             cHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHhc
Q 024453           43 PVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRV   79 (267)
Q Consensus        43 ~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~   79 (267)
                      -|..|..+ .++++.-...||+.|++||..||..|.+
T Consensus        42 kVk~L~Em-tG~seeeAr~AL~~~ngDl~~AI~~Lle   77 (104)
T 1wj7_A           42 KVKQLIDI-TGKNQDECVIALHDCNGDVNRAINVLLE   77 (104)
T ss_dssp             HHHHHHHH-TCCCHHHHHHHHHHHTSCHHHHHHHHHT
T ss_pred             HHHHHHHh-hCCCHHHHHHHHHHcCCCHHHHHHHHHh
Confidence            46667777 6889999999999999999999999986

>3hnw_A Uncharacterized protein; coiled-coil, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.20A {Eubacterium eligens}

Probab=88.00  E-value=4.1  Score=33.50  Aligned_cols=95  Identities=17%  Similarity=0.156  Sum_probs=64.3

Q ss_pred             CChhhhHHHHHHHHhcC---CCchHHHHHHHHHHHHHHHHHHHhhhhh-----hhHHHHHHHHHHHHHHhhHHHHHHHHH
Q 024453          134 TDGSKWVDLFVHEMMSA---ADLDDARGRAARILEVFERSIITNSKAS-----KELEHASLKEHLQSLLNDNQILKKAVS  205 (267)
Q Consensus       134 ~~g~eWVEl~V~EM~~A---sd~dDARaRAsRvLEafEksi~~ra~aa-----~~~En~~LKe~l~~l~~eN~iLKRAv~  205 (267)
                      ..-+..|+-=++||...   ..+++-|           .+|.+.-.-+     .++++..|.++++.+.+|..-||-=+.
T Consensus        31 ~~vA~~vd~km~ei~~~~~~~~l~~~r-----------~aVLaALNiadEl~k~~~~~~~L~~~l~~~~kE~~~lK~el~   99 (138)
T 3hnw_A           31 QRVASYINNKITEFNKEESYRRMSAEL-----------RTDMMYLNIADDYFKAKKMADSLSLDIENKDKEIYDLKHELI   99 (138)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHTSCHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhccCCCCCCHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34566777777887754   3333332           3444433331     677888899999999888888886433


Q ss_pred             HHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 024453          206 IQHERHLEQEQKEKEVELLKLVISQYQDQARNLELRN  242 (267)
Q Consensus       206 IQheR~~e~e~~~~E~~~Lkql~~qyqEqir~LE~~N  242 (267)
                      --..   .+++..+|+..|+.-+...|+++..||..+
T Consensus       100 ~~~~---k~e~~~~e~~~l~~~~~~l~~~~~~le~~~  133 (138)
T 3hnw_A          100 AAQI---KAESSAKEIKELKSEINKYQKNIVKLETEL  133 (138)
T ss_dssp             HHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            2222   446677888888888888899998888653

>2ejs_A Autocrine motility factor receptor, isoform 2; CUE, ubiquitin ligase complex, ubiquitin-conjugating enzyme, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=87.91  E-value=0.68  Score=33.53  Aligned_cols=41  Identities=20%  Similarity=0.186  Sum_probs=36.5

Q ss_pred             CCcHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHhcccc
Q 024453           41 DDPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRVLSF   82 (267)
Q Consensus        41 ~~~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~L~L   82 (267)
                      ++.+++++.+||+++...+..=|+..| +++..|..+.+=+|
T Consensus        14 ~~mv~~V~~mfP~vp~~~I~~DL~~Tg-sVe~TienILeGrl   54 (58)
T 2ejs_A           14 NAMAHQIQEMFPQVPYHLVLQDLQLTR-SVEITTDNILEGRI   54 (58)
T ss_dssp             HHHHHHHHHHCCSSCHHHHHHHHHHHC-SHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHhC-CHHHHHHHHHhcCC
Confidence            567899999999999999999999999 99999998876444

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

Probab=87.36  E-value=0.28  Score=36.15  Aligned_cols=39  Identities=13%  Similarity=-0.022  Sum_probs=31.1

Q ss_pred             CCcHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHhcc
Q 024453           41 DDPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRVL   80 (267)
Q Consensus        41 ~~~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~L   80 (267)
                      ...|..||.. -+..-.--.+||++|++||+.||.-|..-
T Consensus        10 ~~~Vk~LRe~-TGag~~dcKkAL~e~~GDi~~Ai~~Lr~k   48 (64)
T 2cp9_A           10 KELLMKLRRK-TGYSFVNCKKALETCGGDLKQAEIWLHKE   48 (64)
T ss_dssp             CHHHHHHHHH-HCCCHHHHHHHHHHHTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHH-hCCCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            4568888876 34555567899999999999999999864

>2ekf_A Ancient ubiquitous protein 1; CUE, ubiquitin ligase complex, ubiquitin-conjugating enzyme, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=86.43  E-value=0.9  Score=33.22  Aligned_cols=41  Identities=15%  Similarity=0.149  Sum_probs=37.1

Q ss_pred             CCcHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHhcccc
Q 024453           41 DDPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRVLSF   82 (267)
Q Consensus        41 ~~~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~L~L   82 (267)
                      ++.+++++.+||++....+..=|+..| +++..|..+.+=++
T Consensus        14 ~~mv~~V~~mfP~vp~~~I~~DL~~Tg-sVe~TienILeGr~   54 (61)
T 2ekf_A           14 ATLAQRVKEVLPHVPLGVIQRDLAKTG-CVDLTITNLLEGAV   54 (61)
T ss_dssp             HHHHHHHHHHCSSSCHHHHHHHHHTSC-CHHHHHHHHHSCCC
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHhC-CHHHHHHHHHcCCC
Confidence            556899999999999999999999999 99999999887555

>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=86.39  E-value=1.4  Score=31.66  Aligned_cols=37  Identities=22%  Similarity=0.204  Sum_probs=33.3

Q ss_pred             CCcHHHHHhcCCCCCHHHHHHHHhhcc-hhHHHHHHHHhc
Q 024453           41 DDPVSFLLQMFPDVDPEVVKSVLGEHD-NKIEDAIDRLRV   79 (267)
Q Consensus        41 ~~~~~~L~~lFP~md~q~le~aLe~cg-ndlDaAIksL~~   79 (267)
                      +..|.+|..+  +++....++||..|| +|++.|+.-|.+
T Consensus        10 ~~~v~~L~~M--GF~~~~a~~AL~~t~~~nve~A~ewLl~   47 (64)
T 1whc_A           10 LTALESLIEM--GFPRGRAEKALALTGNQGIEAAMDWLME   47 (64)
T ss_dssp             CCHHHHHHTT--TCCHHHHHHHHHHHTSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHc--CCCHHHHHHHHHHhcCCCHHHHHHHHHh
Confidence            5778999998  778899999999994 899999999987

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=86.23  E-value=6.4  Score=37.29  Aligned_cols=71  Identities=15%  Similarity=0.161  Sum_probs=50.3

Q ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhc
Q 024453          181 LEHASLKEHLQSLLNDNQILKKAVSIQHERHLEQEQKEKEVELLKLVISQYQDQARNLELRNYALKLHLQRAQE  254 (267)
Q Consensus       181 ~En~~LKe~l~~l~~eN~iLKRAv~IQheR~~e~e~~~~E~~~Lkql~~qyqEqir~LE~~NYaL~~HL~qA~~  254 (267)
                      ++...+++..+.+.+++..+++++.   +.+++++...+|+..+++.+...++++..|.+.|-.++--+++-++
T Consensus       509 ~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~le~~~~~~~~~~~~l~~e~~~~~~~~~~l~~  579 (597)
T 3oja_B          509 KVFTHLKERQAFKLRETQARRTEAD---AKQKETEDLEQENIALEKQLDNKRAKQAELRQETSLKRQKVKQLEA  579 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhhhhHHHHHHHHHhhh---hhhcchhhHHhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555555555555555555542   2345666677888899999999999999999999999877777665

>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=83.02  E-value=1.3  Score=34.01  Aligned_cols=37  Identities=19%  Similarity=0.268  Sum_probs=34.4

Q ss_pred             CCcHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHhc
Q 024453           41 DDPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRV   79 (267)
Q Consensus        41 ~~~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~   79 (267)
                      +..|.+|..|  ++++..+++||..|++|++-|+.-|..
T Consensus        30 ee~I~~Lv~M--GF~~~~A~~AL~~t~gdve~A~e~L~s   66 (83)
T 1veg_A           30 QESINQLVYM--GFDTVVAEAALRVFGGNVQLAAQTLAH   66 (83)
T ss_dssp             HHHHHHHHHH--SCCHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHc--CCCHHHHHHHHHHcCCCHHHHHHHHHh
Confidence            5678999999  899999999999999999999999987

>4g3o_A E3 ubiquitin-protein ligase AMFR; all-helical structure, BAG6; 1.60A {Homo sapiens}

Probab=82.75  E-value=1.5  Score=31.77  Aligned_cols=38  Identities=21%  Similarity=0.237  Sum_probs=33.0

Q ss_pred             CCcHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHhc
Q 024453           41 DDPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRV   79 (267)
Q Consensus        41 ~~~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~   79 (267)
                      ++.+++++.+||+++...+..-|+.. +++++.|..+.+
T Consensus        18 ~~Mve~V~~mFPqv~~~~I~~DL~rT-gSVe~TienILe   55 (58)
T 4g3o_A           18 NAMAHQIQEMFPQVPYHLVLQDLQLT-RSVEITTDNILE   55 (58)
T ss_dssp             HHHHHHHHHHCTTSCHHHHHHHHHHH-CCHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHh-CCHHHHHHHHHc
Confidence            45688999999999999999999998 489999987754

>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=82.63  E-value=2.8  Score=30.26  Aligned_cols=37  Identities=19%  Similarity=0.176  Sum_probs=33.9

Q ss_pred             CCcHHHHHhcCCCCCHHHHHHHHhhcch-hHHHHHHHHhc
Q 024453           41 DDPVSFLLQMFPDVDPEVVKSVLGEHDN-KIEDAIDRLRV   79 (267)
Q Consensus        41 ~~~~~~L~~lFP~md~q~le~aLe~cgn-dlDaAIksL~~   79 (267)
                      +..|.+|..+  +++.....+||..||| |++.|+.-|.+
T Consensus        10 e~~v~~L~~M--GF~~~~a~~AL~~t~n~~~e~A~~wL~~   47 (64)
T 2crn_A           10 PSLLEPLLAM--GFPVHTALKALAATGRKTAEEALAWLHD   47 (64)
T ss_dssp             CSSHHHHHHT--SCCHHHHHHHHHHHTSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHc--CCCHHHHHHHHHHhCCCCHHHHHHHHHh
Confidence            5678999997  7889999999999999 99999999987

>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=81.82  E-value=0.79  Score=31.20  Aligned_cols=35  Identities=11%  Similarity=0.011  Sum_probs=29.9

Q ss_pred             cHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHhc
Q 024453           43 PVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRV   79 (267)
Q Consensus        43 ~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~   79 (267)
                      .|.+|..|  ++++..+.+||.+||+|.+.|+.-|-.
T Consensus         7 aI~rL~~m--GF~~~~a~~Al~a~~~n~e~A~~~Lf~   41 (47)
T 1dv0_A            7 AIERLKAL--GFPESLVIQAYFACEKNENLAANFLLS   41 (47)
T ss_dssp             HHTTTTTT--TCCHHHHHHHHTTTTSCHHHHHHHTTS
T ss_pred             HHHHHHHc--CCCHHHHHHHHHHcCCCHHHHHHHHHh
Confidence            35667777  788999999999999999999988854

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

Probab=81.20  E-value=1.4  Score=29.47  Aligned_cols=36  Identities=19%  Similarity=0.235  Sum_probs=30.3

Q ss_pred             CCcHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHhc
Q 024453           41 DDPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRV   79 (267)
Q Consensus        41 ~~~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~   79 (267)
                      +..|.+|..+  +.++....+||..|| |++.|+.-|.+
T Consensus        10 ~~~v~~L~~M--GF~~~~a~~AL~~~~-n~e~A~~~L~~   45 (47)
T 2ekk_A           10 QQQLQQLMDM--GFTREHAMEALLNTS-TMEQATEYLLT   45 (47)
T ss_dssp             HHHHHHHHHH--HCCHHHHHHHHHHSC-SHHHHHHHHHT
T ss_pred             HHHHHHHHHc--CCCHHHHHHHHHHcC-CHHHHHHHHHc
Confidence            4568888887  667799999999997 89999998854

---

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
d1wgla_	59	a.5.2.4 (A:) Toll-interacting protein {Human (Homo	4e-07
d1mn3a_	54	a.5.2.4 (A:) Vacuolar protein sorting-associated p	2e-05

>d1wgla_ a.5.2.4 (A:) Toll-interacting protein {Human (Homo sapiens) [TaxId: 9606]} Length = 59

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]

 Score = 44.0 bits (104), Expect = 4e-07
 Identities = 17/51 (33%), Positives = 28/51 (54%), Gaps = 1/51 (1%)

Query: 33 GSLVRSG-SDDPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRVLSF 82
          GS   SG S++ +  +  MFP++D EV++SVL       + AI+ L  +  
Sbjct: 1  GSSGSSGCSEEDLKAIQDMFPNMDQEVIRSVLEAQRGNKDAAINSLLQMGE 51

>d1mn3a_ a.5.2.4 (A:) Vacuolar protein sorting-associated protein vps9 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 54

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]

 Score = 38.9 bits (91), Expect = 2e-05
 Identities = 14/38 (36%), Positives = 23/38 (60%)

Query: 44 VSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRVLS 81
          ++ L  MFPD+DP +++ V     ++IE  +D L  LS
Sbjct: 16 LNTLQNMFPDMDPSLIEDVCIAKKSRIEPCVDALLSLS 53

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	267
d1mn3a_	54	Vacuolar protein sorting-associated protein vps9 {	98.28
d1wgla_	59	Toll-interacting protein {Human (Homo sapiens) [Ta	98.27
d2di0a1	63	Activating signal cointegrator 1 complex subunit 2	95.39
d1seta1	110	Seryl-tRNA synthetase (SerRS) {Thermus thermophilu	90.15
d1xb2b1	56	Elongation factor Ts (EF-Ts), N-terminal domain {C	89.34
d1wjia_	63	Tudor domain containing protein 3, TDRD3 {Human (H	87.67
d1aipc1	52	Elongation factor Ts (EF-Ts), N-terminal domain {T	87.19
d1efub3	54	Elongation factor Ts (EF-Ts), N-terminal domain {E	86.86
d1vg5a_	73	Rhomboid family protein At3g58460 {Thale cress (Ar	86.78
d2daha1	41	Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	83.15
d1wgna_	63	Ubiquitin-associated protein 1, UBAP1 {Human (Homo	82.68

>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=98.28  E-value=2.3e-07  Score=65.19  Aligned_cols=38  Identities=34%  Similarity=0.610  Sum_probs=35.4

Q ss_pred             cHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHhcc
Q 024453           43 PVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRVL   80 (267)
Q Consensus        43 ~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~L   80 (267)
                      .+..|+.+||+||..||+.+|++|+.++|.||..|..+
T Consensus        15 ~~~~Lk~MFP~~D~~VI~~VL~a~~G~vd~aidaLL~M   52 (54)
T d1mn3a_          15 TLNTLQNMFPDMDPSLIEDVCIAKKSRIEPCVDALLSL   52 (54)
T ss_dssp             HHHHHHHHCTTSCHHHHHHHHSCSSCSHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHhc
Confidence            36889999999999999999999999999999999764

>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=98.27  E-value=3.2e-07  Score=65.44  Aligned_cols=43  Identities=28%  Similarity=0.511  Sum_probs=39.0

Q ss_pred             CCcHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHhccccc
Q 024453           41 DDPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRVLSFS   83 (267)
Q Consensus        41 ~~~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~L~L~   83 (267)
                      +..+..|+.+||+||+.+|+.+|++|+.++|.||..|.++.-.
T Consensus        10 Ee~i~~LkeMFP~~D~~vI~~VL~a~~G~vd~aid~LL~Msd~   52 (59)
T d1wgla_          10 EEDLKAIQDMFPNMDQEVIRSVLEAQRGNKDAAINSLLQMGEE   52 (59)
T ss_dssp             HHHHHHHHHHCSSSCHHHHHHHHTTTTTCHHHHHHHHHHSSCC
T ss_pred             HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHhcCCC
Confidence            4458999999999999999999999999999999999886543

>d2di0a1 a.5.2.4 (A:8-70) Activating signal cointegrator 1 complex subunit 2 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: CUE domain
domain: Activating signal cointegrator 1 complex subunit 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.39  E-value=0.0051  Score=43.78  Aligned_cols=39  Identities=18%  Similarity=0.267  Sum_probs=36.7

Q ss_pred             CCcHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHhc
Q 024453           41 DDPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRV   79 (267)
Q Consensus        41 ~~~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~   79 (267)
                      ++++.+.+.+|||+...+|.+.|+..|+|.+.+|-.|.+
T Consensus         7 ~s~I~qV~Dl~PdLG~GFi~~~L~~Y~~n~E~vI~~lLe   45 (63)
T d2di0a1           7 DSLISQVKDLLPDLGEGFILACLEYYHYDPEQVINNILE   45 (63)
T ss_dssp             HHHHHHHHHHCCSSCHHHHHHHHHHTTTCHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCCcHHHHHHHHHHhCCCHHHHHHHHHc
Confidence            357899999999999999999999999999999999987

>d1seta1 a.2.7.1 (A:1-110) Seryl-tRNA synthetase (SerRS) {Thermus thermophilus, strain hb27 [TaxId: 274]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: tRNA-binding arm
family: Seryl-tRNA synthetase (SerRS)
domain: Seryl-tRNA synthetase (SerRS)
species: Thermus thermophilus, strain hb27 [TaxId: 274]

Probab=90.15  E-value=1.6  Score=31.87  Aligned_cols=92  Identities=26%  Similarity=0.243  Sum_probs=64.3

Q ss_pred             HHHHHHHHHHhhhh-h------hhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHH
Q 024453          164 LEVFERSIITNSKA-S------KELEHASLKEHLQSLLNDNQILKKAVSIQHERHLEQEQKEKEVELLKLVISQYQDQAR  236 (267)
Q Consensus       164 LEafEksi~~ra~a-a------~~~En~~LKe~l~~l~~eN~iLKRAv~IQheR~~e~e~~~~E~~~Lkql~~qyqEqir  236 (267)
                      .+.|.+++..|-.. .      +.++...+..+++.|..+.+.+=+-|.. . ...+.++.-+++..|+..+..++++++
T Consensus        11 ~e~v~~~l~~R~~~~~ld~i~~ld~~rr~l~~~~e~l~~~rN~~sk~i~k-~-~~~~~~~l~~~~k~lk~~i~~le~~~~   88 (110)
T d1seta1          11 PEVFHRAIREKGVALDLEALLALDREVQELKKRLQEVQTERNQVAKRVPK-A-PPEEKEALIARGKALGEEAKRLEEALR   88 (110)
T ss_dssp             HHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHGGG-C-CHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-h-hccchHHHHHHHHHHHHHHHHHHHHHH
Confidence            36667777666444 1      6667778888888888887777666652 1 223455667888888889999999998


Q ss_pred             HHHhhhHHHHHHHHHHhccCCCCCCCCCCC
Q 024453          237 NLELRNYALKLHLQRAQESSSIPRQFHPDI  266 (267)
Q Consensus       237 ~LE~~NYaL~~HL~qA~~~~~~~g~f~PDV  266 (267)
                      .+|..-+.+-+         .+|-.-||||
T Consensus        89 ~~~~~l~~~ll---------~iPNi~~~~V  109 (110)
T d1seta1          89 EKEARLEALLL---------QVPLPPWPGA  109 (110)
T ss_dssp             HHHHHHHHHHT---------TCCCCCCTTS
T ss_pred             HHHHHHHHHHH---------cCCCCCCccC
Confidence            88887766543         3677777776

>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=89.34  E-value=0.091  Score=36.21  Aligned_cols=23  Identities=17%  Similarity=0.130  Sum_probs=20.4

Q ss_pred             HHHHHHhhcchhHHHHHHHHhcc
Q 024453           58 VVKSVLGEHDNKIEDAIDRLRVL   80 (267)
Q Consensus        58 ~le~aLe~cgndlDaAIksL~~L   80 (267)
                      -..+||++||+|||.||.-|..-
T Consensus        21 dcKkAL~e~~gD~ekA~e~Lrkk   43 (56)
T d1xb2b1          21 NCKKALETCGGDLKQAESWLHKQ   43 (56)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHH
Confidence            36799999999999999999864

>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=87.67  E-value=0.28  Score=33.68  Aligned_cols=37  Identities=19%  Similarity=0.371  Sum_probs=34.0

Q ss_pred             CCcHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHhc
Q 024453           41 DDPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRV   79 (267)
Q Consensus        41 ~~~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~   79 (267)
                      +..|.+|..+  +.+....++||..|+||++.|+.-|.+
T Consensus        10 ~~~v~~L~~M--GF~~~~a~~AL~~~~~~~e~A~~wL~~   46 (63)
T d1wjia_          10 EKALKHITEM--GFSKEASRQALMDNGNNLEAALNVLLT   46 (63)
T ss_dssp             HHHHHHHHTT--TCCHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHc--CCCHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            5668889888  899999999999999999999999988

>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=87.19  E-value=0.15  Score=34.51  Aligned_cols=24  Identities=29%  Similarity=0.228  Sum_probs=20.8

Q ss_pred             HHHHHHhhcchhHHHHHHHHhccc
Q 024453           58 VVKSVLGEHDNKIEDAIDRLRVLS   81 (267)
Q Consensus        58 ~le~aLe~cgndlDaAIksL~~L~   81 (267)
                      -..+||++||+|||.||+-|...-
T Consensus        19 dcKkAL~e~~gD~ekA~e~Lr~~G   42 (52)
T d1aipc1          19 DVKRALEDAGWDEEKAVQLLRERG   42 (52)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHh
Confidence            357999999999999999998743

>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=86.86  E-value=0.16  Score=34.62  Aligned_cols=27  Identities=30%  Similarity=0.287  Sum_probs=22.2

Q ss_pred             HHHHHHhhcchhHHHHHHHHhcccccc
Q 024453           58 VVKSVLGEHDNKIEDAIDRLRVLSFSN   84 (267)
Q Consensus        58 ~le~aLe~cgndlDaAIksL~~L~L~s   84 (267)
                      -..+||++|++|+|.||.-|..--+..
T Consensus        21 dCKkAL~e~~gD~ekA~e~Lr~kG~~~   47 (54)
T d1efub3          21 DCKKALTEANGDIELAIENMRKSGAIK   47 (54)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHhHHH
Confidence            367999999999999999998754433

>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=86.78  E-value=0.24  Score=35.15  Aligned_cols=37  Identities=22%  Similarity=0.355  Sum_probs=32.7

Q ss_pred             CCcHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHhc
Q 024453           41 DDPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRV   79 (267)
Q Consensus        41 ~~~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~   79 (267)
                      +..|.+|..|  +.+.+...+||+.|+||++.||.-|..
T Consensus        30 ee~i~~L~~M--GF~~~~a~~AL~~~~~n~e~A~~~Ll~   66 (73)
T d1vg5a_          30 EEQIQKLVAM--GFDRTQVEVALAAADDDLTVAVEILMS   66 (73)
T ss_dssp             HHHHHHHHTT--TCCHHHHHHHHHHHTSCHHHHHHHHHT
T ss_pred             HHHHHHHHHh--CCCHHHHHHHHHHhCCCHHHHHHHHHh
Confidence            5568888887  578999999999999999999999876

>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=83.15  E-value=0.46  Score=30.56  Aligned_cols=35  Identities=20%  Similarity=0.251  Sum_probs=26.4

Q ss_pred             HHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHhc
Q 024453           44 VSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRV   79 (267)
Q Consensus        44 ~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~   79 (267)
                      +++|+.+ =-.|.+.--+||..+|-|++.||+.|..
T Consensus         6 L~~L~~M-GF~d~~~Ni~AL~~t~Gdv~~Aie~Ll~   40 (41)
T d2daha1           6 LEQLRSM-GFLNREANLQALIATGGDVDAAVEKLRQ   40 (41)
T ss_dssp             HHHHHHH-TCCCHHHHHHHHHHHTSCHHHHHHHHHH
T ss_pred             HHHHHHc-CCCCHHHHHHHHHHcCCCHHHHHHHHHh
Confidence            3445544 1246778889999999999999999863

>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=82.68  E-value=0.34  Score=33.48  Aligned_cols=37  Identities=22%  Similarity=0.257  Sum_probs=31.8

Q ss_pred             CCcHHHHHhcCCCCCHHHHHHHHhhcchhHHHHHHHHhc
Q 024453           41 DDPVSFLLQMFPDVDPEVVKSVLGEHDNKIEDAIDRLRV   79 (267)
Q Consensus        41 ~~~~~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~   79 (267)
                      +..|.+|..|  +.++....+||..||||++.|+.-|..
T Consensus        20 e~~v~~L~~M--GF~~~~a~~AL~~~~~n~e~A~~~Lls   56 (63)
T d1wgna_          20 RQCVETVVNM--GYSYECVLRAMKKKGENIEQILDYLFA   56 (63)
T ss_dssp             HHHHHHHHHH--HCCHHHHHHHHHHHCSCHHHHHHHHHH
T ss_pred             HHHHHHHHHc--CCCHHHHHHHHHHcCCCHHHHHHHHHh
Confidence            4557888887  557899999999999999999999876