Citrus Sinensis ID: 033011

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------13
Protein Sequence
MKQPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADNLNRAILGL
Secondary Structure (PSIPRED)
ccccHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHcHHHHccccccHHHHHHHHHHHHHHHccHHHHHHHHHHHccccccHHHHHHHHHHHHHHHcccccccccHHHHccHHHHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cccccccHHHHHHHHHHHHHHHcccHHHHHHHHHHHcHHHHHcccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHccccccccHHHHccHHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
mkqpancleDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAqtkltpfgkVQKYVEKLEDFMALLAyeepekspmfHLLSLEYRQHVADNLNRAILGL
Flexible Loop (DISEMBL)
mkqpanclEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEfaqtkltpfgkVQKYVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADNLNRAILGL
Low Complexity Region (SEG)
MKQPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADNLNRAILGL
Disordered region (IsUnstruct)
*************RKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADNLN******
Disordered Region (DISOPRED)
****ANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADNLNRAILGL
Disordered Region (DISEMBL)
MKQPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADNLNRAILGL
Disordered Region (DISPRO)
****ANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADNLNRAILGL
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MKQPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADNLNRAILGL
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	129	2.2.26 [Sep-21-2011]
A7SWD3	225	Glucose-induced degradati	N/A	no	0.968	0.555	0.373	6e-16
Q5ZKQ7	228	Glucose-induced degradati	yes	no	0.968	0.548	0.373	1e-14
Q32L52	228	Glucose-induced degradati	yes	no	0.968	0.548	0.373	3e-14
Q9D7M1	228	Glucose-induced degradati	yes	no	0.968	0.548	0.373	3e-14
Q9NWU2	228	Glucose-induced degradati	yes	no	0.968	0.548	0.373	7e-14
Q6PC55	228	Glucose-induced degradati	yes	no	0.968	0.548	0.357	4e-13
Q54X16	228	Glucose-induced degradati	yes	no	0.806	0.456	0.390	6e-12

>sp|A7SWD3|GID8_NEMVE Glucose-induced degradation protein 8 homolog OS=Nematostella vectensis GN=v1g247787 PE=3 SV=1

 Score = 82.8 bits (203), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 47/126 (37%), Positives = 74/126 (58%), Gaps = 1/126 (0%)

Query: 3   QPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCS 62
           QP   L+ ++ R +I     +G+  +A+ +T +L  D+L+ N+ L+F L     +EL+  
Sbjct: 53  QPTAPLDSLDDRIKIREAVQKGDLEQAVSMTNKLNPDILDSNQQLYFHLQQQRLIELIRE 112

Query: 63  RKCTEALEFAQTKLTPFGK-VQKYVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADN 121
           +    A+EFAQ + +  G+   +Y+E+LE  MALLA++ PE+SP   LL    RQ VA  
Sbjct: 113 KDIEAAVEFAQGQFSEQGQESGRYLEELEQTMALLAFDNPEESPFGDLLHTSQRQKVASE 172

Query: 122 LNRAIL 127
           LN AIL
Sbjct: 173 LNAAIL 178

Nematostella vectensis (taxid: 45351)

>sp|Q5ZKQ7|GID8_CHICK Glucose-induced degradation protein 8 homolog OS=Gallus gallus GN=GID8 PE=2 SV=1

 Score = 78.2 bits (191), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 47/126 (37%), Positives = 76/126 (60%), Gaps = 1/126 (0%)

Query: 3   QPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCS 62
           +P+  LE ++ R +I    L+G   +AI L   L  +LL+ N+ L+F L   H +EL+  
Sbjct: 56  EPSVDLETLDERIKIREMILKGQIQEAISLINSLHPELLDTNRYLYFHLQQQHLIELIRQ 115

Query: 63  RKCTEALEFAQTKLTPFGKVQKY-VEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADN 121
           R+   ALEFAQT+L   G+  +  + ++E  +ALLA++ PE+SP   LL++  RQ V   
Sbjct: 116 RETEAALEFAQTQLAEQGEESRECLTEMERTLALLAFDNPEESPFGDLLNMMQRQKVWSE 175

Query: 122 LNRAIL 127
           +N+A+L
Sbjct: 176 VNQAVL 181

Gallus gallus (taxid: 9031)

>sp|Q32L52|GID8_BOVIN Glucose-induced degradation protein 8 homolog OS=Bos taurus GN=GID8 PE=2 SV=1

 Score = 77.4 bits (189), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 47/126 (37%), Positives = 75/126 (59%), Gaps = 1/126 (0%)

Query: 3   QPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCS 62
           +P+  LE ++ R +I    L+G   +AI L   L  +LL+ N+ L+F L   H +EL+  
Sbjct: 56  EPSVDLETLDERIKIREMILKGQIQEAIALINSLHPELLDTNRYLYFHLQQQHLIELIRQ 115

Query: 63  RKCTEALEFAQTKLTPFGKVQKY-VEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADN 121
           R+   ALEFAQT+L   G+  +  + ++E  +ALLA++ PE SP   LL++  RQ V   
Sbjct: 116 RETEAALEFAQTQLAEQGEESRECLTEMERTLALLAFDNPEDSPFGDLLNMMQRQKVWSE 175

Query: 122 LNRAIL 127
           +N+A+L
Sbjct: 176 VNQAVL 181

Bos taurus (taxid: 9913)

>sp|Q9D7M1|GID8_MOUSE Glucose-induced degradation protein 8 homolog OS=Mus musculus GN=Gid8 PE=2 SV=1

 Score = 77.0 bits (188), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 47/126 (37%), Positives = 75/126 (59%), Gaps = 1/126 (0%)

Query: 3   QPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCS 62
           +P+  LE ++ R +I    L+G   +AI L   L  +LL+ N+ L+F L   H +EL+  
Sbjct: 56  EPSVDLETLDERIKIREMILKGQIQEAIALINSLHPELLDTNRYLYFHLQQQHLIELIRQ 115

Query: 63  RKCTEALEFAQTKLTPFGKVQKY-VEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADN 121
           R+   ALEFAQT+L   G+  +  + ++E  +ALLA++ PE+SP   LL +  RQ V   
Sbjct: 116 RETEAALEFAQTQLAEQGEESRECLTEMERTLALLAFDSPEESPFGDLLHMMQRQKVWSE 175

Query: 122 LNRAIL 127
           +N+A+L
Sbjct: 176 VNQAVL 181

Mus musculus (taxid: 10090)

>sp|Q9NWU2|GID8_HUMAN Glucose-induced degradation protein 8 homolog OS=Homo sapiens GN=GID8 PE=1 SV=1

 Score = 75.9 bits (185), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 47/126 (37%), Positives = 74/126 (58%), Gaps = 1/126 (0%)

Query: 3   QPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCS 62
           +P+  LE ++ R +I    L+G   +AI L   L  +LL+ N+ L+F L   H +EL+  
Sbjct: 56  EPSVDLETLDERIKIREMILKGQIQEAIALINSLHPELLDTNRYLYFHLQQQHLIELIRQ 115

Query: 63  RKCTEALEFAQTKLTPFGKVQKY-VEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADN 121
           R+   ALEFAQT+L   G+  +  + ++E  +ALLA++ PE+SP   LL    RQ V   
Sbjct: 116 RETEAALEFAQTQLAEQGEESRECLTEMERTLALLAFDSPEESPFGDLLHTMQRQKVWSE 175

Query: 122 LNRAIL 127
           +N+A+L
Sbjct: 176 VNQAVL 181

Homo sapiens (taxid: 9606)

>sp|Q6PC55|GID8_DANRE Glucose-induced degradation protein 8 homolog OS=Danio rerio GN=gid8 PE=2 SV=1

 Score = 73.6 bits (179), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 45/126 (35%), Positives = 75/126 (59%), Gaps = 1/126 (0%)

Query: 3   QPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCS 62
           +P   L+ ++ R +I    L+G   +AI L   L  +LL+ N+ L+F L   H +EL+  
Sbjct: 56  EPNVDLDSLDERIKIREMVLKGQIQEAIALINSLHPELLDTNRYLYFHLQQQHLIELIRL 115

Query: 63  RKCTEALEFAQTKLTPFGKVQKY-VEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADN 121
           R+   ALEFAQ++L   G+  +  + ++E  +ALLA++ PE+SP   LL++  RQ V   
Sbjct: 116 RETEAALEFAQSQLAEQGEESRECLTEMERTLALLAFDNPEESPFGDLLNMMQRQKVWSE 175

Query: 122 LNRAIL 127
           +N+A+L
Sbjct: 176 VNQAVL 181

Danio rerio (taxid: 7955)

>sp|Q54X16|GID8_DICDI Glucose-induced degradation protein 8 homolog OS=Dictyostelium discoideum GN=DDB_G0279265 PE=3 SV=2

 Score = 69.7 bits (169), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 41/105 (39%), Positives = 61/105 (58%), Gaps = 1/105 (0%)

Query: 24  GNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFG-KV 82
           G+  K IE+  +L  ++L+ N  L+F L     +EL+      EAL+FAQ +L P G + 
Sbjct: 81  GDVEKGIEIVNDLNPEILDTNPQLYFHLQQQKLIELIRKGMTAEALKFAQDELAPQGEEN 140

Query: 83  QKYVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADNLNRAIL 127
            K++E+LE  ++LL +E+  KSP+  LL    RQ  A  LN AIL
Sbjct: 141 NKFLEELEKTISLLVFEDTAKSPLSSLLDHSQRQKTAGELNSAIL 185

Dictyostelium discoideum (taxid: 44689)

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	129
255538790	303	conserved hypothetical protein [Ricinus	0.984	0.419	0.897	3e-60
317106667	215	JHL18I08.4 [Jatropha curcas]	0.992	0.595	0.875	2e-59
302142570	215	unnamed protein product [Vitis vinifera]	0.992	0.595	0.890	8e-59
225458141	216	PREDICTED: protein C20orf11 homolog [Vit	0.992	0.592	0.890	8e-59
356518435	215	PREDICTED: UPF0559 protein v1g247787-lik	0.976	0.586	0.857	3e-55
358248824	214	uncharacterized protein LOC100801338 [Gl	0.984	0.593	0.850	4e-55
224066094	215	predicted protein [Populus trichocarpa]	0.992	0.595	0.796	4e-52
222619339	833	hypothetical protein OsJ_03649 [Oryza sa	0.992	0.153	0.757	3e-50
218189143	833	hypothetical protein OsI_03937 [Oryza sa	0.992	0.153	0.757	3e-50
449460223	215	PREDICTED: glucose-induced degradation p	0.992	0.595	0.789	7e-50

>gi|255538790|ref|XP_002510460.1| conserved hypothetical protein [Ricinus communis] gi|223551161|gb|EEF52647.1| conserved hypothetical protein [Ricinus communis]

 Score =  236 bits (601), Expect = 3e-60,   Method: Compositional matrix adjust.
 Identities = 114/127 (89%), Positives = 121/127 (95%)

Query: 1   MKQPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELV 60
           MKQPA+CL+DME RKRI  +ALEG+ALKAIELTEELA DLLE NKDLHFDLLSLHFVELV
Sbjct: 44  MKQPADCLDDMEKRKRIFQYALEGSALKAIELTEELAHDLLENNKDLHFDLLSLHFVELV 103

Query: 61  CSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVAD 120
           C+RKCTEALEFAQTKLTPFGKVQK+VEKLEDFMALLAYEEPEKSPMFHLLSLEYRQ VAD
Sbjct: 104 CTRKCTEALEFAQTKLTPFGKVQKFVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQQVAD 163

Query: 121 NLNRAIL 127
           N+NRAIL
Sbjct: 164 NMNRAIL 170

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|317106667|dbj|BAJ53170.1| JHL18I08.4 [Jatropha curcas]

 Score =  233 bits (593), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 112/128 (87%), Positives = 119/128 (92%)

Query: 1   MKQPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELV 60
           MKQPA+C++DME RKRI  +ALEGN LKAIELTEELA DLLE NKDLHFDLLSLHF+ELV
Sbjct: 44  MKQPADCVQDMEKRKRIFRYALEGNVLKAIELTEELAHDLLEINKDLHFDLLSLHFIELV 103

Query: 61  CSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVAD 120
           C+RKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALLAYEEPEKSPMFHLLS+EYRQ V D
Sbjct: 104 CTRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALLAYEEPEKSPMFHLLSMEYRQQVVD 163

Query: 121 NLNRAILG 128
           NLNRAIL 
Sbjct: 164 NLNRAILA 171

Source: Jatropha curcas

Species: Jatropha curcas

Genus: Jatropha

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302142570|emb|CBI19773.3| unnamed protein product [Vitis vinifera]

 Score =  231 bits (589), Expect = 8e-59,   Method: Compositional matrix adjust.
 Identities = 114/128 (89%), Positives = 119/128 (92%)

Query: 1   MKQPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELV 60
           MKQPA+  EDME RKRI HFALEGNALKAIELTE+LA DLLEKNKDLHFDLLSLHFV+LV
Sbjct: 44  MKQPADYQEDMEKRKRIFHFALEGNALKAIELTEQLADDLLEKNKDLHFDLLSLHFVKLV 103

Query: 61  CSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVAD 120
           CSRKCTEALEFAQTKLTPFGKVQ YVEKLEDFM LLAYEEPEKSPMFHLLSLEYRQ VAD
Sbjct: 104 CSRKCTEALEFAQTKLTPFGKVQNYVEKLEDFMTLLAYEEPEKSPMFHLLSLEYRQQVAD 163

Query: 121 NLNRAILG 128
           +LNRA+L 
Sbjct: 164 SLNRALLA 171

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225458141|ref|XP_002280458.1| PREDICTED: protein C20orf11 homolog [Vitis vinifera]

 Score =  231 bits (589), Expect = 8e-59,   Method: Compositional matrix adjust.
 Identities = 114/128 (89%), Positives = 119/128 (92%)

Query: 1   MKQPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELV 60
           MKQPA+  EDME RKRI HFALEGNALKAIELTE+LA DLLEKNKDLHFDLLSLHFV+LV
Sbjct: 45  MKQPADYQEDMEKRKRIFHFALEGNALKAIELTEQLADDLLEKNKDLHFDLLSLHFVKLV 104

Query: 61  CSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVAD 120
           CSRKCTEALEFAQTKLTPFGKVQ YVEKLEDFM LLAYEEPEKSPMFHLLSLEYRQ VAD
Sbjct: 105 CSRKCTEALEFAQTKLTPFGKVQNYVEKLEDFMTLLAYEEPEKSPMFHLLSLEYRQQVAD 164

Query: 121 NLNRAILG 128
           +LNRA+L 
Sbjct: 165 SLNRALLA 172

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356518435|ref|XP_003527884.1| PREDICTED: UPF0559 protein v1g247787-like [Glycine max]

 Score =  219 bits (557), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 108/126 (85%), Positives = 116/126 (92%)

Query: 3   QPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCS 62
           QPA+ LEDM+ RKRI HFALEGNALKAIELTE+LA+D+LE NKDL FDLLSLHFVELVCS
Sbjct: 46  QPADYLEDMDKRKRIFHFALEGNALKAIELTEQLAKDILENNKDLQFDLLSLHFVELVCS 105

Query: 63  RKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADNL 122
           RKCTEALEFAQTKL PFGK  KY+EKLEDFMALLAY+EPEKSPMFHLLSLEYRQ VAD+L
Sbjct: 106 RKCTEALEFAQTKLGPFGKEPKYMEKLEDFMALLAYKEPEKSPMFHLLSLEYRQQVADSL 165

Query: 123 NRAILG 128
           NRAIL 
Sbjct: 166 NRAILA 171

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358248824|ref|NP_001239946.1| uncharacterized protein LOC100801338 [Glycine max] gi|255636536|gb|ACU18606.1| unknown [Glycine max]

 Score =  219 bits (557), Expect = 4e-55,   Method: Compositional matrix adjust.
 Identities = 108/127 (85%), Positives = 116/127 (91%)

Query: 2   KQPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVC 61
           KQP + LEDM+ RKRI HFALEGNALKAIELTE+LA+D+LE NKDL FDLLSLHFVELVC
Sbjct: 45  KQPTDYLEDMDKRKRIFHFALEGNALKAIELTEQLAKDILENNKDLQFDLLSLHFVELVC 104

Query: 62  SRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADN 121
           SRKCTEALEFAQTKL PFGK  KY+EKLEDFMALLAY+EPEKSPMFHLLSLEYRQ VAD+
Sbjct: 105 SRKCTEALEFAQTKLGPFGKEPKYMEKLEDFMALLAYKEPEKSPMFHLLSLEYRQQVADS 164

Query: 122 LNRAILG 128
           LNRAIL 
Sbjct: 165 LNRAILA 171

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224066094|ref|XP_002302009.1| predicted protein [Populus trichocarpa] gi|222843735|gb|EEE81282.1| predicted protein [Populus trichocarpa]

 Score =  208 bits (530), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 102/128 (79%), Positives = 114/128 (89%)

Query: 1   MKQPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELV 60
           M +PA+ +EDME RK I+  ALEGNALKA+ELTE++A DLLE NKDLHFDLLSLHF +LV
Sbjct: 44  MPEPADFIEDMEKRKGIVRCALEGNALKAVELTEQVAGDLLENNKDLHFDLLSLHFADLV 103

Query: 61  CSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVAD 120
           C++KCTEALEFAQ KLTPFGK +KYVEKLEDFMALLAYEEPEKSP+FHLL LEYRQHVAD
Sbjct: 104 CAKKCTEALEFAQKKLTPFGKEKKYVEKLEDFMALLAYEEPEKSPVFHLLGLEYRQHVAD 163

Query: 121 NLNRAILG 128
            LNRAIL 
Sbjct: 164 KLNRAILA 171

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|222619339|gb|EEE55471.1| hypothetical protein OsJ_03649 [Oryza sativa Japonica Group]

 Score =  202 bits (514), Expect = 3e-50,   Method: Composition-based stats.
 Identities = 97/128 (75%), Positives = 109/128 (85%)

Query: 1   MKQPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELV 60
           ++ P +   D++ RK I  F LEGNALKAI+LTEELA +LLE + DLHFDLLSLHF+ELV
Sbjct: 45  LELPVDYTVDVDKRKAIFSFVLEGNALKAIDLTEELAPNLLENDMDLHFDLLSLHFIELV 104

Query: 61  CSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVAD 120
            SRKCTEALEF Q KLTPFGKV KYVEKLEDFMALLAYEEPEKSPMFHLLS EYRQ+VAD
Sbjct: 105 RSRKCTEALEFGQKKLTPFGKVPKYVEKLEDFMALLAYEEPEKSPMFHLLSPEYRQNVAD 164

Query: 121 NLNRAILG 128
           +LNRA+L 
Sbjct: 165 SLNRAVLA 172

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|218189143|gb|EEC71570.1| hypothetical protein OsI_03937 [Oryza sativa Indica Group]

 Score =  202 bits (514), Expect = 3e-50,   Method: Composition-based stats.
 Identities = 97/128 (75%), Positives = 109/128 (85%)

Query: 1   MKQPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELV 60
           ++ P +   D++ RK I  F LEGNALKAI+LTEELA +LLE + DLHFDLLSLHF+ELV
Sbjct: 45  LELPVDYTVDVDKRKAIFSFVLEGNALKAIDLTEELAPNLLENDMDLHFDLLSLHFIELV 104

Query: 61  CSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVAD 120
            SRKCTEALEF Q KLTPFGKV KYVEKLEDFMALLAYEEPEKSPMFHLLS EYRQ+VAD
Sbjct: 105 RSRKCTEALEFGQKKLTPFGKVPKYVEKLEDFMALLAYEEPEKSPMFHLLSPEYRQNVAD 164

Query: 121 NLNRAILG 128
           +LNRA+L 
Sbjct: 165 SLNRAVLA 172

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449460223|ref|XP_004147845.1| PREDICTED: glucose-induced degradation protein 8 homolog [Cucumis sativus] gi|449521475|ref|XP_004167755.1| PREDICTED: glucose-induced degradation protein 8 homolog [Cucumis sativus]

 Score =  201 bits (512), Expect = 7e-50,   Method: Compositional matrix adjust.
 Identities = 101/128 (78%), Positives = 111/128 (86%)

Query: 1   MKQPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELV 60
           +K   + L DM  RKRI  FA+EGNALKAIELTEE+A  LLEK +DLHFDLLSLHFVELV
Sbjct: 44  LKHHTDYLVDMAKRKRIYDFAVEGNALKAIELTEEVAPGLLEKIEDLHFDLLSLHFVELV 103

Query: 61  CSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVAD 120
           CSRKCTEALEFAQ KL PFGK+ KYVEKLEDFMALLAYEEPEKSPMFHLLS++YRQ VA+
Sbjct: 104 CSRKCTEALEFAQVKLAPFGKLHKYVEKLEDFMALLAYEEPEKSPMFHLLSVDYRQRVAE 163

Query: 121 NLNRAILG 128
           +LNRAIL 
Sbjct: 164 SLNRAILA 171

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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	129
TAIR|locus:2198796	213	AT1G06060 "AT1G06060" [Arabido	0.984	0.596	0.755	5.4e-47
UNIPROTKB|Q5ZKQ7	228	GID8 "Glucose-induced degradat	0.968	0.548	0.373	1.8e-16
UNIPROTKB|Q32L52	228	GID8 "Glucose-induced degradat	0.968	0.548	0.373	3.7e-16
MGI|MGI:1923675	228	Gid8 "GID complex subunit 8 ho	0.968	0.548	0.373	3.7e-16
UNIPROTKB|Q9NWU2	228	GID8 "Glucose-induced degradat	0.968	0.548	0.373	7.7e-16
ZFIN|ZDB-GENE-040426-1669	250	gid8a "GID complex subunit 8 h	0.968	0.5	0.357	2.6e-15
DICTYBASE|DDB_G0279265	228	DDB_G0279265 "UPF0559 protein"	0.806	0.456	0.390	7.9e-14
TAIR|locus:2008460	243	AT1G61150 "AT1G61150" [Arabido	0.806	0.427	0.390	1.6e-13
ASPGD|ASPL0000064925	271	AN7501 [Emericella nidulans (t	0.914	0.435	0.372	5e-11
TAIR|locus:2008683	467	RanBPM "AT1G35470" [Arabidopsi	0.906	0.250	0.305	1.5e-08

TAIR|locus:2198796 AT1G06060 "AT1G06060" [Arabidopsis thaliana (taxid:3702)]

 Score = 492 (178.3 bits), Expect = 5.4e-47, P = 5.4e-47
 Identities = 96/127 (75%), Positives = 109/127 (85%)

Query:     1 MKQPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELV 60
             +KQPA   ++ME RK+I+HF LE  ALKA ELTE+LAQDLLEKNKDL FDLL LHFVEL+
Sbjct:    42 VKQPAIDRDNMERRKQIIHFILERKALKAFELTEQLAQDLLEKNKDLQFDLLCLHFVELI 101

Query:    61 CSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVAD 120
             C+  CTEAL+F +T+L PFGKV+KYVEKLED MALLAYE+PEKSPMFHLLS EYRQ VAD
Sbjct:   102 CAGNCTEALKFGKTRLAPFGKVKKYVEKLEDVMALLAYEDPEKSPMFHLLSSEYRQQVAD 161

Query:   121 NLNRAIL 127
             NLNR IL
Sbjct:   162 NLNRTIL 168

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q5ZKQ7 GID8 "Glucose-induced degradation protein 8 homolog" [Gallus gallus (taxid:9031)]

 Score = 204 (76.9 bits), Expect = 1.8e-16, P = 1.8e-16
 Identities = 47/126 (37%), Positives = 76/126 (60%)

Query:     3 QPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCS 62
             +P+  LE ++ R +I    L+G   +AI L   L  +LL+ N+ L+F L   H +EL+  
Sbjct:    56 EPSVDLETLDERIKIREMILKGQIQEAISLINSLHPELLDTNRYLYFHLQQQHLIELIRQ 115

Query:    63 RKCTEALEFAQTKLTPFGKVQKY-VEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADN 121
             R+   ALEFAQT+L   G+  +  + ++E  +ALLA++ PE+SP   LL++  RQ V   
Sbjct:   116 RETEAALEFAQTQLAEQGEESRECLTEMERTLALLAFDNPEESPFGDLLNMMQRQKVWSE 175

Query:   122 LNRAIL 127
             +N+A+L
Sbjct:   176 VNQAVL 181

GO:0005634 "nucleus" evidence=IEA

UNIPROTKB|Q32L52 GID8 "Glucose-induced degradation protein 8 homolog" [Bos taurus (taxid:9913)]

 Score = 201 (75.8 bits), Expect = 3.7e-16, P = 3.7e-16
 Identities = 47/126 (37%), Positives = 75/126 (59%)

Query:     3 QPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCS 62
             +P+  LE ++ R +I    L+G   +AI L   L  +LL+ N+ L+F L   H +EL+  
Sbjct:    56 EPSVDLETLDERIKIREMILKGQIQEAIALINSLHPELLDTNRYLYFHLQQQHLIELIRQ 115

Query:    63 RKCTEALEFAQTKLTPFGKVQKY-VEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADN 121
             R+   ALEFAQT+L   G+  +  + ++E  +ALLA++ PE SP   LL++  RQ V   
Sbjct:   116 RETEAALEFAQTQLAEQGEESRECLTEMERTLALLAFDNPEDSPFGDLLNMMQRQKVWSE 175

Query:   122 LNRAIL 127
             +N+A+L
Sbjct:   176 VNQAVL 181

GO:0005634 "nucleus" evidence=IEA

MGI|MGI:1923675 Gid8 "GID complex subunit 8 homolog (S. cerevisiae)" [Mus musculus (taxid:10090)]

 Score = 201 (75.8 bits), Expect = 3.7e-16, P = 3.7e-16
 Identities = 47/126 (37%), Positives = 75/126 (59%)

Query:     3 QPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCS 62
             +P+  LE ++ R +I    L+G   +AI L   L  +LL+ N+ L+F L   H +EL+  
Sbjct:    56 EPSVDLETLDERIKIREMILKGQIQEAIALINSLHPELLDTNRYLYFHLQQQHLIELIRQ 115

Query:    63 RKCTEALEFAQTKLTPFGKVQKY-VEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADN 121
             R+   ALEFAQT+L   G+  +  + ++E  +ALLA++ PE+SP   LL +  RQ V   
Sbjct:   116 RETEAALEFAQTQLAEQGEESRECLTEMERTLALLAFDSPEESPFGDLLHMMQRQKVWSE 175

Query:   122 LNRAIL 127
             +N+A+L
Sbjct:   176 VNQAVL 181

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0005634 "nucleus" evidence=IEA

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q9NWU2 GID8 "Glucose-induced degradation protein 8 homolog" [Homo sapiens (taxid:9606)]

 Score = 198 (74.8 bits), Expect = 7.7e-16, P = 7.7e-16
 Identities = 47/126 (37%), Positives = 74/126 (58%)

Query:     3 QPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCS 62
             +P+  LE ++ R +I    L+G   +AI L   L  +LL+ N+ L+F L   H +EL+  
Sbjct:    56 EPSVDLETLDERIKIREMILKGQIQEAIALINSLHPELLDTNRYLYFHLQQQHLIELIRQ 115

Query:    63 RKCTEALEFAQTKLTPFGKVQKY-VEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADN 121
             R+   ALEFAQT+L   G+  +  + ++E  +ALLA++ PE+SP   LL    RQ V   
Sbjct:   116 RETEAALEFAQTQLAEQGEESRECLTEMERTLALLAFDSPEESPFGDLLHTMQRQKVWSE 175

Query:   122 LNRAIL 127
             +N+A+L
Sbjct:   176 VNQAVL 181

GO:0005634 "nucleus" evidence=IEA

ZFIN|ZDB-GENE-040426-1669 gid8a "GID complex subunit 8 homolog a (S. cerevisiae)" [Danio rerio (taxid:7955)]

 Score = 193 (73.0 bits), Expect = 2.6e-15, P = 2.6e-15
 Identities = 45/126 (35%), Positives = 75/126 (59%)

Query:     3 QPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCS 62
             +P   L+ ++ R +I    L+G   +AI L   L  +LL+ N+ L+F L   H +EL+  
Sbjct:    78 EPNVDLDSLDERIKIREMVLKGQIQEAIALINSLHPELLDTNRYLYFHLQQQHLIELIRL 137

Query:    63 RKCTEALEFAQTKLTPFGKVQKY-VEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADN 121
             R+   ALEFAQ++L   G+  +  + ++E  +ALLA++ PE+SP   LL++  RQ V   
Sbjct:   138 RETEAALEFAQSQLAEQGEESRECLTEMERTLALLAFDNPEESPFGDLLNMMQRQKVWSE 197

Query:   122 LNRAIL 127
             +N+A+L
Sbjct:   198 VNQAVL 203

GO:0008150 "biological_process" evidence=ND

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=IEA

DICTYBASE|DDB_G0279265 DDB_G0279265 "UPF0559 protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 179 (68.1 bits), Expect = 7.9e-14, P = 7.9e-14
 Identities = 41/105 (39%), Positives = 61/105 (58%)

Query:    24 GNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQ 83
             G+  K IE+  +L  ++L+ N  L+F L     +EL+      EAL+FAQ +L P G+  
Sbjct:    81 GDVEKGIEIVNDLNPEILDTNPQLYFHLQQQKLIELIRKGMTAEALKFAQDELAPQGEEN 140

Query:    84 -KYVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADNLNRAIL 127
              K++E+LE  ++LL +E+  KSP+  LL    RQ  A  LN AIL
Sbjct:   141 NKFLEELEKTISLLVFEDTAKSPLSSLLDHSQRQKTAGELNSAIL 185

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=IEA

TAIR|locus:2008460 AT1G61150 "AT1G61150" [Arabidopsis thaliana (taxid:3702)]

 Score = 176 (67.0 bits), Expect = 1.6e-13, P = 1.6e-13
 Identities = 41/105 (39%), Positives = 60/105 (57%)

Query:    24 GNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKV- 82
             GN   AIE   +L  ++L+ N +L F L     +EL+   K  EALEFAQ +L P G+  
Sbjct:    92 GNVEDAIEKVNDLNPEILDTNPELFFHLQQQRLIELIRQGKTEEALEFAQEELAPRGEEN 151

Query:    83 QKYVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADNLNRAIL 127
             Q ++E+LE  +ALL +++    P+  LL L +R   A  +N AIL
Sbjct:   152 QAFLEELEKTVALLVFDDASTCPVKELLDLSHRLKTASEVNAAIL 196

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

ASPGD|ASPL0000064925 AN7501 [Emericella nidulans (taxid:162425)]

 Score = 155 (59.6 bits), Expect = 5.0e-11, P = 5.0e-11
 Identities = 48/129 (37%), Positives = 71/129 (55%)

Query:    10 DME-MRKRI-LHFAL-EGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELV--CSRK 64
             D+E +R+R+ +  A+  GN   AIE   EL   +L++N  LHF LL L  VEL+  CS  
Sbjct:    65 DVESIRERVEIRTAIYSGNIQAAIEKINELNPQILDENPSLHFSLLRLQLVELIRSCSVN 124

Query:    65 ----CTEALEFAQTKLTPFGKVQ-KYVEKLEDFMALLAYEEPEKSP-MFHLLSLEYRQHV 118
                  T ALEFA ++L P      +++E LE  +ALL Y +   +P +  LL  + R+ +
Sbjct:   125 PDGDITPALEFATSQLAPRAPTNPQFLEDLEKTLALLIYPKENLTPSLAPLLHSDLRRDI 184

Query:   119 ADNLNRAIL 127
                +N AIL
Sbjct:   185 YAKVNAAIL 193

GO:0008150 "biological_process" evidence=ND

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

TAIR|locus:2008683 RanBPM "AT1G35470" [Arabidopsis thaliana (taxid:3702)]

 Score = 138 (53.6 bits), Expect = 1.5e-08, P = 1.5e-08
 Identities = 36/118 (30%), Positives = 63/118 (53%)

Query:    11 MEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLH-FVELVCSRKCTEAL 69
             ++ RK +      G    A+   ++L   +++ +K +   LL    F+ELV   K  E +
Sbjct:   296 LKQRKNLRQLVRNGEIDTALAELQKLYPQIVQDDKSVVCFLLHCQKFIELVRVGKLEEGV 355

Query:    70 EFAQTKLTPFGKVQKYVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADNLNRAIL 127
              + + +L  F  +  + + +ED  ALLAYE+PE+S +++ L    R+ VAD +N AIL
Sbjct:   356 NYGRLELAKFVGLTGFQDIVEDCFALLAYEKPEESSVWYFLEDSQRELVADAVNAAIL 413

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0008150 "biological_process" evidence=ND

GO:0005737 "cytoplasm" evidence=IDA

---

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: GSVIVG00014529001 SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (215 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	129
pfam10607	144	pfam10607, CLTH, CTLH/CRA C-terminal to LisH motif	9e-26
smart00757	99	smart00757, CRA, CT11-RanBPM	8e-14
smart00668	58	smart00668, CTLH, C-terminal to LisH motif	1e-07

>gnl|CDD|220824 pfam10607, CLTH, CTLH/CRA C-terminal to LisH motif domain

 Score = 93.8 bits (234), Expect = 9e-26
 Identities = 42/121 (34%), Positives = 68/121 (56%), Gaps = 2/121 (1%)

Query: 10  DMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEAL 69
             + R +I    L G+  +A+E   E   +LL+ N +L F+L    F+EL+   K  EAL
Sbjct: 1   VFKERNKIRESLLNGDLEEALEWCNENKPELLKINSNLEFELRLQQFIELIREGKILEAL 60

Query: 70  EFAQTKLTPFGKVQKYVEKLEDFMALLAYEEPE-KSPMFHLLSLEYRQHVADNLNRAILG 128
           E+A+  L PF   ++++++++  M LLA+ +P   SP   LLS    + +A+  NRAIL 
Sbjct: 61  EYARENLAPFFN-EQHLKEIQKLMGLLAFPDPTDSSPYKSLLSPSRWEKLANEFNRAILK 119

Query: 129 L 129
           L
Sbjct: 120 L 120

RanBPM is a scaffolding protein and is important in regulating cellular function in both the immune system and the nervous system. This domain is at the C-terminus of the proteins and is the binding domain for the CRA motif (for CT11-RanBPM), which is comprised of approximately 100 amino acids at the C terminal of RanBPM. It was found to be important for the interaction of RanBPM with fragile X mental retardation protein (FMRP), but its functional significance has yet to be determined. This region contains CTLH and CRA domains annotated by SMART; however, these may be a single domain, and it is refereed to as a C-terminal to LisH motif. Length = 144

>gnl|CDD|214806 smart00757, CRA, CT11-RanBPM

 Score = 62.3 bits (152), Expect = 8e-14
 Identities = 33/69 (47%), Positives = 40/69 (57%), Gaps = 2/69 (2%)

Query: 63  RKCTEALEFAQTKLTPFGKVQKYVEK-LEDFMALLAYEEP-EKSPMFHLLSLEYRQHVAD 120
            K  EAL +A+  L PF K  +   K LE  MALLAY +P E SP   LLS   R+ +A+
Sbjct: 1   GKIEEALAYARELLAPFAKEHEKFLKELEKTMALLAYPDPTEPSPYKELLSPSQREKLAE 60

Query: 121 NLNRAILGL 129
            LN AIL L
Sbjct: 61  ELNSAILEL 69

protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi). Length = 99

>gnl|CDD|128914 smart00668, CTLH, C-terminal to LisH motif

 Score = 45.3 bits (108), Expect = 1e-07
 Identities = 22/54 (40%), Positives = 29/54 (53%)

Query: 14 RKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTE 67
          RKRI    L+G+  +A+E    L   LLE+N  L F+L    F+ELV   K  E
Sbjct: 5  RKRIRELILKGDWDEALEWLSSLKPPLLERNSKLEFELRKQKFLELVRQGKLEE 58

Alpha-helical motif of unknown function. Length = 58

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	129
KOG2659	228	consensus LisH motif-containing protein [Cytoskele	100.0
PF10607	145	CLTH: CTLH/CRA C-terminal to LisH motif domain; In	100.0
KOG0396	389	consensus Uncharacterized conserved protein [Funct	99.91
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	99.75
smart00757	99	CRA CT11-RanBPM. protein-protein interaction domai	99.7
smart00668	58	CTLH C-terminal to LisH motif. Alpha-helical motif	99.61
KOG1477	469	consensus SPRY domain-containing proteins [General	98.4
KOG0293	519	consensus WD40 repeat-containing protein [Function	97.32
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	90.63
PF04494	142	TFIID_90kDa: WD40 associated region in TFIID subun	88.46
cd08044	133	TAF5_NTD2 TAF5_NTD2 is the second conserved N-term	80.96

>KOG2659 consensus LisH motif-containing protein [Cytoskeleton]

Probab=100.00  E-value=9.7e-35  Score=215.58  Aligned_cols=127  Identities=43%  Similarity=0.614  Sum_probs=123.6

Q ss_pred             CCCcccHHhHHHHHHHHHHHHcCCHHHHHHHHHhhchHHHccCcccchhhHHHHHHHHHhcCChHHHHHHHHHhcCCcCC
Q 033011            2 KQPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGK   81 (129)
Q Consensus         2 ~~p~~d~~~~~~R~~I~~~I~~G~i~~Ai~~~~~~~p~ll~~~~~l~F~L~~q~fIELir~~~~~~Ai~~ar~~l~~~~~   81 (129)
                      .+|..|++++++|.+|+++|..|+|+.|++.+++++|.++++|.+|.|.|++|+||||||.|..++||+|||++++|++.
T Consensus        56 ~~~~~d~~~~~eR~~Ir~~I~~G~Ie~Aie~in~l~PeiLd~n~~l~F~Lq~q~lIEliR~~~~eeal~F~q~~LA~~a~  135 (228)
T KOG2659|consen   56 KPPSIDLDSMDERLQIRRAIEEGQIEEAIEKVNQLNPEILDTNRELFFHLQQLHLIELIREGKTEEALEFAQTKLAPFAE  135 (228)
T ss_pred             CCccCchhhHhHHHHHHHHHHhccHHHHHHHHHHhChHHHccchhHHHHHHHHHHHHHHHhhhHHHHHHHHHHHcccccc
Confidence            45689999999999999999999999999999999999999999999999999999999999999999999999999997


Q ss_pred             -chhHHHHHHHHHhHhccCCCCCCchhhhCCHHHHHHHHHHHHHHHhc
Q 033011           82 -VQKYVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADNLNRAILG  128 (129)
Q Consensus        82 -~~~~~~~l~~~~~lLay~~~~~sp~~~Ll~~~~r~~la~~vn~aiL~  128 (129)
                       ++.++++++++|++|+|++|..||+++|++.++|+++|+.||+|||.
T Consensus       136 e~~~~~~elE~~l~lLvf~~~~~sp~~~l~~~s~R~kvA~~vN~aiL~  183 (228)
T KOG2659|consen  136 ENPKKMEELERTLALLVFELSQESPSAELLSQSLRQKVASEVNSAILA  183 (228)
T ss_pred             ccHHHHHHHHHHHHHHHcCCcccCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence             77999999999999999999999999999999999999999999996

>PF10607 CLTH: CTLH/CRA C-terminal to LisH motif domain; InterPro: IPR019589 This entry represents the CRA (or CT11-RanBPM) domain, which is a protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi) and which is found in Ran-binding proteins such as Ran-binding protein 9 (RanBP9 or RanBPM) and RanBP10

Probab=100.00  E-value=1.9e-33  Score=196.90  Aligned_cols=117  Identities=39%  Similarity=0.642  Sum_probs=112.0

Q ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHhhchHHHccCcccchhhHHHHHHHHHhcCChHHHHHHHHHhcCCcCCchhHHHHH
Q 033011           10 DMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKL   89 (129)
Q Consensus        10 ~~~~R~~I~~~I~~G~i~~Ai~~~~~~~p~ll~~~~~l~F~L~~q~fIELir~~~~~~Ai~~ar~~l~~~~~~~~~~~~l   89 (129)
                      ++.+|+.|+++|++|++++|++|+++++|.+++.++.++|.|++|+|||||+.|++.+||+|||++++++.  ..+.+++
T Consensus         1 ~~~~r~~I~~~I~~g~i~~Ai~w~~~~~~~l~~~~~~L~f~L~~q~fiell~~~~~~~Ai~y~r~~l~~~~--~~~~~~l   78 (145)
T PF10607_consen    1 SFKERKKIRQAILNGDIDPAIEWLNENFPELLKRNSSLEFELRCQQFIELLREGDIMEAIEYARKHLSPFN--DEFLEEL   78 (145)
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHcCHHHHhcCCchhHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhhH--HHHHHHH
Confidence            47899999999999999999999999999999999999999999999999999999999999999997776  5799999


Q ss_pred             HHHHhHhccCCCCC---CchhhhCCHHHHHHHHHHHHHHHhc
Q 033011           90 EDFMALLAYEEPEK---SPMFHLLSLEYRQHVADNLNRAILG  128 (129)
Q Consensus        90 ~~~~~lLay~~~~~---sp~~~Ll~~~~r~~la~~vn~aiL~  128 (129)
                      +++|++|+|++|.+   +||++++++++|+.||+.||++|+.
T Consensus        79 ~~~~~lL~~~~~~~~~~s~~~~l~~~~~~~~la~~~~~~~l~  120 (145)
T PF10607_consen   79 KKLMSLLAYPDPEEPLPSPYKELLSPERREELAEEFNSAILK  120 (145)
T ss_pred             HHHHHHHHcCCcccccchHHHHHhChHHHHHHHHHHHHHHHH
Confidence            99999999999987   8999999999999999999999985

RanBPM is a scaffolding protein important in regulating cellular function in both the immune system and the nervous system, and may act as an adapter protein to couple membrane receptors to intracellular signaling pathways. This domain is at the C terminus of the proteins and is the binding domain for the CRA motif, which is comprised of approximately 100 amino acids at the C-terminal of RanBPM. It was found to be important for the interaction of RanBPM with fragile X mental retardation protein (FMRP), but its functional significance has yet to be determined [].

>KOG0396 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.91  E-value=7.2e-24  Score=165.61  Aligned_cols=121  Identities=22%  Similarity=0.284  Sum_probs=114.0

Q ss_pred             cccHHhHHHHHHHHHHHHcCCHHHHHHHHHhhchHHHccCcccchhhHHHHHHHHHhcCChHHHHHHHHHhcCCcCCchh
Q 033011            5 ANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQK   84 (129)
Q Consensus         5 ~~d~~~~~~R~~I~~~I~~G~i~~Ai~~~~~~~p~ll~~~~~l~F~L~~q~fIELir~~~~~~Ai~~ar~~l~~~~~~~~   84 (129)
                      -+|.+-++.-..|+++|+.|++.+|+.||++|.-.|.+.++.++|.++.|+|||||+.++..+||+|+|+||+|++  .+
T Consensus       147 lvD~Dv~~~~~~I~~sll~~~l~~~Lswc~ehk~~LkK~~S~lEf~lRlQefIELi~~~~~~~Ai~~akk~f~~~~--~~  224 (389)
T KOG0396|consen  147 LVDSDVYKRAYGIRDSLLAGELEPALSWCKEHKVELKKEESSLEFQLRLQEFIELIKVDNYDKAIAFAKKHFAPWA--KS  224 (389)
T ss_pred             hHhHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHhccchhhhHHHHHHHHHHHHhccHHHHHHHHHHHHhhhh--hh
Confidence            3788999999999999999999999999999999999999999999999999999999999999999999999999  79


Q ss_pred             HHHHHHHHHhHhccCC-CCCCchhhhCCHHHHHHHHHHHHHHHh
Q 033011           85 YVEKLEDFMALLAYEE-PEKSPMFHLLSLEYRQHVADNLNRAIL  127 (129)
Q Consensus        85 ~~~~l~~~~~lLay~~-~~~sp~~~Ll~~~~r~~la~~vn~aiL  127 (129)
                      +.++++.+||+|||+. ++.|+|..|++..||+.+++.|-+..+
T Consensus       225 ~~~~Lk~a~g~laF~~~t~~sky~~l~~~~rw~~l~~lF~s~a~  268 (389)
T KOG0396|consen  225 HKSDLKLAMGLLAFPKYTSSSKYLNLLTADRWSVLADLFLSEAL  268 (389)
T ss_pred             hHHHHHHHHHhhcCccccCcccccCcccHHHHHHHHHHhhHHHH
Confidence            9999999999999975 555789999999999999999877654

>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=99.75  E-value=9.8e-18  Score=132.40  Aligned_cols=116  Identities=30%  Similarity=0.448  Sum_probs=107.5

Q ss_pred             HHhHHHHHHHHHHHHcCCHHHHHHHHHhhchHHHccCcccchhhHHHHHHHHHhcCChH--HHHHHHHHhcCCcCCchhH
Q 033011            8 LEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCT--EALEFAQTKLTPFGKVQKY   85 (129)
Q Consensus         8 ~~~~~~R~~I~~~I~~G~i~~Ai~~~~~~~p~ll~~~~~l~F~L~~q~fIELir~~~~~--~Ai~~ar~~l~~~~~~~~~   85 (129)
                      ...+-+.++|.++|..||+++|++|+..+...|.+.++.|+|.|+.++|+++++.|.-.  +||.|||++++||+  ..+
T Consensus       153 ~~~F~el~~Iv~~lke~Dl~~aLeWa~~~~~~L~~~~s~LE~~Lh~l~fl~l~~~g~~~~~eAl~Yar~~~~~F~--~~~  230 (394)
T KOG2817|consen  153 RTEFVELNQIVEALKERDLEPALEWAESNRQKLKEKSSSLEFKLHSLHFLSLIRGGKSDQREALRYARTHFAPFV--ADH  230 (394)
T ss_pred             hhhHHHHHHHHHHHHhccchhHHHHHHHhhhhhccccccHHHHHHHHHHHHHHhcCCcCcHHHHHHHHHhcCccc--cch
Confidence            45577889999999999999999999999999999999999999999999999999766  99999999999999  667


Q ss_pred             HHHHHHHHhHhcc--CCCCCCchhhhCCHHHHHHHHHHHHHH
Q 033011           86 VEKLEDFMALLAY--EEPEKSPMFHLLSLEYRQHVADNLNRA  125 (129)
Q Consensus        86 ~~~l~~~~~lLay--~~~~~sp~~~Ll~~~~r~~la~~vn~a  125 (129)
                      ..+++..|++|.|  ...++|||.+.+++..|..++..|.+.
T Consensus       231 ~~eIQklm~sl~~l~~gl~~spy~~~ls~~~w~~~~~~f~r~  272 (394)
T KOG2817|consen  231 LREIQKLMGSLLYLRNGLEKSPYSEILSPKLWKELTEEFTRE  272 (394)
T ss_pred             HHHHHHHHHHHHHHHcCCCCCChHHHhCHHHHHHHHHHHHHH
Confidence            9999999999999  347899999999999999999998764

>smart00757 CRA CT11-RanBPM

Probab=99.70  E-value=4.1e-17  Score=107.14  Aligned_cols=66  Identities=48%  Similarity=0.715  Sum_probs=60.6

Q ss_pred             CChHHHHHHHHHhcCCcCC-chhHHHHHHHHHhHhccCCC-CCCchhhhCCHHHHHHHHHHHHHHHhc
Q 033011           63 RKCTEALEFAQTKLTPFGK-VQKYVEKLEDFMALLAYEEP-EKSPMFHLLSLEYRQHVADNLNRAILG  128 (129)
Q Consensus        63 ~~~~~Ai~~ar~~l~~~~~-~~~~~~~l~~~~~lLay~~~-~~sp~~~Ll~~~~r~~la~~vn~aiL~  128 (129)
                      +++.+||+|||+++++|.. ++.+.++++++||+|||++| +.|||++++++++|+.+|+.||++||.
T Consensus         1 ~~~~eAi~yar~~l~~~~~~~~~~~~el~~~m~llaf~~~~~~sp~~~ll~~~~~~~la~~~n~~~l~   68 (99)
T smart00757        1 GKIEEALAYARELLAPFAKEHEKFLKELEKTMALLAYPDPTEPSPYKELLSPSQREKLAEELNSAILE   68 (99)
T ss_pred             CcHHHHHHHHHHHHhhhcccCHHHHHHHHHHHHHHhcCCCCCCccHHHHCCHHHHHHHHHHHHHHHHH
Confidence            3578999999999999986 45558899999999999999 899999999999999999999999985

protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi)

>smart00668 CTLH C-terminal to LisH motif

Probab=99.61  E-value=1.6e-15  Score=90.60  Aligned_cols=55  Identities=38%  Similarity=0.534  Sum_probs=52.6

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHhhchHHHccCcccchhhHHHHHHHHHhcCCh
Q 033011           11 MEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKC   65 (129)
Q Consensus        11 ~~~R~~I~~~I~~G~i~~Ai~~~~~~~p~ll~~~~~l~F~L~~q~fIELir~~~~   65 (129)
                      +.+|..|+++|+.|+|++|++|+++++|.+.+.++.+.|.|++|+||||++.|+.
T Consensus         2 ~~~~~~i~~~i~~g~~~~a~~~~~~~~~~l~~~~~~l~f~L~~q~~lell~~~~~   56 (58)
T smart00668        2 FDERKRIRELILKGDWDEALEWLSSLKPPLLERNSKLEFELRKQKFLELVRQGKL   56 (58)
T ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHcCHHHhccCCCchhHHHHHHHHHHHHcCCc
Confidence            5689999999999999999999999999999999999999999999999998864

Alpha-helical motif of unknown function.

>KOG1477 consensus SPRY domain-containing proteins [General function prediction only]

Probab=98.40  E-value=6.3e-08  Score=79.69  Aligned_cols=106  Identities=25%  Similarity=0.134  Sum_probs=88.6

Q ss_pred             CCHHHHHHHHHhhchHHHc-------cCcccchhhHHHHHHHHHhcCChHHHHHHHHHhcCCcCC---chhHHHHHHHHH
Q 033011           24 GNALKAIELTEELAQDLLE-------KNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGK---VQKYVEKLEDFM   93 (129)
Q Consensus        24 G~i~~Ai~~~~~~~p~ll~-------~~~~l~F~L~~q~fIELir~~~~~~Ai~~ar~~l~~~~~---~~~~~~~l~~~~   93 (129)
                      |.+..+.+.+.+..+....       ..+...+.+.|+.+|++.+-|.+...+++.+.++++.-.   +.....+++.++
T Consensus       312 ~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~g~v~~e~~~~k~~l~~~~g~~~~~~~~~~~~~s~  391 (469)
T KOG1477|consen  312 GQFTRNGAYNAALIPTYRKVGQVFEVDYPQRGAKDPCGLHVNLGRAGFVFIEANAKKWELAKDYGIKKNSAAVGMLSDSS  391 (469)
T ss_pred             ceeechhhhcccccccccccceeecccccchhhccchhhhhhHHHHHHHHHHHHHHHHhhhhhhCcCccccccccccchH
Confidence            3334444444444444433       456788999999999999999999999999999988764   678889999999


Q ss_pred             hHhccCCCCCCchhhhCCHHHHHHHHHHHHHHHhcC
Q 033011           94 ALLAYEEPEKSPMFHLLSLEYRQHVADNLNRAILGL  129 (129)
Q Consensus        94 ~lLay~~~~~sp~~~Ll~~~~r~~la~~vn~aiL~~  129 (129)
                      +||+|.+|.+||..+++++.+|+.+|+.+|.+||.+
T Consensus       392 ~Llays~p~~s~~g~~~~~~~~e~v~~~~n~~il~t  427 (469)
T KOG1477|consen  392 SLLAYSDPEESPVGYLLDPIQREPVAEALNSAILET  427 (469)
T ss_pred             HHHHhcCcccCccccccCcccchhHHhhhccccccc
Confidence            999999999999999999999999999999999964

>KOG0293 consensus WD40 repeat-containing protein [Function unknown]

Probab=97.32  E-value=0.00079  Score=54.71  Aligned_cols=84  Identities=15%  Similarity=0.153  Sum_probs=67.9

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhh-chHHHccCcccchhhHHHHHHHHHhcCChHHHHHHHHHhcCCcCCchhHHHHHHH
Q 033011           13 MRKRILHFALEGNALKAIELTEEL-AQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLED   91 (129)
Q Consensus        13 ~R~~I~~~I~~G~i~~Ai~~~~~~-~p~ll~~~~~l~F~L~~q~fIELir~~~~~~Ai~~ar~~l~~~~~~~~~~~~l~~   91 (129)
                      +-+.+.++++.|+|+.++..+... ++. .+......|.+.+|.|+|..+.|++..|+...|..+.+..   ...+.+.+
T Consensus        52 t~klf~q~vlqg~w~q~v~~~~~i~~~d-e~~~~ea~fLv~kQ~fLEf~k~~~is~al~~l~~~~~~lr---~~~kk~~e  127 (519)
T KOG0293|consen   52 TTKLFDQQVLQGQWDQQVMSLVRISFED-ERNRKEAMFLVNKQIFLEFLKTGSISHALPVLRNPVLYLR---KNKKKFHE  127 (519)
T ss_pred             hHHHHHHHHHcccHHHHHHHHhhccCcc-hhhhHHHHHHHHHHHHHHHHhhccHhhhhHhhhcchhhhh---hhHHHHHH
Confidence            345678999999999999988877 555 4555779999999999999999999999999997676664   44556677


Q ss_pred             HHhHhccCC
Q 033011           92 FMALLAYEE  100 (129)
Q Consensus        92 ~~~lLay~~  100 (129)
                      +...|.+++
T Consensus       128 l~~sll~sn  136 (519)
T KOG0293|consen  128 LASSLLVSN  136 (519)
T ss_pred             HHHHHhccc
Confidence            777777764

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=90.63  E-value=1.7  Score=25.27  Aligned_cols=56  Identities=23%  Similarity=0.153  Sum_probs=35.3

Q ss_pred             HHHcCCHHHHHHHHHhhchHHHccCcccchhhHHHHHHHHHhcCChHHHHHHHHHhcCCcC
Q 033011           20 FALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFG   80 (129)
Q Consensus        20 ~I~~G~i~~Ai~~~~~~~p~ll~~~~~l~F~L~~q~fIELir~~~~~~Ai~~ar~~l~~~~   80 (129)
                      ++..|+++.|++.+++.... ...++.+.+    .--.=+++.|+.++|.....+.+....
T Consensus         1 ll~~~~~~~A~~~~~~~l~~-~p~~~~~~~----~la~~~~~~g~~~~A~~~l~~~~~~~~   56 (68)
T PF14559_consen    1 LLKQGDYDEAIELLEKALQR-NPDNPEARL----LLAQCYLKQGQYDEAEELLERLLKQDP   56 (68)
T ss_dssp             HHHTTHHHHHHHHHHHHHHH-TTTSHHHHH----HHHHHHHHTT-HHHHHHHHHCCHGGGT
T ss_pred             ChhccCHHHHHHHHHHHHHH-CCCCHHHHH----HHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            57899999999999876421 111223333    223335678999999999886555443

...

>PF04494 TFIID_90kDa: WD40 associated region in TFIID subunit; InterPro: IPR007582 This region, possibly a domain is found in subunits of transcription factor TFIID

Probab=88.46  E-value=1.5  Score=30.41  Aligned_cols=48  Identities=19%  Similarity=0.297  Sum_probs=38.1

Q ss_pred             cccchhhHHHHHHHHHhcCChHHHHHHHHHhcCCcCCchhHHHHHHHHHh
Q 033011           45 KDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMA   94 (129)
Q Consensus        45 ~~l~F~L~~q~fIELir~~~~~~Ai~~ar~~l~~~~~~~~~~~~l~~~~~   94 (129)
                      ..+.|=+.+.-|++||.+|...+|..|-.++-..+.  ..+.+.+++..+
T Consensus        38 ~~lLyPvFvh~YL~Lv~~~~~~~A~~F~~kf~~~~~--~~~~~~i~~L~~   85 (142)
T PF04494_consen   38 SRLLYPVFVHSYLDLVSKGHPEEAKSFLEKFSPDFE--DSHQEDIEKLSS   85 (142)
T ss_dssp             GGGHHHHHHHHHHHHHHTT-HHHHHHHHHHHGGGGH--GHGHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHh--HHHHHHHHHHHh
Confidence            457899999999999999999999999998777766  556666666654

The function of this region is unknown.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 2J4B_D 2J49_A 2NXP_F.

>cd08044 TAF5_NTD2 TAF5_NTD2 is the second conserved N-terminal region of TATA Binding Protein (TBP) Associated Factor 5 (TAF5), involved in forming Transcription Factor IID (TFIID)

Probab=80.96  E-value=3.4  Score=28.34  Aligned_cols=50  Identities=18%  Similarity=0.310  Sum_probs=38.7

Q ss_pred             ccchhhHHHHHHHHHhcCChHHHHHHHHHhcCCcCCchhHHHHHHHHHhHhc
Q 033011           46 DLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALLA   97 (129)
Q Consensus        46 ~l~F~L~~q~fIELir~~~~~~Ai~~ar~~l~~~~~~~~~~~~l~~~~~lLa   97 (129)
                      .+.|=+.+--|++||.+|...+|..|-.+.-..+.  +.+.+.++...++.-
T Consensus        28 ~lLyPiFvh~yL~lv~~~~~~~A~~F~~~f~~~~~--~~~~~~i~~L~~i~~   77 (133)
T cd08044          28 QLLYPIFVHSYLDLVASGHLEEAKSFFERFSGDFE--DSHSEDIKKLSSITT   77 (133)
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhHhhH--HHHHHHHHHHHccCC
Confidence            37788889999999999999999999987666554  566666766655443

The TATA Binding Protein (TBP) Associated Factor 5 (TAF5) is one of several TAFs that bind TBP and are involved in forming Transcription Factor IID (TFIID) complex. TAF5 contains three domains, two conserved sequence motifs at the N-terminal and one at the C-terminal region. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the preinitiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. In yeast and human cells, TAFs have been found as components of other complexes besides TFIID. TAF5 may play a major role in forming TFIID and its related complexes. TAFs from various

---

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	129
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-04

>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 = 38.7 bits (89), Expect = 2e-04
 Identities = 20/140 (14%), Positives = 46/140 (32%), Gaps = 32/140 (22%)

Query: 6   NCLEDMEMRKRILHFAL--EG-----NALKAI--ELTEELAQDLLEK-------NKDLHF 49
           N LE  E RK     ++           L  I  ++ +     ++ K        K    
Sbjct: 364 NVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKE 423

Query: 50  DLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMAL---------LAY-- 98
             +S+  + L    K        ++ +  +   + +    +D +           + +  
Sbjct: 424 STISIPSIYLELKVKLENEYALHRSIVDHYNIPKTF--DSDDLIPPYLDQYFYSHIGHHL 481

Query: 99  ---EEPEKSPMFHLLSLEYR 115
              E PE+  +F ++ L++R
Sbjct: 482 KNIEHPERMTLFRMVFLDFR 501

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	129
2nxp_A	156	Transcription initiation factor TFIID subunit 5; t	91.18
2j4b_A	138	TAF5, transcription initiation factor TFIID subuni	86.21
2j49_A	148	Transcription initiation factor TFIID subunit 5; n	80.33

>2nxp_A Transcription initiation factor TFIID subunit 5; transcription factor, TAF5; 2.17A {Homo sapiens} SCOP: d.379.1.1

Probab=91.18  E-value=0.34  Score=33.37  Aligned_cols=74  Identities=18%  Similarity=0.130  Sum_probs=51.1

Q ss_pred             HHHHHhhchHHHccCcccchhhHHHHHHHHHhcCChHHHHHHHHHhcCCcCCchhHHHHHHHHHhHhccCCCCCCc
Q 033011           30 IELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALLAYEEPEKSP  105 (129)
Q Consensus        30 i~~~~~~~p~ll~~~~~l~F~L~~q~fIELir~~~~~~Ai~~ar~~l~~~~~~~~~~~~l~~~~~lLay~~~~~sp  105 (129)
                      .+|++..-......=..+.|=+-+.-|++||.+|...+|-.|-.++-+.+.  ..+.+.++...++.--....+.+
T Consensus        35 ~~wv~~sld~yk~EL~~lLyPlFvh~yL~Lv~~g~~~~A~~F~~~f~~~~~--~~~~~~i~~L~~i~~~~~l~~n~  108 (156)
T 2nxp_A           35 KHFIECSLDCHRAELSQLFYPLFVHMYLELVYNQHENEAKSFFEKFHGDQE--CYYQDDLRVLSSLTKKEHMKGNE  108 (156)
T ss_dssp             HHHHHTSCHHHHHHHGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGSC--GGGHHHHHHHHTCCSHHHHTTCG
T ss_pred             HHHHHhCcHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHhHHhH--HHHHHHHHHHhcCCCHHHHhhcH
Confidence            456655332222223567899999999999999999999999997776665  67777777776655433333333

>2j4b_A TAF5, transcription initiation factor TFIID subunit 72/ kDa; WD repeat; 2.5A {Encephalitozoon cuniculi} SCOP: d.379.1.1

Probab=86.21  E-value=1.5  Score=29.44  Aligned_cols=63  Identities=19%  Similarity=0.211  Sum_probs=41.8

Q ss_pred             HHHHHhhchHHHccCcccchhhHHHHHHHHHhcCChHHHHHHHHHhcCCcCCchhHHHHHHHHHhH
Q 033011           30 IELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMAL   95 (129)
Q Consensus        30 i~~~~~~~p~ll~~~~~l~F~L~~q~fIELir~~~~~~Ai~~ar~~l~~~~~~~~~~~~l~~~~~l   95 (129)
                      .+|++..-......=..+.|=+-+.-|++||.+|...+|-.|-.++-+.+.  .. .+.++...++
T Consensus        16 ~~wv~~sld~yk~EL~~lLyPlFvh~yL~Lv~~g~~~~A~~F~~~f~~~~~--~~-~~~i~~L~~i   78 (138)
T 2j4b_A           16 KTWIEDSLDLFKNDLLPLLYPLFIHIYFDLIQQNKTDEAKEFFEKYRGDHY--NK-SEEIKQFESI   78 (138)
T ss_dssp             HHHHHHSCHHHHHHHGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC----C-HHHHHHHTTC
T ss_pred             HHHHHhCcHhhHHHHHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHhHHHh--hH-HHHHHHHhcC
Confidence            456655322222222467899999999999999999999999987666554  33 5555555443

>2j49_A Transcription initiation factor TFIID subunit 5; nuclear protein, transcription regulation, TA TFIID, WD repeat; 2.3A {Saccharomyces cerevisiae} SCOP: d.379.1.1

Probab=80.33  E-value=0.96  Score=30.90  Aligned_cols=46  Identities=13%  Similarity=0.175  Sum_probs=35.5

Q ss_pred             ccchhhHHHHHHHHHhcCChHHHHHHHHHhcCCcCCchhHHHHHHHHHh
Q 033011           46 DLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMA   94 (129)
Q Consensus        46 ~l~F~L~~q~fIELir~~~~~~Ai~~ar~~l~~~~~~~~~~~~l~~~~~   94 (129)
                      .+.|=+-+.-|++||.+| ..+|-.|-.++-..+.  ..+.+.++...+
T Consensus        34 ~lLyPlFvh~yL~Lv~~g-~~~A~~F~~~f~~~~~--~~~~~~i~~L~~   79 (148)
T 2j49_A           34 YIMYPIFIYLFLNLVAKN-PVYARRFFDRFSPDFK--DFHGSEINRLFS   79 (148)
T ss_dssp             HHHHHHHHHHHHHHHHHC-HHHHHHHHHHHGGGGH--HHHHHHHHTTTT
T ss_pred             HHHHHHHHHHHHHHHHcC-HHHHHHHHHHHhHHhH--HHHHHHHHHHhc
Confidence            468889999999999999 9999999887666554  455555555544

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	129
d2nxpa1	149	TAF5 subunit of TFIID {Human (Homo sapiens) [TaxId	89.02
d2j4ba1	131	TAF5 subunit of TFIID {Encephalitozoon cuniculi [T	81.7

>d2nxpa1 d.379.1.1 (A:195-343) TAF5 subunit of TFIID {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Taf5 N-terminal domain-like
superfamily: Taf5 N-terminal domain-like
family: Taf5 N-terminal domain-like
domain: TAF5 subunit of TFIID
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.02  E-value=0.3  Score=31.81  Aligned_cols=66  Identities=18%  Similarity=0.146  Sum_probs=47.7

Q ss_pred             HHHHhhchHHHccCcccchhhHHHHHHHHHhcCChHHHHHHHHHhcCCcCCchhHHHHHHHHHhHhcc
Q 033011           31 ELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALLAY   98 (129)
Q Consensus        31 ~~~~~~~p~ll~~~~~l~F~L~~q~fIELir~~~~~~Ai~~ar~~l~~~~~~~~~~~~l~~~~~lLay   98 (129)
                      .|+...-......=..+.|=+.+--|++||.+|+..+|..|-.+.-..+.  ..+.+.+++..++---
T Consensus        29 ~wv~~sld~yK~EL~~lLyPvFvh~yL~Lv~~~~~~~A~~F~~kf~~~~~--~~~~~~I~~L~~i~~~   94 (149)
T d2nxpa1          29 HFIECSLDCHRAELSQLFYPLFVHMYLELVYNQHENEAKSFFEKFHGDQE--CYYQDDLRVLSSLTKK   94 (149)
T ss_dssp             HHHHTSCHHHHHHHGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGSC--GGGHHHHHHHHTCCSH
T ss_pred             HHHHhCcHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhchhhh--HHHHHHHHHHHcCCCH
Confidence            35544333333233567888999999999999999999999997766655  6777788887766443

>d2j4ba1 d.379.1.1 (A:18-148) TAF5 subunit of TFIID {Encephalitozoon cuniculi [TaxId: 6035]}

class: Alpha and beta proteins (a+b)
fold: Taf5 N-terminal domain-like
superfamily: Taf5 N-terminal domain-like
family: Taf5 N-terminal domain-like
domain: TAF5 subunit of TFIID
species: Encephalitozoon cuniculi [TaxId: 6035]

Probab=81.70  E-value=1.3  Score=27.85  Aligned_cols=62  Identities=18%  Similarity=0.198  Sum_probs=41.7

Q ss_pred             HHHHhhchHHHccCcccchhhHHHHHHHHHhcCChHHHHHHHHHhcCCcCCchhHHHHHHHHHhH
Q 033011           31 ELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMAL   95 (129)
Q Consensus        31 ~~~~~~~p~ll~~~~~l~F~L~~q~fIELir~~~~~~Ai~~ar~~l~~~~~~~~~~~~l~~~~~l   95 (129)
                      .|+...-..-...=..+.|=+.+--|++||.+|...+|..|-.+.-..+.   .+.++++...++
T Consensus        11 ~wv~~sld~yK~EL~~lLyPvFvh~yL~Lv~~~~~~~A~~F~~kf~~d~~---~~~~~i~~L~~i   72 (131)
T d2j4ba1          11 TWIEDSLDLFKNDLLPLLYPLFIHIYFDLIQQNKTDEAKEFFEKYRGDHY---NKSEEIKQFESI   72 (131)
T ss_dssp             HHHHHSCHHHHHHHGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-----CHHHHHHHTTC
T ss_pred             HHHHhCcHhhHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHccchHH---HHHHHHHHHHcc
Confidence            45555333333233567888999999999999999999999997655442   345566665553